-- dump date 20140620_013516 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1042876000001 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1042876000002 ParB-like nuclease domain; Region: ParBc; pfam02195 1042876000003 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1042876000004 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 1042876000005 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 1042876000006 Magnesium ion binding site [ion binding]; other site 1042876000007 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1042876000008 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876000009 S-adenosylmethionine binding site [chemical binding]; other site 1042876000010 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1042876000011 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1042876000012 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1042876000013 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1042876000014 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1042876000015 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1042876000016 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1042876000017 G1 box; other site 1042876000018 GTP/Mg2+ binding site [chemical binding]; other site 1042876000019 Switch I region; other site 1042876000020 G2 box; other site 1042876000021 Switch II region; other site 1042876000022 G3 box; other site 1042876000023 G4 box; other site 1042876000024 G5 box; other site 1042876000025 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1042876000026 membrane protein insertase; Provisional; Region: PRK01318 1042876000027 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1042876000028 ribonuclease P; Reviewed; Region: rnpA; PRK00396 1042876000029 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1042876000030 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1042876000031 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876000032 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876000033 Walker A motif; other site 1042876000034 ATP binding site [chemical binding]; other site 1042876000035 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042876000036 Walker B motif; other site 1042876000037 arginine finger; other site 1042876000038 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 1042876000039 DnaA box-binding interface [nucleotide binding]; other site 1042876000040 DNA polymerase III subunit beta; Validated; Region: PRK05643 1042876000041 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 1042876000042 putative DNA binding surface [nucleotide binding]; other site 1042876000043 dimer interface [polypeptide binding]; other site 1042876000044 beta-clamp/clamp loader binding surface; other site 1042876000045 beta-clamp/translesion DNA polymerase binding surface; other site 1042876000046 recombination protein F; Reviewed; Region: recF; PRK00064 1042876000047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876000048 Walker A/P-loop; other site 1042876000049 ATP binding site [chemical binding]; other site 1042876000050 Q-loop/lid; other site 1042876000051 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876000052 ABC transporter signature motif; other site 1042876000053 Walker B; other site 1042876000054 D-loop; other site 1042876000055 H-loop/switch region; other site 1042876000056 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1042876000057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876000058 Mg2+ binding site [ion binding]; other site 1042876000059 G-X-G motif; other site 1042876000060 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 1042876000061 anchoring element; other site 1042876000062 dimer interface [polypeptide binding]; other site 1042876000063 ATP binding site [chemical binding]; other site 1042876000064 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 1042876000065 active site 1042876000066 putative metal-binding site [ion binding]; other site 1042876000067 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042876000068 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1042876000069 PAS fold; Region: PAS_4; pfam08448 1042876000070 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876000071 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876000072 Walker A motif; other site 1042876000073 ATP binding site [chemical binding]; other site 1042876000074 Walker B motif; other site 1042876000075 arginine finger; other site 1042876000076 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876000077 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042876000078 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1042876000079 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876000080 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876000081 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876000082 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 1042876000083 dimerization interface [polypeptide binding]; other site 1042876000084 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042876000085 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042876000086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876000087 putative substrate translocation pore; other site 1042876000088 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876000089 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042876000090 putative acyl-acceptor binding pocket; other site 1042876000091 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1042876000092 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 1042876000093 active site 1042876000094 motif I; other site 1042876000095 motif II; other site 1042876000096 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1042876000097 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1042876000098 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 1042876000099 dimer interface [polypeptide binding]; other site 1042876000100 motif 1; other site 1042876000101 active site 1042876000102 motif 2; other site 1042876000103 motif 3; other site 1042876000104 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1042876000105 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1042876000106 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1042876000107 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042876000108 putative acyl-acceptor binding pocket; other site 1042876000109 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 1042876000110 TPR motif; other site 1042876000111 TPR repeat; Region: TPR_11; pfam13414 1042876000112 binding surface 1042876000113 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1042876000114 TrkA-N domain; Region: TrkA_N; pfam02254 1042876000115 TrkA-C domain; Region: TrkA_C; pfam02080 1042876000116 TrkA-N domain; Region: TrkA_N; pfam02254 1042876000117 TrkA-C domain; Region: TrkA_C; pfam02080 1042876000118 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1042876000119 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 1042876000120 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876000121 S-adenosylmethionine binding site [chemical binding]; other site 1042876000122 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1042876000123 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1042876000124 putative active site [active] 1042876000125 substrate binding site [chemical binding]; other site 1042876000126 putative cosubstrate binding site; other site 1042876000127 catalytic site [active] 1042876000128 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1042876000129 substrate binding site [chemical binding]; other site 1042876000130 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 1042876000131 active site 1042876000132 catalytic residues [active] 1042876000133 metal binding site [ion binding]; metal-binding site 1042876000134 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1042876000135 DNA protecting protein DprA; Region: dprA; TIGR00732 1042876000136 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1042876000137 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042876000138 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042876000139 NADP binding site [chemical binding]; other site 1042876000140 dimer interface [polypeptide binding]; other site 1042876000141 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1042876000142 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1042876000143 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1042876000144 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042876000145 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042876000146 shikimate binding site; other site 1042876000147 NAD(P) binding site [chemical binding]; other site 1042876000148 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042876000149 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042876000150 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042876000151 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 1042876000152 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1042876000153 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1042876000154 Sulfatase; Region: Sulfatase; cl17466 1042876000155 choline-sulfatase; Region: chol_sulfatase; TIGR03417 1042876000156 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 1042876000157 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1042876000158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876000159 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 1042876000160 dimerization interface [polypeptide binding]; other site 1042876000161 substrate binding pocket [chemical binding]; other site 1042876000162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876000163 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1042876000164 NAD(P) binding site [chemical binding]; other site 1042876000165 active site 1042876000166 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 1042876000167 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1042876000168 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 1042876000169 substrate binding site [chemical binding]; other site 1042876000170 active site 1042876000171 catalytic residues [active] 1042876000172 heterodimer interface [polypeptide binding]; other site 1042876000173 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1042876000174 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 1042876000175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876000176 catalytic residue [active] 1042876000177 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876000178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876000179 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 1042876000180 dimerization interface [polypeptide binding]; other site 1042876000181 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1042876000182 Dodecin; Region: Dodecin; pfam07311 1042876000183 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1042876000184 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1042876000185 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042876000186 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1042876000187 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1042876000188 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1042876000189 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1042876000190 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042876000191 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 1042876000192 active site 1042876000193 motif I; other site 1042876000194 motif II; other site 1042876000195 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1042876000196 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 1042876000197 trimer interface [polypeptide binding]; other site 1042876000198 putative metal binding site [ion binding]; other site 1042876000199 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1042876000200 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1042876000201 active site 1042876000202 Zn binding site [ion binding]; other site 1042876000203 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1042876000204 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1042876000205 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1042876000206 Zn binding site [ion binding]; other site 1042876000207 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1042876000208 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 1042876000209 FeS/SAM binding site; other site 1042876000210 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 1042876000211 active site clefts [active] 1042876000212 zinc binding site [ion binding]; other site 1042876000213 dimer interface [polypeptide binding]; other site 1042876000214 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042876000215 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042876000216 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042876000217 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 1042876000218 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1042876000219 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1042876000220 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042876000221 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876000222 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876000223 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042876000224 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 1042876000225 Subunit I/III interface [polypeptide binding]; other site 1042876000226 D-pathway; other site 1042876000227 Subunit I/VIIc interface [polypeptide binding]; other site 1042876000228 Subunit I/IV interface [polypeptide binding]; other site 1042876000229 Subunit I/II interface [polypeptide binding]; other site 1042876000230 Low-spin heme (heme a) binding site [chemical binding]; other site 1042876000231 Subunit I/VIIa interface [polypeptide binding]; other site 1042876000232 Subunit I/VIa interface [polypeptide binding]; other site 1042876000233 Dimer interface; other site 1042876000234 Putative water exit pathway; other site 1042876000235 Binuclear center (heme a3/CuB) [ion binding]; other site 1042876000236 K-pathway; other site 1042876000237 Subunit I/Vb interface [polypeptide binding]; other site 1042876000238 Putative proton exit pathway; other site 1042876000239 Subunit I/VIb interface; other site 1042876000240 Subunit I/VIc interface [polypeptide binding]; other site 1042876000241 Electron transfer pathway; other site 1042876000242 Subunit I/VIIIb interface [polypeptide binding]; other site 1042876000243 Subunit I/VIIb interface [polypeptide binding]; other site 1042876000244 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1042876000245 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 1042876000246 Subunit III/VIIa interface [polypeptide binding]; other site 1042876000247 Phospholipid binding site [chemical binding]; other site 1042876000248 Subunit I/III interface [polypeptide binding]; other site 1042876000249 Subunit III/VIb interface [polypeptide binding]; other site 1042876000250 Subunit III/VIa interface; other site 1042876000251 Subunit III/Vb interface [polypeptide binding]; other site 1042876000252 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1042876000253 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 1042876000254 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1042876000255 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1042876000256 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1042876000257 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042876000258 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 1042876000259 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876000260 Cu(I) binding site [ion binding]; other site 1042876000261 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1042876000262 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042876000263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000264 dimer interface [polypeptide binding]; other site 1042876000265 conserved gate region; other site 1042876000266 ABC-ATPase subunit interface; other site 1042876000267 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1042876000268 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1042876000269 Walker A/P-loop; other site 1042876000270 ATP binding site [chemical binding]; other site 1042876000271 Q-loop/lid; other site 1042876000272 ABC transporter signature motif; other site 1042876000273 Walker B; other site 1042876000274 D-loop; other site 1042876000275 H-loop/switch region; other site 1042876000276 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 1042876000277 hydroperoxidase II; Provisional; Region: katE; PRK11249 1042876000278 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1042876000279 tetramer interface [polypeptide binding]; other site 1042876000280 heme binding pocket [chemical binding]; other site 1042876000281 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1042876000282 domain interactions; other site 1042876000283 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1042876000284 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 1042876000285 ABC-ATPase subunit interface; other site 1042876000286 dimer interface [polypeptide binding]; other site 1042876000287 putative PBP binding regions; other site 1042876000288 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1042876000289 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1042876000290 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042876000291 metal binding site 2 [ion binding]; metal-binding site 1042876000292 putative DNA binding helix; other site 1042876000293 metal binding site 1 [ion binding]; metal-binding site 1042876000294 dimer interface [polypeptide binding]; other site 1042876000295 structural Zn2+ binding site [ion binding]; other site 1042876000296 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 1042876000297 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1042876000298 metal binding site [ion binding]; metal-binding site 1042876000299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876000300 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876000301 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876000302 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1042876000303 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 1042876000304 putative active site [active] 1042876000305 putative substrate binding site [chemical binding]; other site 1042876000306 ATP binding site [chemical binding]; other site 1042876000307 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1042876000308 DNA polymerase I; Provisional; Region: PRK05755 1042876000309 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1042876000310 active site 1042876000311 metal binding site 1 [ion binding]; metal-binding site 1042876000312 putative 5' ssDNA interaction site; other site 1042876000313 metal binding site 3; metal-binding site 1042876000314 metal binding site 2 [ion binding]; metal-binding site 1042876000315 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1042876000316 putative DNA binding site [nucleotide binding]; other site 1042876000317 putative metal binding site [ion binding]; other site 1042876000318 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 1042876000319 active site 1042876000320 catalytic site [active] 1042876000321 substrate binding site [chemical binding]; other site 1042876000322 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1042876000323 active site 1042876000324 DNA binding site [nucleotide binding] 1042876000325 catalytic site [active] 1042876000326 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1042876000327 G1 box; other site 1042876000328 GTP/Mg2+ binding site [chemical binding]; other site 1042876000329 Switch I region; other site 1042876000330 G2 box; other site 1042876000331 G3 box; other site 1042876000332 Switch II region; other site 1042876000333 G4 box; other site 1042876000334 G5 box; other site 1042876000335 Cytochrome c; Region: Cytochrom_C; cl11414 1042876000336 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1042876000337 Cytochrome c; Region: Cytochrom_C; cl11414 1042876000338 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 1042876000339 catalytic residues [active] 1042876000340 hinge region; other site 1042876000341 alpha helical domain; other site 1042876000342 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1042876000343 putative catalytic site [active] 1042876000344 putative metal binding site [ion binding]; other site 1042876000345 putative phosphate binding site [ion binding]; other site 1042876000346 putative catalytic site [active] 1042876000347 putative phosphate binding site [ion binding]; other site 1042876000348 putative metal binding site [ion binding]; other site 1042876000349 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876000350 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876000351 metal binding site [ion binding]; metal-binding site 1042876000352 active site 1042876000353 I-site; other site 1042876000354 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1042876000355 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 1042876000356 amidase catalytic site [active] 1042876000357 Zn binding residues [ion binding]; other site 1042876000358 substrate binding site [chemical binding]; other site 1042876000359 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042876000360 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1042876000361 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1042876000362 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 1042876000363 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 1042876000364 dimerization interface [polypeptide binding]; other site 1042876000365 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 1042876000366 dimer interface [polypeptide binding]; other site 1042876000367 phosphorylation site [posttranslational modification] 1042876000368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876000369 ATP binding site [chemical binding]; other site 1042876000370 Mg2+ binding site [ion binding]; other site 1042876000371 G-X-G motif; other site 1042876000372 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876000373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000374 active site 1042876000375 phosphorylation site [posttranslational modification] 1042876000376 intermolecular recognition site; other site 1042876000377 dimerization interface [polypeptide binding]; other site 1042876000378 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876000379 Walker A motif; other site 1042876000380 ATP binding site [chemical binding]; other site 1042876000381 Walker B motif; other site 1042876000382 arginine finger; other site 1042876000383 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876000384 BON domain; Region: BON; pfam04972 1042876000385 BON domain; Region: BON; pfam04972 1042876000386 BON domain; Region: BON; pfam04972 1042876000387 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1042876000388 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1042876000389 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876000390 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1042876000391 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1042876000392 Protein of unknown function (DUF330); Region: DUF330; cl01135 1042876000393 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1042876000394 mce related protein; Region: MCE; pfam02470 1042876000395 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1042876000396 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876000397 Walker A/P-loop; other site 1042876000398 ATP binding site [chemical binding]; other site 1042876000399 Q-loop/lid; other site 1042876000400 ABC transporter signature motif; other site 1042876000401 Walker B; other site 1042876000402 D-loop; other site 1042876000403 H-loop/switch region; other site 1042876000404 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1042876000405 Permease; Region: Permease; pfam02405 1042876000406 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1042876000407 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042876000408 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042876000409 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876000410 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1042876000411 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042876000412 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1042876000413 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1042876000414 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 1042876000415 Citrate transporter; Region: CitMHS; pfam03600 1042876000416 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1042876000417 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1042876000418 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1042876000419 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1042876000420 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1042876000421 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1042876000422 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1042876000423 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042876000424 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1042876000425 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1042876000426 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1042876000427 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1042876000428 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1042876000429 ligand binding site [chemical binding]; other site 1042876000430 homodimer interface [polypeptide binding]; other site 1042876000431 NAD(P) binding site [chemical binding]; other site 1042876000432 trimer interface B [polypeptide binding]; other site 1042876000433 trimer interface A [polypeptide binding]; other site 1042876000434 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876000435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876000436 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 1042876000437 dimerization interface [polypeptide binding]; other site 1042876000438 substrate binding pocket [chemical binding]; other site 1042876000439 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1042876000440 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876000441 FAD binding site [chemical binding]; other site 1042876000442 substrate binding pocket [chemical binding]; other site 1042876000443 catalytic base [active] 1042876000444 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042876000445 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042876000446 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876000447 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1042876000448 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 1042876000449 N-terminal plug; other site 1042876000450 ligand-binding site [chemical binding]; other site 1042876000451 fec operon regulator FecR; Reviewed; Region: PRK09774 1042876000452 FecR protein; Region: FecR; pfam04773 1042876000453 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1042876000454 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876000455 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 1042876000456 DNA binding residues [nucleotide binding] 1042876000457 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876000458 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876000459 DNA-binding site [nucleotide binding]; DNA binding site 1042876000460 FCD domain; Region: FCD; pfam07729 1042876000461 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1042876000462 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1042876000463 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 1042876000464 dimerization interface [polypeptide binding]; other site 1042876000465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876000466 metal binding site [ion binding]; metal-binding site 1042876000467 active site 1042876000468 I-site; other site 1042876000469 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 1042876000470 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876000471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876000472 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876000473 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042876000474 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 1042876000475 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876000476 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 1042876000477 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 1042876000478 putative active site [active] 1042876000479 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876000480 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 1042876000481 Walker A/P-loop; other site 1042876000482 ATP binding site [chemical binding]; other site 1042876000483 Q-loop/lid; other site 1042876000484 ABC transporter signature motif; other site 1042876000485 Walker B; other site 1042876000486 D-loop; other site 1042876000487 H-loop/switch region; other site 1042876000488 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876000489 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876000490 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042876000491 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876000492 putative active site [active] 1042876000493 putative NTP binding site [chemical binding]; other site 1042876000494 putative nucleic acid binding site [nucleotide binding]; other site 1042876000495 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042876000496 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042876000497 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876000498 Calx-beta domain; Region: Calx-beta; cl02522 1042876000499 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 1042876000500 metal ion-dependent adhesion site (MIDAS); other site 1042876000501 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 1042876000502 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042876000503 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 1042876000504 NMT1-like family; Region: NMT1_2; pfam13379 1042876000505 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042876000506 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042876000507 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042876000508 Walker A/P-loop; other site 1042876000509 ATP binding site [chemical binding]; other site 1042876000510 Q-loop/lid; other site 1042876000511 ABC transporter signature motif; other site 1042876000512 Walker B; other site 1042876000513 D-loop; other site 1042876000514 H-loop/switch region; other site 1042876000515 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876000516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000517 dimer interface [polypeptide binding]; other site 1042876000518 conserved gate region; other site 1042876000519 putative PBP binding loops; other site 1042876000520 ABC-ATPase subunit interface; other site 1042876000521 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1042876000522 WYL domain; Region: WYL; pfam13280 1042876000523 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1042876000524 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042876000525 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1042876000526 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042876000527 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042876000528 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042876000529 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042876000530 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876000531 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876000532 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042876000533 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876000534 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876000535 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876000536 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1042876000537 TIGR02647 family protein; Region: DNA 1042876000538 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876000539 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 1042876000540 C-terminal domain interface [polypeptide binding]; other site 1042876000541 GSH binding site (G-site) [chemical binding]; other site 1042876000542 dimer interface [polypeptide binding]; other site 1042876000543 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042876000544 N-terminal domain interface [polypeptide binding]; other site 1042876000545 argininosuccinate lyase; Provisional; Region: PRK00855 1042876000546 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1042876000547 active sites [active] 1042876000548 tetramer interface [polypeptide binding]; other site 1042876000549 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1042876000550 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000551 active site 1042876000552 phosphorylation site [posttranslational modification] 1042876000553 intermolecular recognition site; other site 1042876000554 dimerization interface [polypeptide binding]; other site 1042876000555 LytTr DNA-binding domain; Region: LytTR; pfam04397 1042876000556 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1042876000557 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 1042876000558 domain interfaces; other site 1042876000559 active site 1042876000560 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1042876000561 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 1042876000562 active site 1042876000563 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1042876000564 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1042876000565 HemY protein N-terminus; Region: HemY_N; pfam07219 1042876000566 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1042876000567 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 1042876000568 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042876000569 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1042876000570 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876000571 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1042876000572 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1042876000573 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876000574 Walker A/P-loop; other site 1042876000575 ATP binding site [chemical binding]; other site 1042876000576 Q-loop/lid; other site 1042876000577 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876000578 ABC transporter signature motif; other site 1042876000579 Walker B; other site 1042876000580 D-loop; other site 1042876000581 ABC transporter; Region: ABC_tran_2; pfam12848 1042876000582 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876000583 LysE type translocator; Region: LysE; cl00565 1042876000584 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1042876000585 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 1042876000586 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1042876000587 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1042876000588 dimer interface [polypeptide binding]; other site 1042876000589 active site residues [active] 1042876000590 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1042876000591 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 1042876000592 putative deacylase active site [active] 1042876000593 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1042876000594 FOG: CBS domain [General function prediction only]; Region: COG0517 1042876000595 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 1042876000596 HTH-like domain; Region: HTH_21; pfam13276 1042876000597 Integrase core domain; Region: rve; pfam00665 1042876000598 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1042876000599 Integrase core domain; Region: rve_3; pfam13683 1042876000600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876000601 Transposase; Region: HTH_Tnp_1; pfam01527 1042876000602 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 1042876000603 metal ion-dependent adhesion site (MIDAS); other site 1042876000604 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 1042876000605 metal ion-dependent adhesion site (MIDAS); other site 1042876000606 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1042876000607 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042876000608 FtsX-like permease family; Region: FtsX; pfam02687 1042876000609 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042876000610 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876000611 Walker A/P-loop; other site 1042876000612 ATP binding site [chemical binding]; other site 1042876000613 Q-loop/lid; other site 1042876000614 ABC transporter signature motif; other site 1042876000615 Walker B; other site 1042876000616 D-loop; other site 1042876000617 H-loop/switch region; other site 1042876000618 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 1042876000619 metal ion-dependent adhesion site (MIDAS); other site 1042876000620 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 1042876000621 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042876000622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876000623 DNA-binding site [nucleotide binding]; DNA binding site 1042876000624 UTRA domain; Region: UTRA; pfam07702 1042876000625 putative oxidoreductase; Provisional; Region: PRK08275 1042876000626 L-aspartate oxidase; Provisional; Region: PRK06175 1042876000627 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042876000628 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1042876000629 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042876000630 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042876000631 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 1042876000632 substrate binding pocket [chemical binding]; other site 1042876000633 membrane-bound complex binding site; other site 1042876000634 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876000635 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000636 dimer interface [polypeptide binding]; other site 1042876000637 conserved gate region; other site 1042876000638 putative PBP binding loops; other site 1042876000639 ABC-ATPase subunit interface; other site 1042876000640 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042876000641 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042876000642 Walker A/P-loop; other site 1042876000643 ATP binding site [chemical binding]; other site 1042876000644 Q-loop/lid; other site 1042876000645 ABC transporter signature motif; other site 1042876000646 Walker B; other site 1042876000647 D-loop; other site 1042876000648 H-loop/switch region; other site 1042876000649 HEAT repeats; Region: HEAT_2; pfam13646 1042876000650 Protein of unknown function (DUF971); Region: DUF971; pfam06155 1042876000651 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1042876000652 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042876000653 tetramerization interface [polypeptide binding]; other site 1042876000654 NAD(P) binding site [chemical binding]; other site 1042876000655 catalytic residues [active] 1042876000656 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1042876000657 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 1042876000658 inhibitor-cofactor binding pocket; inhibition site 1042876000659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876000660 catalytic residue [active] 1042876000661 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1042876000662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000663 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876000664 active site 1042876000665 phosphorylation site [posttranslational modification] 1042876000666 intermolecular recognition site; other site 1042876000667 dimerization interface [polypeptide binding]; other site 1042876000668 HDOD domain; Region: HDOD; pfam08668 1042876000669 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 1042876000670 PAS fold; Region: PAS_3; pfam08447 1042876000671 putative active site [active] 1042876000672 heme pocket [chemical binding]; other site 1042876000673 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876000674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876000675 metal binding site [ion binding]; metal-binding site 1042876000676 active site 1042876000677 I-site; other site 1042876000678 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1042876000679 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 1042876000680 Di-iron ligands [ion binding]; other site 1042876000681 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 1042876000682 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1042876000683 RNase II stability modulator; Provisional; Region: PRK10060 1042876000684 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 1042876000685 putative active site [active] 1042876000686 heme pocket [chemical binding]; other site 1042876000687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876000688 metal binding site [ion binding]; metal-binding site 1042876000689 active site 1042876000690 I-site; other site 1042876000691 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 1042876000692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000693 dimer interface [polypeptide binding]; other site 1042876000694 conserved gate region; other site 1042876000695 putative PBP binding loops; other site 1042876000696 ABC-ATPase subunit interface; other site 1042876000697 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1042876000698 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1042876000699 Walker A/P-loop; other site 1042876000700 ATP binding site [chemical binding]; other site 1042876000701 Q-loop/lid; other site 1042876000702 ABC transporter signature motif; other site 1042876000703 Walker B; other site 1042876000704 D-loop; other site 1042876000705 H-loop/switch region; other site 1042876000706 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 1042876000707 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042876000708 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1042876000709 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 1042876000710 active site 1042876000711 non-prolyl cis peptide bond; other site 1042876000712 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1042876000713 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 1042876000714 Flavin binding site [chemical binding]; other site 1042876000715 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 1042876000716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876000717 active site 1042876000718 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876000719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876000720 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876000721 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1042876000722 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876000723 Walker A/P-loop; other site 1042876000724 ATP binding site [chemical binding]; other site 1042876000725 Q-loop/lid; other site 1042876000726 ABC transporter signature motif; other site 1042876000727 Walker B; other site 1042876000728 D-loop; other site 1042876000729 H-loop/switch region; other site 1042876000730 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000731 dimer interface [polypeptide binding]; other site 1042876000732 conserved gate region; other site 1042876000733 putative PBP binding loops; other site 1042876000734 ABC-ATPase subunit interface; other site 1042876000735 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876000736 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 1042876000737 substrate binding pocket [chemical binding]; other site 1042876000738 membrane-bound complex binding site; other site 1042876000739 hinge residues; other site 1042876000740 serine O-acetyltransferase; Region: cysE; TIGR01172 1042876000741 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 1042876000742 trimer interface [polypeptide binding]; other site 1042876000743 active site 1042876000744 substrate binding site [chemical binding]; other site 1042876000745 CoA binding site [chemical binding]; other site 1042876000746 BCCT family transporter; Region: BCCT; cl00569 1042876000747 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042876000748 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1042876000749 active site 1042876000750 iron coordination sites [ion binding]; other site 1042876000751 substrate binding pocket [chemical binding]; other site 1042876000752 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876000753 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000754 dimer interface [polypeptide binding]; other site 1042876000755 conserved gate region; other site 1042876000756 putative PBP binding loops; other site 1042876000757 ABC-ATPase subunit interface; other site 1042876000758 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1042876000759 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042876000760 Walker A/P-loop; other site 1042876000761 ATP binding site [chemical binding]; other site 1042876000762 Q-loop/lid; other site 1042876000763 ABC transporter signature motif; other site 1042876000764 Walker B; other site 1042876000765 D-loop; other site 1042876000766 H-loop/switch region; other site 1042876000767 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 1042876000768 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 1042876000769 substrate binding pocket [chemical binding]; other site 1042876000770 membrane-bound complex binding site; other site 1042876000771 hinge residues; other site 1042876000772 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876000773 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042876000774 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 1042876000775 dimer interface [polypeptide binding]; other site 1042876000776 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042876000777 catalytic triad [active] 1042876000778 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876000779 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1042876000780 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042876000781 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 1042876000782 substrate binding pocket [chemical binding]; other site 1042876000783 membrane-bound complex binding site; other site 1042876000784 hinge residues; other site 1042876000785 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1042876000786 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 1042876000787 active site 1042876000788 dimer interface [polypeptide binding]; other site 1042876000789 non-prolyl cis peptide bond; other site 1042876000790 insertion regions; other site 1042876000791 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876000792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000793 dimer interface [polypeptide binding]; other site 1042876000794 conserved gate region; other site 1042876000795 putative PBP binding loops; other site 1042876000796 ABC-ATPase subunit interface; other site 1042876000797 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1042876000798 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042876000799 Walker A/P-loop; other site 1042876000800 ATP binding site [chemical binding]; other site 1042876000801 Q-loop/lid; other site 1042876000802 ABC transporter signature motif; other site 1042876000803 Walker B; other site 1042876000804 D-loop; other site 1042876000805 H-loop/switch region; other site 1042876000806 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1042876000807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876000808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876000809 glutamate--cysteine ligase; Provisional; Region: PRK02107 1042876000810 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 1042876000811 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1042876000812 CoenzymeA binding site [chemical binding]; other site 1042876000813 subunit interaction site [polypeptide binding]; other site 1042876000814 PHB binding site; other site 1042876000815 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1042876000816 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1042876000817 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1042876000818 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 1042876000819 RNA binding site [nucleotide binding]; other site 1042876000820 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1042876000821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000822 active site 1042876000823 phosphorylation site [posttranslational modification] 1042876000824 intermolecular recognition site; other site 1042876000825 dimerization interface [polypeptide binding]; other site 1042876000826 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 1042876000827 DNA binding site [nucleotide binding] 1042876000828 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1042876000829 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 1042876000830 dimerization interface [polypeptide binding]; other site 1042876000831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876000832 ATP binding site [chemical binding]; other site 1042876000833 Mg2+ binding site [ion binding]; other site 1042876000834 G-X-G motif; other site 1042876000835 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1042876000836 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1042876000837 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1042876000838 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 1042876000839 RNA binding surface [nucleotide binding]; other site 1042876000840 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042876000841 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 1042876000842 active site 1042876000843 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1042876000844 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 1042876000845 dimerization interface [polypeptide binding]; other site 1042876000846 domain crossover interface; other site 1042876000847 redox-dependent activation switch; other site 1042876000848 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 1042876000849 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1042876000850 active site 1042876000851 substrate-binding site [chemical binding]; other site 1042876000852 metal-binding site [ion binding] 1042876000853 ATP binding site [chemical binding]; other site 1042876000854 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 1042876000855 active site 1042876000856 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1042876000857 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 1042876000858 putative molybdopterin cofactor binding site [chemical binding]; other site 1042876000859 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 1042876000860 putative molybdopterin cofactor binding site; other site 1042876000861 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 1042876000862 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1042876000863 BON domain; Region: BON; pfam04972 1042876000864 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876000865 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1042876000866 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 1042876000867 motif II; other site 1042876000868 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1042876000869 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 1042876000870 dimer interface [polypeptide binding]; other site 1042876000871 ADP-ribose binding site [chemical binding]; other site 1042876000872 active site 1042876000873 nudix motif; other site 1042876000874 metal binding site [ion binding]; metal-binding site 1042876000875 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1042876000876 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 1042876000877 active site 1042876000878 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1042876000879 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876000880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000881 active site 1042876000882 phosphorylation site [posttranslational modification] 1042876000883 intermolecular recognition site; other site 1042876000884 dimerization interface [polypeptide binding]; other site 1042876000885 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876000886 Walker A motif; other site 1042876000887 ATP binding site [chemical binding]; other site 1042876000888 Walker B motif; other site 1042876000889 arginine finger; other site 1042876000890 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042876000891 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1042876000892 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 1042876000893 dimer interface [polypeptide binding]; other site 1042876000894 phosphorylation site [posttranslational modification] 1042876000895 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876000896 ATP binding site [chemical binding]; other site 1042876000897 G-X-G motif; other site 1042876000898 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 1042876000899 agmatine deiminase; Provisional; Region: PRK13551 1042876000900 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1042876000901 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876000902 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 1042876000903 N-terminal plug; other site 1042876000904 ligand-binding site [chemical binding]; other site 1042876000905 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876000906 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1042876000907 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 1042876000908 active site 1042876000909 FMN binding site [chemical binding]; other site 1042876000910 substrate binding site [chemical binding]; other site 1042876000911 3Fe-4S cluster binding site [ion binding]; other site 1042876000912 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1042876000913 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876000914 ATP binding site [chemical binding]; other site 1042876000915 Mg2+ binding site [ion binding]; other site 1042876000916 G-X-G motif; other site 1042876000917 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1042876000918 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876000919 active site 1042876000920 phosphorylation site [posttranslational modification] 1042876000921 intermolecular recognition site; other site 1042876000922 dimerization interface [polypeptide binding]; other site 1042876000923 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 1042876000924 DNA binding site [nucleotide binding] 1042876000925 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1042876000926 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 1042876000927 N-terminal plug; other site 1042876000928 ligand-binding site [chemical binding]; other site 1042876000929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876000930 Transposase; Region: HTH_Tnp_1; cl17663 1042876000931 putative transposase OrfB; Reviewed; Region: PHA02517 1042876000932 HTH-like domain; Region: HTH_21; pfam13276 1042876000933 Integrase core domain; Region: rve; pfam00665 1042876000934 Integrase core domain; Region: rve_2; pfam13333 1042876000935 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1042876000936 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876000937 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1042876000938 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876000939 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000940 dimer interface [polypeptide binding]; other site 1042876000941 conserved gate region; other site 1042876000942 putative PBP binding loops; other site 1042876000943 ABC-ATPase subunit interface; other site 1042876000944 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876000945 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876000946 dimer interface [polypeptide binding]; other site 1042876000947 conserved gate region; other site 1042876000948 putative PBP binding loops; other site 1042876000949 ABC-ATPase subunit interface; other site 1042876000950 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876000951 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 1042876000952 substrate binding pocket [chemical binding]; other site 1042876000953 membrane-bound complex binding site; other site 1042876000954 hinge residues; other site 1042876000955 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1042876000956 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876000957 Walker A/P-loop; other site 1042876000958 ATP binding site [chemical binding]; other site 1042876000959 Q-loop/lid; other site 1042876000960 ABC transporter signature motif; other site 1042876000961 Walker B; other site 1042876000962 D-loop; other site 1042876000963 H-loop/switch region; other site 1042876000964 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876000965 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1042876000966 oxidative damage protection protein; Provisional; Region: PRK05408 1042876000967 adenine DNA glycosylase; Provisional; Region: PRK10880 1042876000968 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042876000969 minor groove reading motif; other site 1042876000970 helix-hairpin-helix signature motif; other site 1042876000971 substrate binding pocket [chemical binding]; other site 1042876000972 active site 1042876000973 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1042876000974 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 1042876000975 DNA binding and oxoG recognition site [nucleotide binding] 1042876000976 AsmA family; Region: AsmA; pfam05170 1042876000977 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1042876000978 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876000979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876000980 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1042876000981 putative active site pocket [active] 1042876000982 4-fold oligomerization interface [polypeptide binding]; other site 1042876000983 metal binding residues [ion binding]; metal-binding site 1042876000984 3-fold/trimer interface [polypeptide binding]; other site 1042876000985 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1042876000986 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1042876000987 putative active site [active] 1042876000988 oxyanion strand; other site 1042876000989 catalytic triad [active] 1042876000990 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1042876000991 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 1042876000992 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042876000993 catalytic residues [active] 1042876000994 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 1042876000995 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1042876000996 substrate binding site [chemical binding]; other site 1042876000997 glutamase interaction surface [polypeptide binding]; other site 1042876000998 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1042876000999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876001000 Walker A/P-loop; other site 1042876001001 ATP binding site [chemical binding]; other site 1042876001002 Q-loop/lid; other site 1042876001003 ABC transporter signature motif; other site 1042876001004 Walker B; other site 1042876001005 D-loop; other site 1042876001006 H-loop/switch region; other site 1042876001007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876001008 dimer interface [polypeptide binding]; other site 1042876001009 conserved gate region; other site 1042876001010 putative PBP binding loops; other site 1042876001011 ABC-ATPase subunit interface; other site 1042876001012 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1042876001013 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1042876001014 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1042876001015 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1042876001016 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1042876001017 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876001018 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876001019 conserved cys residue [active] 1042876001020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876001021 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 1042876001022 active site 1042876001023 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 1042876001024 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042876001025 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042876001026 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042876001027 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1042876001028 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1042876001029 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876001030 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876001031 conserved cys residue [active] 1042876001032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876001033 prolyl-tRNA synthetase, family I; Region: proS_fam_I; TIGR00408 1042876001034 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1042876001035 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1042876001036 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 1042876001037 active site 1042876001038 V4R domain; Region: V4R; cl15268 1042876001039 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1042876001040 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 1042876001041 putative active site [active] 1042876001042 putative FMN binding site [chemical binding]; other site 1042876001043 putative substrate binding site [chemical binding]; other site 1042876001044 putative catalytic residue [active] 1042876001045 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 1042876001046 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042876001047 Cysteine-rich domain; Region: CCG; pfam02754 1042876001048 Cysteine-rich domain; Region: CCG; pfam02754 1042876001049 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 1042876001050 Ligand Binding Site [chemical binding]; other site 1042876001051 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042876001052 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042876001053 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 1042876001054 Ligand Binding Site [chemical binding]; other site 1042876001055 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042876001056 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042876001057 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 1042876001058 [2Fe-2S] cluster binding site [ion binding]; other site 1042876001059 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 1042876001060 putative alpha subunit interface [polypeptide binding]; other site 1042876001061 putative active site [active] 1042876001062 putative substrate binding site [chemical binding]; other site 1042876001063 Fe binding site [ion binding]; other site 1042876001064 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042876001065 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 1042876001066 FAD binding pocket [chemical binding]; other site 1042876001067 FAD binding motif [chemical binding]; other site 1042876001068 phosphate binding motif [ion binding]; other site 1042876001069 beta-alpha-beta structure motif; other site 1042876001070 NAD binding pocket [chemical binding]; other site 1042876001071 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 1042876001072 catalytic loop [active] 1042876001073 iron binding site [ion binding]; other site 1042876001074 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042876001075 HAMP domain; Region: HAMP; pfam00672 1042876001076 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876001077 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876001078 dimer interface [polypeptide binding]; other site 1042876001079 putative CheW interface [polypeptide binding]; other site 1042876001080 Transmembrane protein; Region: Macoilin; pfam09726 1042876001081 Cell division protein ZapA; Region: ZapA; pfam05164 1042876001082 Cache domain; Region: Cache_1; pfam02743 1042876001083 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 1042876001084 dimerization interface [polypeptide binding]; other site 1042876001085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876001086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876001087 dimer interface [polypeptide binding]; other site 1042876001088 putative CheW interface [polypeptide binding]; other site 1042876001089 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1042876001090 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 1042876001091 tetramer interface [polypeptide binding]; other site 1042876001092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876001093 catalytic residue [active] 1042876001094 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1042876001095 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 1042876001096 dimer interface [polypeptide binding]; other site 1042876001097 active site 1042876001098 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1042876001099 folate binding site [chemical binding]; other site 1042876001100 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1042876001101 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876001102 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1042876001103 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1042876001104 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042876001105 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042876001106 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 1042876001107 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1042876001108 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1042876001109 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1042876001110 putative active site [active] 1042876001111 putative substrate binding site [chemical binding]; other site 1042876001112 putative cosubstrate binding site; other site 1042876001113 catalytic site [active] 1042876001114 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1042876001115 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1042876001116 NAD binding site [chemical binding]; other site 1042876001117 catalytic Zn binding site [ion binding]; other site 1042876001118 structural Zn binding site [ion binding]; other site 1042876001119 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876001120 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876001121 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876001122 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 1042876001123 amino acid transporter; Region: 2A0306; TIGR00909 1042876001124 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876001125 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1042876001126 putative acyl-acceptor binding pocket; other site 1042876001127 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1042876001128 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1042876001129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876001130 active site 1042876001131 phosphorylation site [posttranslational modification] 1042876001132 intermolecular recognition site; other site 1042876001133 dimerization interface [polypeptide binding]; other site 1042876001134 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 1042876001135 DNA binding site [nucleotide binding] 1042876001136 sensory histidine kinase CreC; Provisional; Region: PRK11100 1042876001137 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 1042876001138 dimer interface [polypeptide binding]; other site 1042876001139 phosphorylation site [posttranslational modification] 1042876001140 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876001141 ATP binding site [chemical binding]; other site 1042876001142 G-X-G motif; other site 1042876001143 inner membrane protein; Provisional; Region: PRK11715 1042876001144 putative glutathione S-transferase; Provisional; Region: PRK10357 1042876001145 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 1042876001146 putative C-terminal domain interface [polypeptide binding]; other site 1042876001147 putative GSH binding site (G-site) [chemical binding]; other site 1042876001148 putative dimer interface [polypeptide binding]; other site 1042876001149 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1042876001150 dimer interface [polypeptide binding]; other site 1042876001151 N-terminal domain interface [polypeptide binding]; other site 1042876001152 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876001153 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1042876001154 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042876001155 GAF domain; Region: GAF; pfam01590 1042876001156 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 1042876001157 PAS domain; Region: PAS_9; pfam13426 1042876001158 putative active site [active] 1042876001159 heme pocket [chemical binding]; other site 1042876001160 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876001161 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876001162 metal binding site [ion binding]; metal-binding site 1042876001163 active site 1042876001164 I-site; other site 1042876001165 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 1042876001166 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1042876001167 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 1042876001168 E3 interaction surface; other site 1042876001169 lipoyl attachment site [posttranslational modification]; other site 1042876001170 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 1042876001171 E3 interaction surface; other site 1042876001172 lipoyl attachment site [posttranslational modification]; other site 1042876001173 e3 binding domain; Region: E3_binding; pfam02817 1042876001174 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042876001175 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1042876001176 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 1042876001177 dimer interface [polypeptide binding]; other site 1042876001178 TPP-binding site [chemical binding]; other site 1042876001179 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1042876001180 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042876001181 metal binding triad; other site 1042876001182 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1042876001183 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042876001184 metal binding triad; other site 1042876001185 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1042876001186 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1042876001187 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 1042876001188 putative active site [active] 1042876001189 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1042876001190 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 1042876001191 putative active site [active] 1042876001192 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876001193 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 1042876001194 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1042876001195 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042876001196 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042876001197 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1042876001198 active site 1042876001199 ATP binding site [chemical binding]; other site 1042876001200 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042876001201 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042876001202 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042876001203 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876001204 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1042876001205 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 1042876001206 N-terminal plug; other site 1042876001207 ligand-binding site [chemical binding]; other site 1042876001208 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876001209 FecR protein; Region: FecR; pfam04773 1042876001210 RNA polymerase sigma factor; Reviewed; Region: PRK12523 1042876001211 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876001212 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 1042876001213 DNA binding residues [nucleotide binding] 1042876001214 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042876001215 active site 1042876001216 catalytic site [active] 1042876001217 substrate binding site [chemical binding]; other site 1042876001218 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1042876001219 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 1042876001220 ligand binding site [chemical binding]; other site 1042876001221 flexible hinge region; other site 1042876001222 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1042876001223 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 1042876001224 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042876001225 metal binding triad; other site 1042876001226 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876001227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876001228 active site 1042876001229 phosphorylation site [posttranslational modification] 1042876001230 intermolecular recognition site; other site 1042876001231 dimerization interface [polypeptide binding]; other site 1042876001232 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 1042876001233 active site 1042876001234 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1042876001235 ACT domain; Region: ACT_6; pfam13740 1042876001236 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1042876001237 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1042876001238 serine/threonine protein kinase; Provisional; Region: PRK11768 1042876001239 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1042876001240 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1042876001241 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 1042876001242 TOBE domain; Region: TOBE; cl01440 1042876001243 TOBE domain; Region: TOBE; cl01440 1042876001244 DNA utilization protein GntX; Provisional; Region: PRK11595 1042876001245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876001246 active site 1042876001247 biotin synthase; Provisional; Region: PRK15108 1042876001248 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 1042876001249 FeS/SAM binding site; other site 1042876001250 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1042876001251 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1042876001252 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 1042876001253 substrate-cofactor binding pocket; other site 1042876001254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876001255 catalytic residue [active] 1042876001256 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1042876001257 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1042876001258 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876001259 S-adenosylmethionine binding site [chemical binding]; other site 1042876001260 AAA domain; Region: AAA_26; pfam13500 1042876001261 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1042876001262 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042876001263 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042876001264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876001265 active site 1042876001266 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042876001267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876001268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876001269 metal binding site [ion binding]; metal-binding site 1042876001270 active site 1042876001271 I-site; other site 1042876001272 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042876001273 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042876001274 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876001275 active site 1042876001276 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042876001277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876001278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876001279 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 1042876001280 dimerization interface [polypeptide binding]; other site 1042876001281 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 1042876001282 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 1042876001283 inhibitor-cofactor binding pocket; inhibition site 1042876001284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876001285 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1042876001286 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042876001287 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876001288 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1042876001289 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 1042876001290 FeS/SAM binding site; other site 1042876001291 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042876001292 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1042876001293 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1042876001294 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1042876001295 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1042876001296 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1042876001297 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042876001298 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876001299 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876001300 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042876001301 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1042876001302 putative active site [active] 1042876001303 catalytic triad [active] 1042876001304 putative dimer interface [polypeptide binding]; other site 1042876001305 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1042876001306 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876001307 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876001308 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1042876001309 putative DNA binding site [nucleotide binding]; other site 1042876001310 putative Zn2+ binding site [ion binding]; other site 1042876001311 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876001312 LabA_like proteins; Region: LabA_like; cd06167 1042876001313 putative metal binding site [ion binding]; other site 1042876001314 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1042876001315 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1042876001316 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042876001317 putative active site [active] 1042876001318 putative NTP binding site [chemical binding]; other site 1042876001319 putative nucleic acid binding site [nucleotide binding]; other site 1042876001320 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876001321 Type II intron maturase; Region: Intron_maturas2; pfam01348 1042876001322 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876001323 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 1042876001324 substrate binding pocket [chemical binding]; other site 1042876001325 membrane-bound complex binding site; other site 1042876001326 hinge residues; other site 1042876001327 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1042876001328 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 1042876001329 putative active site [active] 1042876001330 heme pocket [chemical binding]; other site 1042876001331 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 1042876001332 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1042876001333 putative active site [active] 1042876001334 heme pocket [chemical binding]; other site 1042876001335 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 1042876001336 putative active site [active] 1042876001337 heme pocket [chemical binding]; other site 1042876001338 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 1042876001339 putative active site [active] 1042876001340 heme pocket [chemical binding]; other site 1042876001341 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876001342 metal binding site [ion binding]; metal-binding site 1042876001343 active site 1042876001344 I-site; other site 1042876001345 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 1042876001346 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1042876001347 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1042876001348 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042876001349 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1042876001350 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876001351 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042876001352 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 1042876001353 DNA binding residues [nucleotide binding] 1042876001354 DNA primase, catalytic core; Region: dnaG; TIGR01391 1042876001355 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1042876001356 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1042876001357 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 1042876001358 active site 1042876001359 metal binding site [ion binding]; metal-binding site 1042876001360 interdomain interaction site; other site 1042876001361 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1042876001362 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1042876001363 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1042876001364 UGMP family protein; Validated; Region: PRK09604 1042876001365 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1042876001366 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1042876001367 Dihydroneopterin aldolase; Region: FolB; smart00905 1042876001368 active site 1042876001369 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 1042876001370 catalytic center binding site [active] 1042876001371 ATP binding site [chemical binding]; other site 1042876001372 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1042876001373 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1042876001374 active site 1042876001375 NTP binding site [chemical binding]; other site 1042876001376 metal binding triad [ion binding]; metal-binding site 1042876001377 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1042876001378 SpoVR family protein; Provisional; Region: PRK11767 1042876001379 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1042876001380 hypothetical protein; Provisional; Region: PRK05325 1042876001381 PrkA family serine protein kinase; Provisional; Region: PRK15455 1042876001382 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1042876001383 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 1042876001384 active site residue [active] 1042876001385 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1042876001386 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1042876001387 active site 1042876001388 metal binding site [ion binding]; metal-binding site 1042876001389 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1042876001390 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1042876001391 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1042876001392 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1042876001393 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1042876001394 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1042876001395 SurA N-terminal domain; Region: SurA_N; pfam09312 1042876001396 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042876001397 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042876001398 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1042876001399 OstA-like protein; Region: OstA; cl00844 1042876001400 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1042876001401 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1042876001402 Phosphotransferase enzyme family; Region: APH; pfam01636 1042876001403 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 1042876001404 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1042876001405 Substrate binding site; other site 1042876001406 metal-binding site 1042876001407 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1042876001408 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1042876001409 putative metal binding site [ion binding]; other site 1042876001410 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 1042876001411 HSP70 interaction site [polypeptide binding]; other site 1042876001412 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1042876001413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876001414 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 1042876001415 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876001416 substrate binding pocket [chemical binding]; other site 1042876001417 membrane-bound complex binding site; other site 1042876001418 hinge residues; other site 1042876001419 PAS domain; Region: PAS_9; pfam13426 1042876001420 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 1042876001421 putative active site [active] 1042876001422 heme pocket [chemical binding]; other site 1042876001423 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 1042876001424 PAS fold; Region: PAS_3; pfam08447 1042876001425 putative active site [active] 1042876001426 heme pocket [chemical binding]; other site 1042876001427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042876001428 Histidine kinase; Region: HisKA_3; pfam07730 1042876001429 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876001430 ATP binding site [chemical binding]; other site 1042876001431 Mg2+ binding site [ion binding]; other site 1042876001432 G-X-G motif; other site 1042876001433 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876001434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876001435 active site 1042876001436 phosphorylation site [posttranslational modification] 1042876001437 intermolecular recognition site; other site 1042876001438 dimerization interface [polypeptide binding]; other site 1042876001439 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 1042876001440 DNA binding residues [nucleotide binding] 1042876001441 dimerization interface [polypeptide binding]; other site 1042876001442 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876001443 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1042876001444 Walker A/P-loop; other site 1042876001445 ATP binding site [chemical binding]; other site 1042876001446 Q-loop/lid; other site 1042876001447 ABC transporter signature motif; other site 1042876001448 Walker B; other site 1042876001449 D-loop; other site 1042876001450 H-loop/switch region; other site 1042876001451 TOBE domain; Region: TOBE_2; pfam08402 1042876001452 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1042876001453 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876001454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876001455 dimer interface [polypeptide binding]; other site 1042876001456 conserved gate region; other site 1042876001457 putative PBP binding loops; other site 1042876001458 ABC-ATPase subunit interface; other site 1042876001459 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876001460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876001461 dimer interface [polypeptide binding]; other site 1042876001462 conserved gate region; other site 1042876001463 putative PBP binding loops; other site 1042876001464 ABC-ATPase subunit interface; other site 1042876001465 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 1042876001466 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1042876001467 substrate binding site [chemical binding]; other site 1042876001468 hexamer interface [polypeptide binding]; other site 1042876001469 metal binding site [ion binding]; metal-binding site 1042876001470 phosphoglycolate phosphatase; Provisional; Region: PRK13223 1042876001471 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042876001472 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 1042876001473 motif II; other site 1042876001474 anthranilate synthase component I; Provisional; Region: PRK13565 1042876001475 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1042876001476 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1042876001477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876001478 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876001479 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876001480 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 1042876001481 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 1042876001482 active site 1042876001483 catalytic triad [active] 1042876001484 oxyanion hole [active] 1042876001485 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1042876001486 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1042876001487 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1042876001488 glutamine binding [chemical binding]; other site 1042876001489 catalytic triad [active] 1042876001490 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1042876001491 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042876001492 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1042876001493 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 1042876001494 active site 1042876001495 ribulose/triose binding site [chemical binding]; other site 1042876001496 phosphate binding site [ion binding]; other site 1042876001497 substrate (anthranilate) binding pocket [chemical binding]; other site 1042876001498 product (indole) binding pocket [chemical binding]; other site 1042876001499 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1042876001500 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1042876001501 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 1042876001502 ligand binding site [chemical binding]; other site 1042876001503 flexible hinge region; other site 1042876001504 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 1042876001505 putative switch regulator; other site 1042876001506 non-specific DNA interactions [nucleotide binding]; other site 1042876001507 DNA binding site [nucleotide binding] 1042876001508 sequence specific DNA binding site [nucleotide binding]; other site 1042876001509 putative cAMP binding site [chemical binding]; other site 1042876001510 OsmC-like protein; Region: OsmC; cl00767 1042876001511 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1042876001512 diiron binding motif [ion binding]; other site 1042876001513 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 1042876001514 nucleotide binding site/active site [active] 1042876001515 HIT family signature motif; other site 1042876001516 catalytic residue [active] 1042876001517 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042876001518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876001519 NAD(P) binding site [chemical binding]; other site 1042876001520 active site 1042876001521 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042876001522 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 1042876001523 FMN binding site [chemical binding]; other site 1042876001524 substrate binding site [chemical binding]; other site 1042876001525 putative catalytic residue [active] 1042876001526 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1042876001527 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1042876001528 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042876001529 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1042876001530 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1042876001531 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1042876001532 putative peptidase; Provisional; Region: PRK11649 1042876001533 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042876001534 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1042876001535 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1042876001536 active site 1042876001537 HIGH motif; other site 1042876001538 dimer interface [polypeptide binding]; other site 1042876001539 KMSKS motif; other site 1042876001540 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1042876001541 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1042876001542 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1042876001543 pantothenate kinase; Reviewed; Region: PRK13322 1042876001544 elongation factor Tu; Reviewed; Region: PRK00049 1042876001545 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1042876001546 G1 box; other site 1042876001547 GEF interaction site [polypeptide binding]; other site 1042876001548 GTP/Mg2+ binding site [chemical binding]; other site 1042876001549 Switch I region; other site 1042876001550 G2 box; other site 1042876001551 G3 box; other site 1042876001552 Switch II region; other site 1042876001553 G4 box; other site 1042876001554 G5 box; other site 1042876001555 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 1042876001556 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 1042876001557 Antibiotic Binding Site [chemical binding]; other site 1042876001558 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1042876001559 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1042876001560 putative homodimer interface [polypeptide binding]; other site 1042876001561 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1042876001562 heterodimer interface [polypeptide binding]; other site 1042876001563 homodimer interface [polypeptide binding]; other site 1042876001564 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1042876001565 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 1042876001566 23S rRNA interface [nucleotide binding]; other site 1042876001567 L7/L12 interface [polypeptide binding]; other site 1042876001568 putative thiostrepton binding site; other site 1042876001569 L25 interface [polypeptide binding]; other site 1042876001570 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 1042876001571 mRNA/rRNA interface [nucleotide binding]; other site 1042876001572 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 1042876001573 23S rRNA interface [nucleotide binding]; other site 1042876001574 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1042876001575 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 1042876001576 core dimer interface [polypeptide binding]; other site 1042876001577 peripheral dimer interface [polypeptide binding]; other site 1042876001578 L10 interface [polypeptide binding]; other site 1042876001579 L11 interface [polypeptide binding]; other site 1042876001580 putative EF-Tu interaction site [polypeptide binding]; other site 1042876001581 putative EF-G interaction site [polypeptide binding]; other site 1042876001582 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1042876001583 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 1042876001584 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1042876001585 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 1042876001586 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1042876001587 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 1042876001588 RPB3 interaction site [polypeptide binding]; other site 1042876001589 RPB1 interaction site [polypeptide binding]; other site 1042876001590 RPB11 interaction site [polypeptide binding]; other site 1042876001591 RPB10 interaction site [polypeptide binding]; other site 1042876001592 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1042876001593 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1042876001594 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1042876001595 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1042876001596 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1042876001597 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1042876001598 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1042876001599 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1042876001600 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1042876001601 DNA binding site [nucleotide binding] 1042876001602 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1042876001603 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 1042876001604 S17 interaction site [polypeptide binding]; other site 1042876001605 S8 interaction site; other site 1042876001606 16S rRNA interaction site [nucleotide binding]; other site 1042876001607 streptomycin interaction site [chemical binding]; other site 1042876001608 23S rRNA interaction site [nucleotide binding]; other site 1042876001609 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1042876001610 30S ribosomal protein S7; Validated; Region: PRK05302 1042876001611 elongation factor G; Reviewed; Region: PRK00007 1042876001612 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1042876001613 G1 box; other site 1042876001614 putative GEF interaction site [polypeptide binding]; other site 1042876001615 GTP/Mg2+ binding site [chemical binding]; other site 1042876001616 Switch I region; other site 1042876001617 G2 box; other site 1042876001618 G3 box; other site 1042876001619 Switch II region; other site 1042876001620 G4 box; other site 1042876001621 G5 box; other site 1042876001622 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 1042876001623 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 1042876001624 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 1042876001625 elongation factor Tu; Reviewed; Region: PRK00049 1042876001626 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1042876001627 G1 box; other site 1042876001628 GEF interaction site [polypeptide binding]; other site 1042876001629 GTP/Mg2+ binding site [chemical binding]; other site 1042876001630 Switch I region; other site 1042876001631 G2 box; other site 1042876001632 G3 box; other site 1042876001633 Switch II region; other site 1042876001634 G4 box; other site 1042876001635 G5 box; other site 1042876001636 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 1042876001637 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 1042876001638 Antibiotic Binding Site [chemical binding]; other site 1042876001639 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1042876001640 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1042876001641 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1042876001642 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1042876001643 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1042876001644 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1042876001645 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1042876001646 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1042876001647 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 1042876001648 protein-rRNA interface [nucleotide binding]; other site 1042876001649 putative translocon binding site; other site 1042876001650 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1042876001651 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 1042876001652 G-X-X-G motif; other site 1042876001653 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1042876001654 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 1042876001655 23S rRNA interface [nucleotide binding]; other site 1042876001656 5S rRNA interface [nucleotide binding]; other site 1042876001657 putative antibiotic binding site [chemical binding]; other site 1042876001658 L25 interface [polypeptide binding]; other site 1042876001659 L27 interface [polypeptide binding]; other site 1042876001660 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 1042876001661 23S rRNA interface [nucleotide binding]; other site 1042876001662 putative translocon interaction site; other site 1042876001663 signal recognition particle (SRP54) interaction site; other site 1042876001664 L23 interface [polypeptide binding]; other site 1042876001665 trigger factor interaction site; other site 1042876001666 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1042876001667 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1042876001668 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1042876001669 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1042876001670 RNA binding site [nucleotide binding]; other site 1042876001671 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1042876001672 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1042876001673 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1042876001674 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1042876001675 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1042876001676 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1042876001677 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042876001678 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1042876001679 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 1042876001680 5S rRNA interface [nucleotide binding]; other site 1042876001681 23S rRNA interface [nucleotide binding]; other site 1042876001682 L5 interface [polypeptide binding]; other site 1042876001683 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1042876001684 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1042876001685 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1042876001686 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 1042876001687 23S rRNA binding site [nucleotide binding]; other site 1042876001688 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1042876001689 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1042876001690 SecY translocase; Region: SecY; pfam00344 1042876001691 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1042876001692 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1042876001693 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1042876001694 30S ribosomal protein S11; Validated; Region: PRK05309 1042876001695 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1042876001696 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1042876001697 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 1042876001698 RNA binding surface [nucleotide binding]; other site 1042876001699 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1042876001700 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1042876001701 alphaNTD homodimer interface [polypeptide binding]; other site 1042876001702 alphaNTD - beta interaction site [polypeptide binding]; other site 1042876001703 alphaNTD - beta' interaction site [polypeptide binding]; other site 1042876001704 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1042876001705 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1042876001706 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1042876001707 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1042876001708 tetramer interface [polypeptide binding]; other site 1042876001709 heme binding pocket [chemical binding]; other site 1042876001710 NADPH binding site [chemical binding]; other site 1042876001711 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1042876001712 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1042876001713 heme binding site [chemical binding]; other site 1042876001714 ferroxidase pore; other site 1042876001715 ferroxidase diiron center [ion binding]; other site 1042876001716 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1042876001717 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042876001718 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042876001719 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1042876001720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876001721 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876001722 putative substrate translocation pore; other site 1042876001723 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1042876001724 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 1042876001725 dimer interface [polypeptide binding]; other site 1042876001726 ssDNA binding site [nucleotide binding]; other site 1042876001727 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042876001728 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 1042876001729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876001730 DNA-binding site [nucleotide binding]; DNA binding site 1042876001731 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 1042876001732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876001733 homodimer interface [polypeptide binding]; other site 1042876001734 catalytic residue [active] 1042876001735 hypothetical protein; Provisional; Region: PRK10621 1042876001736 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876001737 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1042876001738 malonic semialdehyde reductase; Provisional; Region: PRK10538 1042876001739 putative NAD(P) binding site [chemical binding]; other site 1042876001740 homotetramer interface [polypeptide binding]; other site 1042876001741 homodimer interface [polypeptide binding]; other site 1042876001742 active site 1042876001743 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 1042876001744 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 1042876001745 molybdopterin cofactor binding site; other site 1042876001746 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 1042876001747 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 1042876001748 molybdopterin cofactor binding site; other site 1042876001749 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1042876001750 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1042876001751 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 1042876001752 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1042876001753 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1042876001754 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1042876001755 selenocysteine synthase; Provisional; Region: PRK04311 1042876001756 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1042876001757 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1042876001758 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876001759 catalytic residue [active] 1042876001760 catalytic residue [active] 1042876001761 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1042876001762 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1042876001763 G1 box; other site 1042876001764 putative GEF interaction site [polypeptide binding]; other site 1042876001765 GTP/Mg2+ binding site [chemical binding]; other site 1042876001766 Switch I region; other site 1042876001767 G2 box; other site 1042876001768 G3 box; other site 1042876001769 Switch II region; other site 1042876001770 G4 box; other site 1042876001771 G5 box; other site 1042876001772 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 1042876001773 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 1042876001774 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1042876001775 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1042876001776 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1042876001777 active site 1042876001778 homodimer interface [polypeptide binding]; other site 1042876001779 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1042876001780 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1042876001781 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 1042876001782 sequence-specific DNA binding site [nucleotide binding]; other site 1042876001783 salt bridge; other site 1042876001784 hypothetical protein; Provisional; Region: PRK10621 1042876001785 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876001786 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 1042876001787 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 1042876001788 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1042876001789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876001790 NAD(P) binding site [chemical binding]; other site 1042876001791 active site 1042876001792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876001793 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042876001794 NAD(P) binding site [chemical binding]; other site 1042876001795 active site 1042876001796 Predicted transcriptional regulators [Transcription]; Region: COG1733 1042876001797 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1042876001798 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876001799 OmpW family; Region: OmpW; cl17427 1042876001800 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1042876001801 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042876001802 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1042876001803 FtsX-like permease family; Region: FtsX; pfam02687 1042876001804 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1042876001805 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042876001806 Walker A/P-loop; other site 1042876001807 ATP binding site [chemical binding]; other site 1042876001808 Q-loop/lid; other site 1042876001809 ABC transporter signature motif; other site 1042876001810 Walker B; other site 1042876001811 D-loop; other site 1042876001812 H-loop/switch region; other site 1042876001813 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1042876001814 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1042876001815 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 1042876001816 Predicted methyltransferase [General function prediction only]; Region: COG3897 1042876001817 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876001818 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1042876001819 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1042876001820 ATP cone domain; Region: ATP-cone; pfam03477 1042876001821 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1042876001822 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 1042876001823 catalytic motif [active] 1042876001824 Zn binding site [ion binding]; other site 1042876001825 RibD C-terminal domain; Region: RibD_C; cl17279 1042876001826 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1042876001827 Lumazine binding domain; Region: Lum_binding; pfam00677 1042876001828 Lumazine binding domain; Region: Lum_binding; pfam00677 1042876001829 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1042876001830 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042876001831 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1042876001832 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 1042876001833 homopentamer interface [polypeptide binding]; other site 1042876001834 active site 1042876001835 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1042876001836 putative RNA binding site [nucleotide binding]; other site 1042876001837 thiamine monophosphate kinase; Provisional; Region: PRK05731 1042876001838 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 1042876001839 ATP binding site [chemical binding]; other site 1042876001840 dimerization interface [polypeptide binding]; other site 1042876001841 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1042876001842 tetramer interfaces [polypeptide binding]; other site 1042876001843 binuclear metal-binding site [ion binding]; other site 1042876001844 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876001845 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 1042876001846 membrane-bound complex binding site; other site 1042876001847 hinge residues; other site 1042876001848 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 1042876001849 dimerization interface [polypeptide binding]; other site 1042876001850 active site 1042876001851 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1042876001852 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 1042876001853 cobalamin binding residues [chemical binding]; other site 1042876001854 putative BtuC binding residues; other site 1042876001855 dimer interface [polypeptide binding]; other site 1042876001856 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1042876001857 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 1042876001858 TPP-binding site; other site 1042876001859 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 1042876001860 PYR/PP interface [polypeptide binding]; other site 1042876001861 dimer interface [polypeptide binding]; other site 1042876001862 TPP binding site [chemical binding]; other site 1042876001863 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876001864 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042876001865 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042876001866 substrate binding pocket [chemical binding]; other site 1042876001867 chain length determination region; other site 1042876001868 substrate-Mg2+ binding site; other site 1042876001869 catalytic residues [active] 1042876001870 aspartate-rich region 1; other site 1042876001871 active site lid residues [active] 1042876001872 aspartate-rich region 2; other site 1042876001873 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1042876001874 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1042876001875 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1042876001876 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1042876001877 hypothetical protein; Reviewed; Region: PRK09588 1042876001878 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876001879 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1042876001880 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876001881 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876001882 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1042876001883 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1042876001884 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1042876001885 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1042876001886 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1042876001887 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1042876001888 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 1042876001889 non-specific DNA binding site [nucleotide binding]; other site 1042876001890 salt bridge; other site 1042876001891 sequence-specific DNA binding site [nucleotide binding]; other site 1042876001892 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 1042876001893 dimer interface [polypeptide binding]; other site 1042876001894 substrate binding site [chemical binding]; other site 1042876001895 metal binding sites [ion binding]; metal-binding site 1042876001896 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1042876001897 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1042876001898 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1042876001899 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1042876001900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876001901 Coenzyme A binding pocket [chemical binding]; other site 1042876001902 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1042876001903 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1042876001904 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1042876001905 ethanolamine permease; Region: 2A0305; TIGR00908 1042876001906 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876001907 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876001908 NAD(P) binding site [chemical binding]; other site 1042876001909 catalytic residues [active] 1042876001910 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042876001911 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876001912 Walker A motif; other site 1042876001913 ATP binding site [chemical binding]; other site 1042876001914 Walker B motif; other site 1042876001915 arginine finger; other site 1042876001916 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876001917 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1042876001918 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042876001919 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876001920 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042876001921 aromatic acid decarboxylase; Validated; Region: PRK05920 1042876001922 Flavoprotein; Region: Flavoprotein; pfam02441 1042876001923 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1042876001924 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1042876001925 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1042876001926 NAD binding site [chemical binding]; other site 1042876001927 active site 1042876001928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1042876001929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1042876001930 Peptidase C13 family; Region: Peptidase_C13; pfam01650 1042876001931 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 1042876001932 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042876001933 putative NAD(P) binding site [chemical binding]; other site 1042876001934 catalytic Zn binding site [ion binding]; other site 1042876001935 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 1042876001936 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 1042876001937 E3 interaction surface; other site 1042876001938 lipoyl attachment site [posttranslational modification]; other site 1042876001939 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1042876001940 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 1042876001941 alpha subunit interface [polypeptide binding]; other site 1042876001942 TPP binding site [chemical binding]; other site 1042876001943 heterodimer interface [polypeptide binding]; other site 1042876001944 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876001945 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1042876001946 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 1042876001947 tetramer interface [polypeptide binding]; other site 1042876001948 TPP-binding site [chemical binding]; other site 1042876001949 heterodimer interface [polypeptide binding]; other site 1042876001950 phosphorylation loop region [posttranslational modification] 1042876001951 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1042876001952 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1042876001953 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042876001954 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876001955 Walker A motif; other site 1042876001956 ATP binding site [chemical binding]; other site 1042876001957 Walker B motif; other site 1042876001958 arginine finger; other site 1042876001959 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876001960 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1042876001961 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042876001962 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042876001963 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042876001964 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1042876001965 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 1042876001966 carboxyltransferase (CT) interaction site; other site 1042876001967 biotinylation site [posttranslational modification]; other site 1042876001968 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 1042876001969 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1042876001970 active site 1042876001971 trimer interface [polypeptide binding]; other site 1042876001972 dimer interface [polypeptide binding]; other site 1042876001973 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1042876001974 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1042876001975 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 1042876001976 DsbD alpha interface [polypeptide binding]; other site 1042876001977 catalytic residues [active] 1042876001978 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042876001979 MULE transposase domain; Region: MULE; pfam10551 1042876001980 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042876001981 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876001982 dimer interface [polypeptide binding]; other site 1042876001983 putative CheW interface [polypeptide binding]; other site 1042876001984 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876001985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876001986 active site 1042876001987 phosphorylation site [posttranslational modification] 1042876001988 intermolecular recognition site; other site 1042876001989 dimerization interface [polypeptide binding]; other site 1042876001990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876001991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876001992 metal binding site [ion binding]; metal-binding site 1042876001993 active site 1042876001994 I-site; other site 1042876001995 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1042876001996 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1042876001997 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 1042876001998 nudix motif; other site 1042876001999 translation initiation factor Sui1; Validated; Region: PRK06824 1042876002000 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1042876002001 putative rRNA binding site [nucleotide binding]; other site 1042876002002 arginine decarboxylase; Provisional; Region: PRK05354 1042876002003 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1042876002004 dimer interface [polypeptide binding]; other site 1042876002005 active site 1042876002006 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876002007 catalytic residues [active] 1042876002008 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1042876002009 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1042876002010 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1042876002011 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1042876002012 MG2 domain; Region: A2M_N; pfam01835 1042876002013 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1042876002014 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1042876002015 surface patch; other site 1042876002016 thioester region; other site 1042876002017 specificity defining residues; other site 1042876002018 penicillin-binding protein 1C; Provisional; Region: PRK11240 1042876002019 Transglycosylase; Region: Transgly; pfam00912 1042876002020 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042876002021 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1042876002022 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1042876002023 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1042876002024 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876002025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876002026 active site 1042876002027 phosphorylation site [posttranslational modification] 1042876002028 intermolecular recognition site; other site 1042876002029 dimerization interface [polypeptide binding]; other site 1042876002030 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 1042876002031 DNA binding residues [nucleotide binding] 1042876002032 dimerization interface [polypeptide binding]; other site 1042876002033 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 1042876002034 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1042876002035 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1042876002036 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876002037 S-adenosylmethionine binding site [chemical binding]; other site 1042876002038 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 1042876002039 homodimer interface [polypeptide binding]; other site 1042876002040 chemical substrate binding site [chemical binding]; other site 1042876002041 oligomer interface [polypeptide binding]; other site 1042876002042 metal binding site [ion binding]; metal-binding site 1042876002043 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 1042876002044 active site 2 [active] 1042876002045 active site 1 [active] 1042876002046 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 1042876002047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876002048 NAD(P) binding site [chemical binding]; other site 1042876002049 active site 1042876002050 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 1042876002051 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 1042876002052 dimer interface [polypeptide binding]; other site 1042876002053 active site 1042876002054 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876002055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876002056 Cache domain; Region: Cache_1; pfam02743 1042876002057 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 1042876002058 dimerization interface [polypeptide binding]; other site 1042876002059 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876002060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876002061 dimer interface [polypeptide binding]; other site 1042876002062 putative CheW interface [polypeptide binding]; other site 1042876002063 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1042876002064 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1042876002065 DNA binding residues [nucleotide binding] 1042876002066 dimer interface [polypeptide binding]; other site 1042876002067 copper binding site [ion binding]; other site 1042876002068 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042876002069 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 1042876002070 metal-binding site [ion binding] 1042876002071 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042876002072 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 1042876002073 metal-binding site [ion binding] 1042876002074 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042876002075 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 1042876002076 metal-binding site [ion binding] 1042876002077 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876002078 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1042876002079 putative substrate translocation pore; other site 1042876002080 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1042876002081 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 1042876002082 active site 1042876002083 purine riboside binding site [chemical binding]; other site 1042876002084 short chain dehydrogenase; Provisional; Region: PRK08177 1042876002085 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1042876002086 NAD(P) binding site [chemical binding]; other site 1042876002087 active site 1042876002088 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1042876002089 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1042876002090 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1042876002091 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1042876002092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876002093 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1042876002094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876002095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002096 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 1042876002097 dimerization interface [polypeptide binding]; other site 1042876002098 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1042876002099 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 1042876002100 inhibitor-cofactor binding pocket; inhibition site 1042876002101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002102 catalytic residue [active] 1042876002103 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042876002104 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042876002105 tetrameric interface [polypeptide binding]; other site 1042876002106 NAD binding site [chemical binding]; other site 1042876002107 catalytic residues [active] 1042876002108 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042876002109 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042876002110 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1042876002111 mce related protein; Region: MCE; pfam02470 1042876002112 mce related protein; Region: MCE; pfam02470 1042876002113 mce related protein; Region: MCE; pfam02470 1042876002114 mce related protein; Region: MCE; pfam02470 1042876002115 mce related protein; Region: MCE; pfam02470 1042876002116 mce related protein; Region: MCE; pfam02470 1042876002117 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1042876002118 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1042876002119 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1042876002120 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1042876002121 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1042876002122 active site 1042876002123 Riboflavin kinase; Region: Flavokinase; pfam01687 1042876002124 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1042876002125 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042876002126 active site 1042876002127 HIGH motif; other site 1042876002128 nucleotide binding site [chemical binding]; other site 1042876002129 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042876002130 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1042876002131 active site 1042876002132 KMSKS motif; other site 1042876002133 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1042876002134 tRNA binding surface [nucleotide binding]; other site 1042876002135 anticodon binding site; other site 1042876002136 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1042876002137 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1042876002138 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1042876002139 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876002140 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1042876002141 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1042876002142 Type II transport protein GspH; Region: GspH; pfam12019 1042876002143 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1042876002144 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1042876002145 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1042876002146 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1042876002147 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876002148 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1042876002149 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1042876002150 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 1042876002151 RNA binding surface [nucleotide binding]; other site 1042876002152 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042876002153 active site 1042876002154 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1042876002155 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1042876002156 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1042876002157 Clp amino terminal domain; Region: Clp_N; pfam02861 1042876002158 Clp amino terminal domain; Region: Clp_N; pfam02861 1042876002159 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876002160 Walker A motif; other site 1042876002161 ATP binding site [chemical binding]; other site 1042876002162 Walker B motif; other site 1042876002163 arginine finger; other site 1042876002164 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876002165 Walker A motif; other site 1042876002166 ATP binding site [chemical binding]; other site 1042876002167 Walker B motif; other site 1042876002168 arginine finger; other site 1042876002169 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1042876002170 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1042876002171 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876002172 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1042876002173 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 1042876002174 Predicted membrane protein [Function unknown]; Region: COG3235 1042876002175 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1042876002176 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1042876002177 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1042876002178 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 1042876002179 CoA-binding site [chemical binding]; other site 1042876002180 ATP-binding [chemical binding]; other site 1042876002181 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 1042876002182 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1042876002183 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1042876002184 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1042876002185 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876002186 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876002187 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1042876002188 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1042876002189 Pilin (bacterial filament); Region: Pilin; pfam00114 1042876002190 integrase; Provisional; Region: PRK09692 1042876002191 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 1042876002192 active site 1042876002193 Int/Topo IB signature motif; other site 1042876002194 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1042876002195 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876002196 transposase/IS protein; Provisional; Region: PRK09183 1042876002197 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876002198 Walker A motif; other site 1042876002199 ATP binding site [chemical binding]; other site 1042876002200 Walker B motif; other site 1042876002201 arginine finger; other site 1042876002202 NACHT domain; Region: NACHT; pfam05729 1042876002203 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1042876002204 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876002205 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 1042876002206 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876002207 Transposase; Region: HTH_Tnp_1; pfam01527 1042876002208 putative transposase OrfB; Reviewed; Region: PHA02517 1042876002209 HTH-like domain; Region: HTH_21; pfam13276 1042876002210 Integrase core domain; Region: rve; pfam00665 1042876002211 Integrase core domain; Region: rve_2; pfam13333 1042876002212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876002213 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876002214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876002215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002216 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 1042876002217 putative effector binding pocket; other site 1042876002218 putative dimerization interface [polypeptide binding]; other site 1042876002219 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 1042876002220 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1042876002221 transmembrane helices; other site 1042876002222 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876002223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876002224 active site 1042876002225 phosphorylation site [posttranslational modification] 1042876002226 intermolecular recognition site; other site 1042876002227 dimerization interface [polypeptide binding]; other site 1042876002228 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876002229 Walker A motif; other site 1042876002230 ATP binding site [chemical binding]; other site 1042876002231 Walker B motif; other site 1042876002232 arginine finger; other site 1042876002233 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 1042876002234 dimer interface [polypeptide binding]; other site 1042876002235 phosphorylation site [posttranslational modification] 1042876002236 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876002237 ATP binding site [chemical binding]; other site 1042876002238 Mg2+ binding site [ion binding]; other site 1042876002239 G-X-G motif; other site 1042876002240 malate dehydrogenase; Reviewed; Region: PRK06223 1042876002241 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1042876002242 NAD(P) binding site [chemical binding]; other site 1042876002243 dimer interface [polypeptide binding]; other site 1042876002244 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042876002245 substrate binding site [chemical binding]; other site 1042876002246 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876002247 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876002248 dimer interface [polypeptide binding]; other site 1042876002249 conserved gate region; other site 1042876002250 putative PBP binding loops; other site 1042876002251 ABC-ATPase subunit interface; other site 1042876002252 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 1042876002253 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876002254 substrate binding pocket [chemical binding]; other site 1042876002255 membrane-bound complex binding site; other site 1042876002256 hinge residues; other site 1042876002257 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 1042876002258 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1042876002259 cystathionine gamma-synthase; Provisional; Region: PRK08249 1042876002260 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 1042876002261 homodimer interface [polypeptide binding]; other site 1042876002262 substrate-cofactor binding pocket; other site 1042876002263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002264 catalytic residue [active] 1042876002265 S-methylmethionine transporter; Provisional; Region: PRK11387 1042876002266 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1042876002267 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876002268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002269 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 1042876002270 dimerization interface [polypeptide binding]; other site 1042876002271 substrate binding pocket [chemical binding]; other site 1042876002272 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1042876002273 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 1042876002274 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002275 catalytic residue [active] 1042876002276 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876002277 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1042876002278 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876002279 homoserine dehydrogenase; Provisional; Region: PRK06270 1042876002280 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1042876002281 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 1042876002282 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876002283 NAD(P) binding site [chemical binding]; other site 1042876002284 catalytic residues [active] 1042876002285 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 1042876002286 homotrimer interaction site [polypeptide binding]; other site 1042876002287 putative active site [active] 1042876002288 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1042876002289 cytochrome c-550; Provisional; Region: psbV; cl17239 1042876002290 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1042876002291 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 1042876002292 dimer interface [polypeptide binding]; other site 1042876002293 active site 1042876002294 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1042876002295 folate binding site [chemical binding]; other site 1042876002296 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1042876002297 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 1042876002298 putative active site [active] 1042876002299 heme pocket [chemical binding]; other site 1042876002300 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1042876002301 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 1042876002302 putative active site [active] 1042876002303 heme pocket [chemical binding]; other site 1042876002304 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876002305 metal binding site [ion binding]; metal-binding site 1042876002306 active site 1042876002307 I-site; other site 1042876002308 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 1042876002309 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1042876002310 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876002311 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876002312 ABC transporter; Region: ABC_tran_2; pfam12848 1042876002313 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876002314 glutamate dehydrogenase; Provisional; Region: PRK09414 1042876002315 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042876002316 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1042876002317 NAD(P) binding site [chemical binding]; other site 1042876002318 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1042876002319 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042876002320 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1042876002321 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 1042876002322 AAA domain; Region: AAA_32; pfam13654 1042876002323 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042876002324 hypothetical protein; Provisional; Region: PRK05208 1042876002325 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042876002326 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1042876002327 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876002328 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1042876002329 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1042876002330 PhnA protein; Region: PhnA; pfam03831 1042876002331 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1042876002332 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1042876002333 substrate binding pocket [chemical binding]; other site 1042876002334 chain length determination region; other site 1042876002335 substrate-Mg2+ binding site; other site 1042876002336 catalytic residues [active] 1042876002337 aspartate-rich region 1; other site 1042876002338 active site lid residues [active] 1042876002339 aspartate-rich region 2; other site 1042876002340 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1042876002341 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1042876002342 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1042876002343 GTP1/OBG; Region: GTP1_OBG; pfam01018 1042876002344 Obg GTPase; Region: Obg; cd01898 1042876002345 G1 box; other site 1042876002346 GTP/Mg2+ binding site [chemical binding]; other site 1042876002347 Switch I region; other site 1042876002348 G2 box; other site 1042876002349 G3 box; other site 1042876002350 Switch II region; other site 1042876002351 G4 box; other site 1042876002352 G5 box; other site 1042876002353 gamma-glutamyl kinase; Provisional; Region: PRK05429 1042876002354 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 1042876002355 nucleotide binding site [chemical binding]; other site 1042876002356 homotetrameric interface [polypeptide binding]; other site 1042876002357 putative phosphate binding site [ion binding]; other site 1042876002358 putative allosteric binding site; other site 1042876002359 PUA domain; Region: PUA; pfam01472 1042876002360 hypothetical protein; Provisional; Region: PRK10756 1042876002361 CreA protein; Region: CreA; pfam05981 1042876002362 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1042876002363 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042876002364 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1042876002365 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1042876002366 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042876002367 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876002368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002369 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 1042876002370 dimerization interface [polypeptide binding]; other site 1042876002371 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876002372 FecR protein; Region: FecR; pfam04773 1042876002373 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876002374 putative substrate translocation pore; other site 1042876002375 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876002376 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876002377 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876002378 putative substrate translocation pore; other site 1042876002379 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042876002380 endonuclease III; Region: ENDO3c; smart00478 1042876002381 minor groove reading motif; other site 1042876002382 helix-hairpin-helix signature motif; other site 1042876002383 substrate binding pocket [chemical binding]; other site 1042876002384 active site 1042876002385 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1042876002386 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1042876002387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876002388 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1042876002389 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 1042876002390 DNA binding site [nucleotide binding] 1042876002391 active site 1042876002392 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 1042876002393 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 1042876002394 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876002395 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 1042876002396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876002397 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 1042876002398 NAD(P) binding site [chemical binding]; other site 1042876002399 catalytic residues [active] 1042876002400 catalytic residues [active] 1042876002401 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 1042876002402 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876002403 Na binding site [ion binding]; other site 1042876002404 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1042876002405 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042876002406 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1042876002407 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 1042876002408 Cl binding site [ion binding]; other site 1042876002409 oligomer interface [polypeptide binding]; other site 1042876002410 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1042876002411 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876002412 Walker A/P-loop; other site 1042876002413 ATP binding site [chemical binding]; other site 1042876002414 Q-loop/lid; other site 1042876002415 ABC transporter signature motif; other site 1042876002416 Walker B; other site 1042876002417 D-loop; other site 1042876002418 H-loop/switch region; other site 1042876002419 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876002420 dimer interface [polypeptide binding]; other site 1042876002421 conserved gate region; other site 1042876002422 putative PBP binding loops; other site 1042876002423 ABC-ATPase subunit interface; other site 1042876002424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1042876002425 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876002426 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1042876002427 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 1042876002428 substrate binding pocket [chemical binding]; other site 1042876002429 membrane-bound complex binding site; other site 1042876002430 hinge residues; other site 1042876002431 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 1042876002432 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876002433 DNA-binding site [nucleotide binding]; DNA binding site 1042876002434 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 1042876002435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002436 homodimer interface [polypeptide binding]; other site 1042876002437 catalytic residue [active] 1042876002438 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1042876002439 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 1042876002440 tetramer interface [polypeptide binding]; other site 1042876002441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002442 catalytic residue [active] 1042876002443 ectoine utilization protein EutC; Validated; Region: PRK08291 1042876002444 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042876002445 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 1042876002446 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042876002447 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 1042876002448 active site 1042876002449 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 1042876002450 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 1042876002451 putative active site [active] 1042876002452 Zn binding site [ion binding]; other site 1042876002453 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876002454 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042876002455 tetramerization interface [polypeptide binding]; other site 1042876002456 NAD(P) binding site [chemical binding]; other site 1042876002457 catalytic residues [active] 1042876002458 hypothetical protein; Provisional; Region: PRK07482 1042876002459 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 1042876002460 inhibitor-cofactor binding pocket; inhibition site 1042876002461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002462 catalytic residue [active] 1042876002463 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876002464 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 1042876002465 catalytic triad [active] 1042876002466 dimer interface [polypeptide binding]; other site 1042876002467 conserved cis-peptide bond; other site 1042876002468 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 1042876002469 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1042876002470 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042876002471 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1042876002472 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042876002473 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042876002474 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876002475 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876002476 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1042876002477 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042876002478 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042876002479 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042876002480 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 1042876002481 Predicted transcriptional regulator [Transcription]; Region: COG2345 1042876002482 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1042876002483 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1042876002484 Transposase; Region: HTH_Tnp_1; cl17663 1042876002485 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876002486 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876002487 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876002488 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876002489 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876002490 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876002491 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876002492 Predicted transcriptional regulators [Transcription]; Region: COG1695 1042876002493 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1042876002494 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1042876002495 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1042876002496 Chromate transporter; Region: Chromate_transp; pfam02417 1042876002497 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1042876002498 putative phage-type endonuclease; Region: phage_rel_nuc; TIGR03033 1042876002499 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 1042876002500 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 1042876002501 dimerization interface [polypeptide binding]; other site 1042876002502 putative DNA binding site [nucleotide binding]; other site 1042876002503 putative Zn2+ binding site [ion binding]; other site 1042876002504 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876002505 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 1042876002506 phosphate binding site [ion binding]; other site 1042876002507 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1042876002508 putative NAD(P) binding site [chemical binding]; other site 1042876002509 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876002510 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042876002511 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1042876002512 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1042876002513 putative NAD(P) binding site [chemical binding]; other site 1042876002514 dimer interface [polypeptide binding]; other site 1042876002515 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1042876002516 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1042876002517 Thioredoxin; Region: Thioredoxin_4; pfam13462 1042876002518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876002519 Walker A/P-loop; other site 1042876002520 ATP binding site [chemical binding]; other site 1042876002521 Q-loop/lid; other site 1042876002522 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042876002523 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876002524 AAA domain; Region: AAA_21; pfam13304 1042876002525 Walker A/P-loop; other site 1042876002526 ATP binding site [chemical binding]; other site 1042876002527 Q-loop/lid; other site 1042876002528 ABC transporter signature motif; other site 1042876002529 Walker B; other site 1042876002530 D-loop; other site 1042876002531 H-loop/switch region; other site 1042876002532 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1042876002533 Putative helicase; Region: TraI_2; pfam07514 1042876002534 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1042876002535 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876002536 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 1042876002537 dimerization interface [polypeptide binding]; other site 1042876002538 putative DNA binding site [nucleotide binding]; other site 1042876002539 putative Zn2+ binding site [ion binding]; other site 1042876002540 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876002541 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 1042876002542 FMN binding site [chemical binding]; other site 1042876002543 active site 1042876002544 substrate binding site [chemical binding]; other site 1042876002545 catalytic residue [active] 1042876002546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876002548 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 1042876002549 putative effector binding pocket; other site 1042876002550 dimerization interface [polypeptide binding]; other site 1042876002551 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1042876002552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876002553 NAD(P) binding site [chemical binding]; other site 1042876002554 active site 1042876002555 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1042876002556 putative homodimer interface [polypeptide binding]; other site 1042876002557 putative homotetramer interface [polypeptide binding]; other site 1042876002558 putative metal binding site [ion binding]; other site 1042876002559 putative homodimer-homodimer interface [polypeptide binding]; other site 1042876002560 putative allosteric switch controlling residues; other site 1042876002561 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1042876002562 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1042876002563 substrate binding site [chemical binding]; other site 1042876002564 catalytic Zn binding site [ion binding]; other site 1042876002565 NAD binding site [chemical binding]; other site 1042876002566 structural Zn binding site [ion binding]; other site 1042876002567 dimer interface [polypeptide binding]; other site 1042876002568 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042876002569 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876002570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876002571 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002572 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 1042876002573 dimerization interface [polypeptide binding]; other site 1042876002574 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876002575 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1042876002576 putative NAD(P) binding site [chemical binding]; other site 1042876002577 integrase; Provisional; Region: PRK09692 1042876002578 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 1042876002579 active site 1042876002580 Int/Topo IB signature motif; other site 1042876002581 GTP-binding protein YchF; Reviewed; Region: PRK09601 1042876002582 YchF GTPase; Region: YchF; cd01900 1042876002583 G1 box; other site 1042876002584 GTP/Mg2+ binding site [chemical binding]; other site 1042876002585 Switch I region; other site 1042876002586 G2 box; other site 1042876002587 Switch II region; other site 1042876002588 G3 box; other site 1042876002589 G4 box; other site 1042876002590 G5 box; other site 1042876002591 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 1042876002592 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 1042876002593 putative active site [active] 1042876002594 catalytic residue [active] 1042876002595 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1042876002596 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1042876002597 5S rRNA interface [nucleotide binding]; other site 1042876002598 CTC domain interface [polypeptide binding]; other site 1042876002599 L16 interface [polypeptide binding]; other site 1042876002600 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1042876002601 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1042876002602 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876002603 active site 1042876002604 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1042876002605 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1042876002606 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1042876002607 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1042876002608 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 1042876002609 TPR motif; other site 1042876002610 binding surface 1042876002611 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1042876002612 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 1042876002613 binding surface 1042876002614 TPR motif; other site 1042876002615 TPR repeat; Region: TPR_11; pfam13414 1042876002616 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 1042876002617 binding surface 1042876002618 TPR motif; other site 1042876002619 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 1042876002620 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 1042876002621 active site 1042876002622 metal-binding site 1042876002623 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042876002624 hypothetical protein; Provisional; Region: PRK07206 1042876002625 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1042876002626 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876002627 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876002628 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042876002629 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876002630 putative active site [active] 1042876002631 putative NTP binding site [chemical binding]; other site 1042876002632 putative nucleic acid binding site [nucleotide binding]; other site 1042876002633 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042876002634 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042876002635 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876002636 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1042876002637 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876002638 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876002639 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876002640 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1042876002641 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1042876002642 tRNA; other site 1042876002643 putative tRNA binding site [nucleotide binding]; other site 1042876002644 putative NADP binding site [chemical binding]; other site 1042876002645 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1042876002646 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1042876002647 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042876002648 RF-1 domain; Region: RF-1; pfam00472 1042876002649 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1042876002650 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876002651 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1042876002652 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 1042876002653 ATP binding site [chemical binding]; other site 1042876002654 substrate interface [chemical binding]; other site 1042876002655 glutamate racemase; Provisional; Region: PRK00865 1042876002656 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042876002657 short chain dehydrogenase; Provisional; Region: PRK06181 1042876002658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876002659 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1042876002660 DNA photolyase; Region: DNA_photolyase; pfam00875 1042876002661 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1042876002662 DNA binding residues [nucleotide binding] 1042876002663 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042876002664 B12 binding domain; Region: B12-binding_2; cl03653 1042876002665 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1042876002666 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1042876002667 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1042876002668 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876002669 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1042876002670 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1042876002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876002672 NAD(P) binding site [chemical binding]; other site 1042876002673 active site 1042876002674 ferrochelatase; Reviewed; Region: hemH; PRK00035 1042876002675 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 1042876002676 C-terminal domain interface [polypeptide binding]; other site 1042876002677 active site 1042876002678 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 1042876002679 active site 1042876002680 N-terminal domain interface [polypeptide binding]; other site 1042876002681 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1042876002682 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876002683 active site 1042876002684 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876002685 active site 1042876002686 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 1042876002687 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 1042876002688 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1042876002689 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1042876002690 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876002691 putative acyl-acceptor binding pocket; other site 1042876002692 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1042876002693 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1042876002694 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1042876002695 Peptidase family M48; Region: Peptidase_M48; pfam01435 1042876002696 Predicted membrane protein [Function unknown]; Region: COG2119 1042876002697 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1042876002698 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1042876002699 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1042876002700 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1042876002701 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876002702 S-adenosylmethionine binding site [chemical binding]; other site 1042876002703 glycerate dehydrogenase; Provisional; Region: PRK06487 1042876002704 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1042876002705 putative ligand binding site [chemical binding]; other site 1042876002706 putative NAD binding site [chemical binding]; other site 1042876002707 catalytic site [active] 1042876002708 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042876002709 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876002710 acyl-activating enzyme (AAE) consensus motif; other site 1042876002711 AMP binding site [chemical binding]; other site 1042876002712 active site 1042876002713 CoA binding site [chemical binding]; other site 1042876002714 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042876002715 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042876002716 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1042876002717 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 1042876002718 DNA binding residues [nucleotide binding] 1042876002719 dimerization interface [polypeptide binding]; other site 1042876002720 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876002721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876002722 active site 1042876002723 phosphorylation site [posttranslational modification] 1042876002724 intermolecular recognition site; other site 1042876002725 dimerization interface [polypeptide binding]; other site 1042876002726 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 1042876002727 binding surface 1042876002728 TPR motif; other site 1042876002729 TPR repeat; Region: TPR_11; pfam13414 1042876002730 TPR repeat; Region: TPR_11; pfam13414 1042876002731 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876002732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876002733 ATP binding site [chemical binding]; other site 1042876002734 Mg2+ binding site [ion binding]; other site 1042876002735 G-X-G motif; other site 1042876002736 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1042876002737 PemK-like protein; Region: PemK; cl00995 1042876002738 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042876002739 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876002740 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876002741 ligand binding site [chemical binding]; other site 1042876002742 phosphate acetyltransferase; Reviewed; Region: PRK05632 1042876002743 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1042876002744 DRTGG domain; Region: DRTGG; pfam07085 1042876002745 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1042876002746 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 1042876002747 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1042876002748 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876002749 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 1042876002750 catalytic residues [active] 1042876002751 dimer interface [polypeptide binding]; other site 1042876002752 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876002753 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 1042876002754 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 1042876002755 PAS domain; Region: PAS_9; pfam13426 1042876002756 putative active site [active] 1042876002757 heme pocket [chemical binding]; other site 1042876002758 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 1042876002759 PAS domain; Region: PAS_9; pfam13426 1042876002760 putative active site [active] 1042876002761 heme pocket [chemical binding]; other site 1042876002762 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876002763 dimer interface [polypeptide binding]; other site 1042876002764 putative CheW interface [polypeptide binding]; other site 1042876002765 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1042876002766 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1042876002767 thioredoxin reductase; Provisional; Region: PRK10262 1042876002768 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876002769 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876002770 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1042876002771 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 1042876002772 dimerization interface [polypeptide binding]; other site 1042876002773 active site 1042876002774 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1042876002775 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1042876002776 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 1042876002777 amidase catalytic site [active] 1042876002778 Zn binding residues [ion binding]; other site 1042876002779 substrate binding site [chemical binding]; other site 1042876002780 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1042876002781 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042876002782 active site 1042876002783 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1042876002784 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042876002785 DNA binding site [nucleotide binding] 1042876002786 domain linker motif; other site 1042876002787 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1042876002788 dimerization interface [polypeptide binding]; other site 1042876002789 ligand binding site [chemical binding]; other site 1042876002790 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1042876002791 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 1042876002792 active site 1042876002793 phosphorylation site [posttranslational modification] 1042876002794 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 1042876002795 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 1042876002796 dimerization domain swap beta strand [polypeptide binding]; other site 1042876002797 regulatory protein interface [polypeptide binding]; other site 1042876002798 active site 1042876002799 regulatory phosphorylation site [posttranslational modification]; other site 1042876002800 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1042876002801 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1042876002802 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042876002803 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042876002804 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1042876002805 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 1042876002806 putative substrate binding site [chemical binding]; other site 1042876002807 putative ATP binding site [chemical binding]; other site 1042876002808 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 1042876002809 active site 1042876002810 P-loop; other site 1042876002811 phosphorylation site [posttranslational modification] 1042876002812 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1042876002813 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 1042876002814 active site 1042876002815 P-loop; other site 1042876002816 phosphorylation site [posttranslational modification] 1042876002817 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 1042876002818 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1042876002819 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1042876002820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876002821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876002822 metal binding site [ion binding]; metal-binding site 1042876002823 active site 1042876002824 I-site; other site 1042876002825 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876002826 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876002827 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 1042876002828 dimer interface [polypeptide binding]; other site 1042876002829 phosphorylation site [posttranslational modification] 1042876002830 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876002831 ATP binding site [chemical binding]; other site 1042876002832 G-X-G motif; other site 1042876002833 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876002834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876002835 active site 1042876002836 phosphorylation site [posttranslational modification] 1042876002837 intermolecular recognition site; other site 1042876002838 dimerization interface [polypeptide binding]; other site 1042876002839 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 1042876002840 DNA binding site [nucleotide binding] 1042876002841 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1042876002842 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876002843 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876002844 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 1042876002845 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876002846 Flagellin N-methylase; Region: FliB; pfam03692 1042876002847 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042876002848 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876002849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876002850 active site 1042876002851 phosphorylation site [posttranslational modification] 1042876002852 intermolecular recognition site; other site 1042876002853 dimerization interface [polypeptide binding]; other site 1042876002854 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1042876002855 GAF domain; Region: GAF; pfam01590 1042876002856 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876002857 Walker A motif; other site 1042876002858 ATP binding site [chemical binding]; other site 1042876002859 Walker B motif; other site 1042876002860 arginine finger; other site 1042876002861 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042876002862 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1042876002863 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 1042876002864 heme-binding site [chemical binding]; other site 1042876002865 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 1042876002866 FAD binding pocket [chemical binding]; other site 1042876002867 FAD binding motif [chemical binding]; other site 1042876002868 phosphate binding motif [ion binding]; other site 1042876002869 beta-alpha-beta structure motif; other site 1042876002870 NAD binding pocket [chemical binding]; other site 1042876002871 Heme binding pocket [chemical binding]; other site 1042876002872 disulfide bond formation protein B; Provisional; Region: PRK02110 1042876002873 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1042876002874 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1042876002875 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1042876002876 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1042876002877 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 1042876002878 D-pathway; other site 1042876002879 Putative ubiquinol binding site [chemical binding]; other site 1042876002880 Low-spin heme (heme b) binding site [chemical binding]; other site 1042876002881 Putative water exit pathway; other site 1042876002882 Binuclear center (heme o3/CuB) [ion binding]; other site 1042876002883 K-pathway; other site 1042876002884 Putative proton exit pathway; other site 1042876002885 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 1042876002886 Subunit I/III interface [polypeptide binding]; other site 1042876002887 Subunit III/IV interface [polypeptide binding]; other site 1042876002888 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 1042876002889 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1042876002890 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042876002891 aminotransferase; Validated; Region: PRK08175 1042876002892 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 1042876002893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876002894 homodimer interface [polypeptide binding]; other site 1042876002895 catalytic residue [active] 1042876002896 Flagellin N-methylase; Region: FliB; cl00497 1042876002897 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876002898 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042876002899 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042876002900 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 1042876002901 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1042876002902 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1042876002903 active site residue [active] 1042876002904 selenophosphate synthetase; Provisional; Region: PRK00943 1042876002905 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 1042876002906 dimerization interface [polypeptide binding]; other site 1042876002907 putative ATP binding site [chemical binding]; other site 1042876002908 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1042876002909 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 1042876002910 substrate binding pocket [chemical binding]; other site 1042876002911 membrane-bound complex binding site; other site 1042876002912 hinge residues; other site 1042876002913 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1042876002914 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876002915 Walker A/P-loop; other site 1042876002916 ATP binding site [chemical binding]; other site 1042876002917 Q-loop/lid; other site 1042876002918 ABC transporter signature motif; other site 1042876002919 Walker B; other site 1042876002920 D-loop; other site 1042876002921 H-loop/switch region; other site 1042876002922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876002923 dimer interface [polypeptide binding]; other site 1042876002924 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1042876002925 conserved gate region; other site 1042876002926 putative PBP binding loops; other site 1042876002927 ABC-ATPase subunit interface; other site 1042876002928 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1042876002929 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1042876002930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876002931 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876002932 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876002933 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042876002934 conserved cys residue [active] 1042876002935 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876002936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876002937 putative transposase OrfB; Reviewed; Region: PHA02517 1042876002938 HTH-like domain; Region: HTH_21; pfam13276 1042876002939 Integrase core domain; Region: rve; pfam00665 1042876002940 Integrase core domain; Region: rve_2; pfam13333 1042876002941 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876002942 Transposase; Region: HTH_Tnp_1; pfam01527 1042876002943 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876002944 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 1042876002945 substrate binding pocket [chemical binding]; other site 1042876002946 membrane-bound complex binding site; other site 1042876002947 hinge residues; other site 1042876002948 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876002949 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876002950 Walker A/P-loop; other site 1042876002951 ATP binding site [chemical binding]; other site 1042876002952 Q-loop/lid; other site 1042876002953 ABC transporter signature motif; other site 1042876002954 Walker B; other site 1042876002955 D-loop; other site 1042876002956 H-loop/switch region; other site 1042876002957 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876002958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876002959 dimer interface [polypeptide binding]; other site 1042876002960 conserved gate region; other site 1042876002961 putative PBP binding loops; other site 1042876002962 ABC-ATPase subunit interface; other site 1042876002963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876002964 dimer interface [polypeptide binding]; other site 1042876002965 ABC-ATPase subunit interface; other site 1042876002966 putative PBP binding loops; other site 1042876002967 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042876002968 Amidase; Region: Amidase; pfam01425 1042876002969 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1042876002970 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 1042876002971 substrate binding pocket [chemical binding]; other site 1042876002972 membrane-bound complex binding site; other site 1042876002973 hinge residues; other site 1042876002974 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 1042876002975 homotrimer interaction site [polypeptide binding]; other site 1042876002976 putative active site [active] 1042876002977 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1042876002978 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876002979 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876002980 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1042876002981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876002982 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 1042876002983 dimerization interface [polypeptide binding]; other site 1042876002984 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1042876002985 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1042876002986 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1042876002987 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1042876002988 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1042876002989 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1042876002990 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1042876002991 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1042876002992 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1042876002993 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1042876002994 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1042876002995 Protein export membrane protein; Region: SecD_SecF; pfam02355 1042876002996 hypothetical protein; Provisional; Region: PRK11280 1042876002997 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1042876002998 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 1042876002999 active site 1042876003000 dimerization interface [polypeptide binding]; other site 1042876003001 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1042876003002 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1042876003003 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1042876003004 serine O-acetyltransferase; Region: cysE; TIGR01172 1042876003005 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 1042876003006 trimer interface [polypeptide binding]; other site 1042876003007 active site 1042876003008 substrate binding site [chemical binding]; other site 1042876003009 CoA binding site [chemical binding]; other site 1042876003010 Transcriptional regulator; Region: Rrf2; cl17282 1042876003011 Rrf2 family protein; Region: rrf2_super; TIGR00738 1042876003012 cysteine desulfurase; Provisional; Region: PRK14012 1042876003013 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042876003014 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876003015 catalytic residue [active] 1042876003016 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1042876003017 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1042876003018 trimerization site [polypeptide binding]; other site 1042876003019 active site 1042876003020 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 1042876003021 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1042876003022 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 1042876003023 HSP70 interaction site [polypeptide binding]; other site 1042876003024 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1042876003025 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1042876003026 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1042876003027 nucleotide binding site [chemical binding]; other site 1042876003028 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042876003029 SBD interface [polypeptide binding]; other site 1042876003030 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042876003031 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 1042876003032 catalytic loop [active] 1042876003033 iron binding site [ion binding]; other site 1042876003034 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 1042876003035 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 1042876003036 active site 1042876003037 multimer interface [polypeptide binding]; other site 1042876003038 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1042876003039 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 1042876003040 FeS/SAM binding site; other site 1042876003041 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1042876003042 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 1042876003043 binding surface 1042876003044 TPR motif; other site 1042876003045 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1042876003046 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 1042876003047 non-specific DNA binding site [nucleotide binding]; other site 1042876003048 salt bridge; other site 1042876003049 sequence-specific DNA binding site [nucleotide binding]; other site 1042876003050 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1042876003051 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042876003052 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1042876003053 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1042876003054 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1042876003055 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 1042876003056 dimer interface [polypeptide binding]; other site 1042876003057 motif 1; other site 1042876003058 active site 1042876003059 motif 2; other site 1042876003060 motif 3; other site 1042876003061 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 1042876003062 anticodon binding site; other site 1042876003063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1042876003064 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1042876003065 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1042876003066 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1042876003067 Trp docking motif [polypeptide binding]; other site 1042876003068 active site 1042876003069 GTP-binding protein Der; Reviewed; Region: PRK00093 1042876003070 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1042876003071 G1 box; other site 1042876003072 GTP/Mg2+ binding site [chemical binding]; other site 1042876003073 Switch I region; other site 1042876003074 G2 box; other site 1042876003075 Switch II region; other site 1042876003076 G3 box; other site 1042876003077 G4 box; other site 1042876003078 G5 box; other site 1042876003079 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1042876003080 G1 box; other site 1042876003081 GTP/Mg2+ binding site [chemical binding]; other site 1042876003082 Switch I region; other site 1042876003083 G2 box; other site 1042876003084 G3 box; other site 1042876003085 Switch II region; other site 1042876003086 G4 box; other site 1042876003087 G5 box; other site 1042876003088 methionine aminotransferase; Validated; Region: PRK09082 1042876003089 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 1042876003090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003091 homodimer interface [polypeptide binding]; other site 1042876003092 catalytic residue [active] 1042876003093 C-N hydrolase family amidase; Provisional; Region: PRK10438 1042876003094 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1042876003095 putative active site [active] 1042876003096 catalytic triad [active] 1042876003097 dimer interface [polypeptide binding]; other site 1042876003098 multimer interface [polypeptide binding]; other site 1042876003099 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042876003100 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1042876003101 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042876003102 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1042876003103 Flavodoxin; Region: Flavodoxin_1; pfam00258 1042876003104 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 1042876003105 FAD binding pocket [chemical binding]; other site 1042876003106 FAD binding motif [chemical binding]; other site 1042876003107 catalytic residues [active] 1042876003108 NAD binding pocket [chemical binding]; other site 1042876003109 phosphate binding motif [ion binding]; other site 1042876003110 beta-alpha-beta structure motif; other site 1042876003111 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1042876003112 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 1042876003113 N-terminal plug; other site 1042876003114 ligand-binding site [chemical binding]; other site 1042876003115 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1042876003116 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1042876003117 Sel1 repeat; Region: Sel1; cl02723 1042876003118 Sel1-like repeats; Region: SEL1; smart00671 1042876003119 Sel1 repeat; Region: Sel1; cl02723 1042876003120 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1042876003121 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1042876003122 dimer interface [polypeptide binding]; other site 1042876003123 active site 1042876003124 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876003125 catalytic residues [active] 1042876003126 substrate binding site [chemical binding]; other site 1042876003127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876003128 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1042876003129 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 1042876003130 DNA binding residues [nucleotide binding] 1042876003131 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876003132 FecR protein; Region: FecR; pfam04773 1042876003133 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1042876003134 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 1042876003135 N-terminal plug; other site 1042876003136 ligand-binding site [chemical binding]; other site 1042876003137 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1042876003138 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1042876003139 Walker A/P-loop; other site 1042876003140 ATP binding site [chemical binding]; other site 1042876003141 Q-loop/lid; other site 1042876003142 ABC transporter signature motif; other site 1042876003143 Walker B; other site 1042876003144 D-loop; other site 1042876003145 H-loop/switch region; other site 1042876003146 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 1042876003147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003148 dimer interface [polypeptide binding]; other site 1042876003149 conserved gate region; other site 1042876003150 ABC-ATPase subunit interface; other site 1042876003151 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 1042876003152 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042876003153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003154 dimer interface [polypeptide binding]; other site 1042876003155 conserved gate region; other site 1042876003156 putative PBP binding loops; other site 1042876003157 ABC-ATPase subunit interface; other site 1042876003158 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1042876003159 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1042876003160 G1 box; other site 1042876003161 putative GEF interaction site [polypeptide binding]; other site 1042876003162 GTP/Mg2+ binding site [chemical binding]; other site 1042876003163 Switch I region; other site 1042876003164 G2 box; other site 1042876003165 G3 box; other site 1042876003166 Switch II region; other site 1042876003167 G4 box; other site 1042876003168 G5 box; other site 1042876003169 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 1042876003170 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876003171 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876003172 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1042876003173 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876003174 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876003175 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042876003176 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042876003177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876003178 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1042876003179 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042876003180 Walker A/P-loop; other site 1042876003181 ATP binding site [chemical binding]; other site 1042876003182 Q-loop/lid; other site 1042876003183 ABC transporter signature motif; other site 1042876003184 Walker B; other site 1042876003185 D-loop; other site 1042876003186 H-loop/switch region; other site 1042876003187 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1042876003188 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1042876003189 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042876003190 Walker A/P-loop; other site 1042876003191 ATP binding site [chemical binding]; other site 1042876003192 Q-loop/lid; other site 1042876003193 ABC transporter signature motif; other site 1042876003194 Walker B; other site 1042876003195 D-loop; other site 1042876003196 H-loop/switch region; other site 1042876003197 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042876003198 dipeptide transporter; Provisional; Region: PRK10913 1042876003199 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1042876003200 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003201 putative PBP binding loops; other site 1042876003202 dimer interface [polypeptide binding]; other site 1042876003203 ABC-ATPase subunit interface; other site 1042876003204 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1042876003205 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003206 dimer interface [polypeptide binding]; other site 1042876003207 conserved gate region; other site 1042876003208 putative PBP binding loops; other site 1042876003209 ABC-ATPase subunit interface; other site 1042876003210 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042876003211 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1042876003212 peptide binding site [polypeptide binding]; other site 1042876003213 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876003214 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042876003215 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1042876003216 peptide binding site [polypeptide binding]; other site 1042876003217 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1042876003218 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042876003219 peptide binding site [polypeptide binding]; other site 1042876003220 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1042876003221 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1042876003222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876003223 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876003224 ATP binding site [chemical binding]; other site 1042876003225 G-X-G motif; other site 1042876003226 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1042876003227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876003228 active site 1042876003229 phosphorylation site [posttranslational modification] 1042876003230 intermolecular recognition site; other site 1042876003231 dimerization interface [polypeptide binding]; other site 1042876003232 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876003233 Predicted permeases [General function prediction only]; Region: COG0679 1042876003234 aromatic amino acid transporter; Provisional; Region: PRK10238 1042876003235 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042876003236 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1042876003237 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042876003238 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1042876003239 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1042876003240 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1042876003241 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1042876003242 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1042876003243 GatB domain; Region: GatB_Yqey; smart00845 1042876003244 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1042876003245 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1042876003246 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1042876003247 rod shape-determining protein MreB; Provisional; Region: PRK13927 1042876003248 MreB and similar proteins; Region: MreB_like; cd10225 1042876003249 nucleotide binding site [chemical binding]; other site 1042876003250 Mg binding site [ion binding]; other site 1042876003251 putative protofilament interaction site [polypeptide binding]; other site 1042876003252 RodZ interaction site [polypeptide binding]; other site 1042876003253 rod shape-determining protein MreC; Provisional; Region: PRK13922 1042876003254 rod shape-determining protein MreC; Region: MreC; pfam04085 1042876003255 rod shape-determining protein MreD; Region: MreD; cl01087 1042876003256 Maf-like protein; Region: Maf; pfam02545 1042876003257 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 1042876003258 active site 1042876003259 dimer interface [polypeptide binding]; other site 1042876003260 ribonuclease G; Provisional; Region: PRK11712 1042876003261 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 1042876003262 homodimer interface [polypeptide binding]; other site 1042876003263 oligonucleotide binding site [chemical binding]; other site 1042876003264 TIGR02099 family protein; Region: TIGR02099 1042876003265 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1042876003266 nitrilase; Region: PLN02798 1042876003267 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1042876003268 putative active site [active] 1042876003269 catalytic triad [active] 1042876003270 dimer interface [polypeptide binding]; other site 1042876003271 protease TldD; Provisional; Region: tldD; PRK10735 1042876003272 hypothetical protein; Provisional; Region: PRK05255 1042876003273 peptidase PmbA; Provisional; Region: PRK11040 1042876003274 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1042876003275 Class II fumarases; Region: Fumarase_classII; cd01362 1042876003276 active site 1042876003277 tetramer interface [polypeptide binding]; other site 1042876003278 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1042876003279 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1042876003280 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1042876003281 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 1042876003282 dimerization domain swap beta strand [polypeptide binding]; other site 1042876003283 regulatory protein interface [polypeptide binding]; other site 1042876003284 active site 1042876003285 regulatory phosphorylation site [posttranslational modification]; other site 1042876003286 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1042876003287 AAA domain; Region: AAA_18; pfam13238 1042876003288 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 1042876003289 active site 1042876003290 phosphorylation site [posttranslational modification] 1042876003291 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 1042876003292 30S subunit binding site; other site 1042876003293 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1042876003294 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1042876003295 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1042876003296 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1042876003297 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1042876003298 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1042876003299 Walker A/P-loop; other site 1042876003300 ATP binding site [chemical binding]; other site 1042876003301 Q-loop/lid; other site 1042876003302 ABC transporter signature motif; other site 1042876003303 Walker B; other site 1042876003304 D-loop; other site 1042876003305 H-loop/switch region; other site 1042876003306 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1042876003307 OstA-like protein; Region: OstA; pfam03968 1042876003308 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1042876003309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1042876003310 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1042876003311 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 1042876003312 active site 1042876003313 motif I; other site 1042876003314 motif II; other site 1042876003315 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1042876003316 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 1042876003317 putative active site [active] 1042876003318 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 1042876003319 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1042876003320 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1042876003321 Walker A/P-loop; other site 1042876003322 ATP binding site [chemical binding]; other site 1042876003323 Q-loop/lid; other site 1042876003324 ABC transporter signature motif; other site 1042876003325 Walker B; other site 1042876003326 D-loop; other site 1042876003327 H-loop/switch region; other site 1042876003328 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1042876003329 Permease; Region: Permease; cl00510 1042876003330 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1042876003331 mce related protein; Region: MCE; pfam02470 1042876003332 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 1042876003333 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 1042876003334 anti sigma factor interaction site; other site 1042876003335 regulatory phosphorylation site [posttranslational modification]; other site 1042876003336 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1042876003337 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1042876003338 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 1042876003339 hinge; other site 1042876003340 active site 1042876003341 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1042876003342 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1042876003343 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1042876003344 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 1042876003345 NAD binding site [chemical binding]; other site 1042876003346 dimerization interface [polypeptide binding]; other site 1042876003347 product binding site; other site 1042876003348 substrate binding site [chemical binding]; other site 1042876003349 zinc binding site [ion binding]; other site 1042876003350 catalytic residues [active] 1042876003351 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1042876003352 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 1042876003353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003354 homodimer interface [polypeptide binding]; other site 1042876003355 catalytic residue [active] 1042876003356 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876003357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876003358 DNA-binding site [nucleotide binding]; DNA binding site 1042876003359 FCD domain; Region: FCD; pfam07729 1042876003360 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1042876003361 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876003362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876003363 Transposase; Region: HTH_Tnp_1; cl17663 1042876003364 HTH-like domain; Region: HTH_21; pfam13276 1042876003365 Integrase core domain; Region: rve; pfam00665 1042876003366 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1042876003367 Integrase core domain; Region: rve_2; pfam13333 1042876003368 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042876003369 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1042876003370 GIY-YIG motif/motif A; other site 1042876003371 putative active site [active] 1042876003372 putative metal binding site [ion binding]; other site 1042876003373 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1042876003374 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1042876003375 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 1042876003376 IHF - DNA interface [nucleotide binding]; other site 1042876003377 IHF dimer interface [polypeptide binding]; other site 1042876003378 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1042876003379 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876003380 S-adenosylmethionine binding site [chemical binding]; other site 1042876003381 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1042876003382 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1042876003383 HIGH motif; other site 1042876003384 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042876003385 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1042876003386 active site 1042876003387 KMSKS motif; other site 1042876003388 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1042876003389 tRNA binding surface [nucleotide binding]; other site 1042876003390 anticodon binding site; other site 1042876003391 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1042876003392 DNA polymerase III subunit chi; Validated; Region: PRK05728 1042876003393 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1042876003394 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 1042876003395 interface (dimer of trimers) [polypeptide binding]; other site 1042876003396 Substrate-binding/catalytic site; other site 1042876003397 Zn-binding sites [ion binding]; other site 1042876003398 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1042876003399 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1042876003400 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1042876003401 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1042876003402 RDD family; Region: RDD; pfam06271 1042876003403 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 1042876003404 DNA-binding site [nucleotide binding]; DNA binding site 1042876003405 RNA-binding motif; other site 1042876003406 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1042876003407 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042876003408 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1042876003409 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1042876003410 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1042876003411 glycine dehydrogenase; Provisional; Region: PRK05367 1042876003412 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 1042876003413 tetramer interface [polypeptide binding]; other site 1042876003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003415 catalytic residue [active] 1042876003416 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 1042876003417 tetramer interface [polypeptide binding]; other site 1042876003418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003419 catalytic residue [active] 1042876003420 glycine cleavage system protein H; Provisional; Region: PRK13380 1042876003421 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 1042876003422 lipoyl attachment site [posttranslational modification]; other site 1042876003423 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1042876003424 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 1042876003425 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 1042876003426 putative NADP binding site [chemical binding]; other site 1042876003427 putative substrate binding site [chemical binding]; other site 1042876003428 active site 1042876003429 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 1042876003430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876003431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876003432 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 1042876003433 dimerization interface [polypeptide binding]; other site 1042876003434 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1042876003435 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1042876003436 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1042876003437 putative aromatic amino acid binding site; other site 1042876003438 PAS domain; Region: PAS; smart00091 1042876003439 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876003440 Walker A motif; other site 1042876003441 ATP binding site [chemical binding]; other site 1042876003442 Walker B motif; other site 1042876003443 arginine finger; other site 1042876003444 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1042876003445 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 1042876003446 putative substrate binding site [chemical binding]; other site 1042876003447 nucleotide binding site [chemical binding]; other site 1042876003448 nucleotide binding site [chemical binding]; other site 1042876003449 homodimer interface [polypeptide binding]; other site 1042876003450 ornithine carbamoyltransferase; Validated; Region: PRK02102 1042876003451 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042876003452 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042876003453 arginine deiminase; Provisional; Region: PRK01388 1042876003454 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1042876003455 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1042876003456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1042876003457 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 1042876003458 heme binding pocket [chemical binding]; other site 1042876003459 heme ligand [chemical binding]; other site 1042876003460 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876003461 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1042876003462 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 1042876003463 N-terminal plug; other site 1042876003464 ligand-binding site [chemical binding]; other site 1042876003465 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876003466 FecR protein; Region: FecR; pfam04773 1042876003467 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1042876003468 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876003469 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 1042876003470 DNA binding residues [nucleotide binding] 1042876003471 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1042876003472 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042876003473 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042876003474 phosphogluconate dehydratase; Validated; Region: PRK09054 1042876003475 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1042876003476 glucokinase; Provisional; Region: glk; PRK00292 1042876003477 glucokinase, proteobacterial type; Region: glk; TIGR00749 1042876003478 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876003479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876003480 active site 1042876003481 phosphorylation site [posttranslational modification] 1042876003482 intermolecular recognition site; other site 1042876003483 dimerization interface [polypeptide binding]; other site 1042876003484 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 1042876003485 DNA binding site [nucleotide binding] 1042876003486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876003487 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876003488 ATP binding site [chemical binding]; other site 1042876003489 Mg2+ binding site [ion binding]; other site 1042876003490 G-X-G motif; other site 1042876003491 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1042876003492 putative active cleft [active] 1042876003493 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042876003494 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1042876003495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003496 dimer interface [polypeptide binding]; other site 1042876003497 conserved gate region; other site 1042876003498 putative PBP binding loops; other site 1042876003499 ABC-ATPase subunit interface; other site 1042876003500 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042876003501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003502 dimer interface [polypeptide binding]; other site 1042876003503 conserved gate region; other site 1042876003504 putative PBP binding loops; other site 1042876003505 ABC-ATPase subunit interface; other site 1042876003506 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1042876003507 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1042876003508 Walker A/P-loop; other site 1042876003509 ATP binding site [chemical binding]; other site 1042876003510 Q-loop/lid; other site 1042876003511 ABC transporter signature motif; other site 1042876003512 Walker B; other site 1042876003513 D-loop; other site 1042876003514 H-loop/switch region; other site 1042876003515 TOBE domain; Region: TOBE_2; pfam08402 1042876003516 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1042876003517 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1042876003518 active site 1042876003519 phosphate binding residues; other site 1042876003520 catalytic residues [active] 1042876003521 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1042876003522 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042876003523 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 1042876003524 putative active site [active] 1042876003525 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1042876003526 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042876003527 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042876003528 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 1042876003529 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1042876003530 putative active site [active] 1042876003531 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1042876003532 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1042876003533 active site 1042876003534 intersubunit interface [polypeptide binding]; other site 1042876003535 catalytic residue [active] 1042876003536 2-isopropylmalate synthase; Validated; Region: PRK03739 1042876003537 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1042876003538 active site 1042876003539 catalytic residues [active] 1042876003540 metal binding site [ion binding]; metal-binding site 1042876003541 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1042876003542 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1042876003543 Glypican; Region: Glypican; pfam01153 1042876003544 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042876003545 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1042876003546 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 1042876003547 generic binding surface II; other site 1042876003548 generic binding surface I; other site 1042876003549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876003550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876003551 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 1042876003552 dimerization interface [polypeptide binding]; other site 1042876003553 substrate binding pocket [chemical binding]; other site 1042876003554 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1042876003555 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 1042876003556 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 1042876003557 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 1042876003558 active site 1042876003559 GMP synthase; Reviewed; Region: guaA; PRK00074 1042876003560 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1042876003561 AMP/PPi binding site [chemical binding]; other site 1042876003562 candidate oxyanion hole; other site 1042876003563 catalytic triad [active] 1042876003564 potential glutamine specificity residues [chemical binding]; other site 1042876003565 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 1042876003566 ATP Binding subdomain [chemical binding]; other site 1042876003567 Ligand Binding sites [chemical binding]; other site 1042876003568 Dimerization subdomain; other site 1042876003569 integrase; Provisional; Region: PRK09692 1042876003570 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 1042876003571 active site 1042876003572 Int/Topo IB signature motif; other site 1042876003573 putative transcriptional regulator; Provisional; Region: tfx; cl17550 1042876003574 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876003575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876003576 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876003577 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876003578 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876003579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876003580 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876003581 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1042876003582 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 1042876003583 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1042876003584 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876003585 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1042876003586 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1042876003587 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 1042876003588 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1042876003589 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1042876003590 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1042876003591 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 1042876003592 nucleoside/Zn binding site; other site 1042876003593 dimer interface [polypeptide binding]; other site 1042876003594 catalytic motif [active] 1042876003595 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1042876003596 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 1042876003597 substrate binding pocket [chemical binding]; other site 1042876003598 membrane-bound complex binding site; other site 1042876003599 hinge residues; other site 1042876003600 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 1042876003601 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876003602 catalytic residue [active] 1042876003603 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1042876003604 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 1042876003605 dimerization interface [polypeptide binding]; other site 1042876003606 ATP binding site [chemical binding]; other site 1042876003607 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 1042876003608 dimerization interface [polypeptide binding]; other site 1042876003609 ATP binding site [chemical binding]; other site 1042876003610 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1042876003611 putative active site [active] 1042876003612 catalytic triad [active] 1042876003613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1042876003614 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1042876003615 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 1042876003616 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1042876003617 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1042876003618 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1042876003619 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1042876003620 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042876003621 active site 1042876003622 metal binding site [ion binding]; metal-binding site 1042876003623 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1042876003624 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1042876003625 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042876003626 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042876003627 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042876003628 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1042876003629 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 1042876003630 Walker A motif; other site 1042876003631 ATP binding site [chemical binding]; other site 1042876003632 Walker B motif; other site 1042876003633 type II secretion system protein F; Region: GspF; TIGR02120 1042876003634 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876003635 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876003636 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1042876003637 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1042876003638 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042876003639 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1042876003640 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 1042876003641 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1042876003642 type II secretion system protein J; Region: gspJ; TIGR01711 1042876003643 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1042876003644 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1042876003645 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1042876003646 GspL periplasmic domain; Region: GspL_C; cl14909 1042876003647 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1042876003648 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1042876003649 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1042876003650 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1042876003651 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1042876003652 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1042876003653 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1042876003654 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1042876003655 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1042876003656 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1042876003657 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042876003658 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1042876003659 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 1042876003660 nudix motif; other site 1042876003661 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 1042876003662 putative active site [active] 1042876003663 putative CoA binding site [chemical binding]; other site 1042876003664 nudix motif; other site 1042876003665 metal binding site [ion binding]; metal-binding site 1042876003666 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1042876003667 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 1042876003668 trimer interface [polypeptide binding]; other site 1042876003669 putative metal binding site [ion binding]; other site 1042876003670 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1042876003671 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 1042876003672 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1042876003673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876003674 ATP-grasp domain; Region: ATP-grasp; pfam02222 1042876003675 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876003676 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876003677 putative substrate translocation pore; other site 1042876003678 FOG: CBS domain [General function prediction only]; Region: COG0517 1042876003679 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 1042876003680 Transporter associated domain; Region: CorC_HlyC; smart01091 1042876003681 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1042876003682 signal recognition particle protein; Provisional; Region: PRK10867 1042876003683 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1042876003684 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 1042876003685 P loop; other site 1042876003686 GTP binding site [chemical binding]; other site 1042876003687 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1042876003688 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1042876003689 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1042876003690 RimM N-terminal domain; Region: RimM; pfam01782 1042876003691 PRC-barrel domain; Region: PRC; pfam05239 1042876003692 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1042876003693 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1042876003694 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 1042876003695 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1042876003696 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 1042876003697 active site 1042876003698 Int/Topo IB signature motif; other site 1042876003699 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 1042876003700 dimerization domain [polypeptide binding]; other site 1042876003701 dimer interface [polypeptide binding]; other site 1042876003702 catalytic residues [active] 1042876003703 homoserine dehydrogenase; Provisional; Region: PRK06349 1042876003704 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1042876003705 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1042876003706 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 1042876003707 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1042876003708 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 1042876003709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003710 catalytic residue [active] 1042876003711 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876003712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876003713 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876003714 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 1042876003715 phosphorylation site [posttranslational modification] 1042876003716 intermolecular recognition site; other site 1042876003717 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1042876003718 conserved hypothetical protein; Region: TIGR02285 1042876003719 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1042876003720 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1042876003721 YaeQ protein; Region: YaeQ; pfam07152 1042876003722 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1042876003723 DHH family; Region: DHH; pfam01368 1042876003724 DHHA1 domain; Region: DHHA1; pfam02272 1042876003725 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876003726 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876003727 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 1042876003728 active site 1042876003729 FMN binding site [chemical binding]; other site 1042876003730 substrate binding site [chemical binding]; other site 1042876003731 homotetramer interface [polypeptide binding]; other site 1042876003732 catalytic residue [active] 1042876003733 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1042876003734 HicB family; Region: HicB; pfam05534 1042876003735 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1042876003736 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1042876003737 tetrameric interface [polypeptide binding]; other site 1042876003738 NAD binding site [chemical binding]; other site 1042876003739 catalytic residues [active] 1042876003740 substrate binding site [chemical binding]; other site 1042876003741 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876003742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003743 dimer interface [polypeptide binding]; other site 1042876003744 conserved gate region; other site 1042876003745 ABC-ATPase subunit interface; other site 1042876003746 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876003747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876003748 dimer interface [polypeptide binding]; other site 1042876003749 ABC-ATPase subunit interface; other site 1042876003750 putative PBP binding loops; other site 1042876003751 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876003752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876003753 Walker A/P-loop; other site 1042876003754 ATP binding site [chemical binding]; other site 1042876003755 Q-loop/lid; other site 1042876003756 ABC transporter signature motif; other site 1042876003757 Walker B; other site 1042876003758 D-loop; other site 1042876003759 H-loop/switch region; other site 1042876003760 TOBE domain; Region: TOBE_2; pfam08402 1042876003761 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876003762 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876003763 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1042876003764 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1042876003765 putative metal binding site [ion binding]; other site 1042876003766 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1042876003767 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042876003768 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 1042876003769 dimerization interface [polypeptide binding]; other site 1042876003770 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876003771 dimer interface [polypeptide binding]; other site 1042876003772 putative CheW interface [polypeptide binding]; other site 1042876003773 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042876003774 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1042876003775 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1042876003776 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876003777 S-adenosylmethionine binding site [chemical binding]; other site 1042876003778 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 1042876003779 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 1042876003780 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 1042876003781 putative binding surface; other site 1042876003782 active site 1042876003783 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1042876003784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876003785 ATP binding site [chemical binding]; other site 1042876003786 Mg2+ binding site [ion binding]; other site 1042876003787 G-X-G motif; other site 1042876003788 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 1042876003789 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876003790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876003791 active site 1042876003792 phosphorylation site [posttranslational modification] 1042876003793 intermolecular recognition site; other site 1042876003794 dimerization interface [polypeptide binding]; other site 1042876003795 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 1042876003796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876003797 active site 1042876003798 phosphorylation site [posttranslational modification] 1042876003799 intermolecular recognition site; other site 1042876003800 CheB methylesterase; Region: CheB_methylest; pfam01339 1042876003801 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876003802 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876003803 active site 1042876003804 phosphorylation site [posttranslational modification] 1042876003805 intermolecular recognition site; other site 1042876003806 dimerization interface [polypeptide binding]; other site 1042876003807 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876003808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876003809 metal binding site [ion binding]; metal-binding site 1042876003810 active site 1042876003811 I-site; other site 1042876003812 peptide chain release factor 2; Provisional; Region: PRK08787 1042876003813 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1042876003814 RF-1 domain; Region: RF-1; pfam00472 1042876003815 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1042876003816 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 1042876003817 dimer interface [polypeptide binding]; other site 1042876003818 putative anticodon binding site; other site 1042876003819 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 1042876003820 motif 1; other site 1042876003821 active site 1042876003822 motif 2; other site 1042876003823 motif 3; other site 1042876003824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 1042876003825 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1042876003826 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876003827 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876003828 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876003829 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876003830 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876003831 ligand binding site [chemical binding]; other site 1042876003832 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1042876003833 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1042876003834 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1042876003835 adenylate kinase; Reviewed; Region: adk; PRK00279 1042876003836 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 1042876003837 AMP-binding site [chemical binding]; other site 1042876003838 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1042876003839 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1042876003840 Glycoprotease family; Region: Peptidase_M22; pfam00814 1042876003841 Protein of unknown function DUF72; Region: DUF72; pfam01904 1042876003842 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 1042876003843 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042876003844 tetramer interface [polypeptide binding]; other site 1042876003845 active site 1042876003846 Mg2+/Mn2+ binding site [ion binding]; other site 1042876003847 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1042876003848 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1042876003849 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876003850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876003851 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1042876003852 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876003853 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876003854 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876003855 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042876003856 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1042876003857 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1042876003858 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1042876003859 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1042876003860 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1042876003861 putative acyl-acceptor binding pocket; other site 1042876003862 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 1042876003863 DNA-binding site [nucleotide binding]; DNA binding site 1042876003864 RNA-binding motif; other site 1042876003865 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1042876003866 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876003867 S-adenosylmethionine binding site [chemical binding]; other site 1042876003868 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1042876003869 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1042876003870 metal binding site [ion binding]; metal-binding site 1042876003871 dimer interface [polypeptide binding]; other site 1042876003872 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1042876003873 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 1042876003874 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876003875 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 1042876003876 Ligand binding site; other site 1042876003877 DXD motif; other site 1042876003878 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1042876003879 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 1042876003880 putative ATP binding site [chemical binding]; other site 1042876003881 putative substrate interface [chemical binding]; other site 1042876003882 Fe-S metabolism associated domain; Region: SufE; cl00951 1042876003883 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042876003884 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 1042876003885 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876003886 catalytic residue [active] 1042876003887 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1042876003888 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 1042876003889 putative trimer interface [polypeptide binding]; other site 1042876003890 putative CoA binding site [chemical binding]; other site 1042876003891 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 1042876003892 ArsC family; Region: ArsC; pfam03960 1042876003893 putative catalytic residues [active] 1042876003894 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1042876003895 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1042876003896 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 1042876003897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876003898 homodimer interface [polypeptide binding]; other site 1042876003899 catalytic residue [active] 1042876003900 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1042876003901 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1042876003902 metal binding triad; other site 1042876003903 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1042876003904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042876003905 Zn2+ binding site [ion binding]; other site 1042876003906 Mg2+ binding site [ion binding]; other site 1042876003907 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 1042876003908 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 1042876003909 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 1042876003910 active site 1042876003911 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 1042876003912 rRNA interaction site [nucleotide binding]; other site 1042876003913 S8 interaction site; other site 1042876003914 putative laminin-1 binding site; other site 1042876003915 elongation factor Ts; Provisional; Region: tsf; PRK09377 1042876003916 UBA/TS-N domain; Region: UBA; pfam00627 1042876003917 Elongation factor TS; Region: EF_TS; pfam00889 1042876003918 Elongation factor TS; Region: EF_TS; pfam00889 1042876003919 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 1042876003920 putative nucleotide binding site [chemical binding]; other site 1042876003921 uridine monophosphate binding site [chemical binding]; other site 1042876003922 homohexameric interface [polypeptide binding]; other site 1042876003923 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1042876003924 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 1042876003925 hinge region; other site 1042876003926 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1042876003927 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; cd00475 1042876003928 catalytic residue [active] 1042876003929 putative FPP diphosphate binding site; other site 1042876003930 putative FPP binding hydrophobic cleft; other site 1042876003931 dimer interface [polypeptide binding]; other site 1042876003932 putative IPP diphosphate binding site; other site 1042876003933 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1042876003934 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1042876003935 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1042876003936 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1042876003937 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1042876003938 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1042876003939 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1042876003940 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 1042876003941 active site 1042876003942 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1042876003943 protein binding site [polypeptide binding]; other site 1042876003944 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 1042876003945 protein binding site [polypeptide binding]; other site 1042876003946 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 1042876003947 putative substrate binding region [chemical binding]; other site 1042876003948 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1042876003949 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876003950 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876003951 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876003952 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876003953 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042876003954 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 1042876003955 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1042876003956 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1042876003957 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 1042876003958 trimer interface [polypeptide binding]; other site 1042876003959 active site 1042876003960 UDP-GlcNAc binding site [chemical binding]; other site 1042876003961 lipid binding site [chemical binding]; lipid-binding site 1042876003962 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 1042876003963 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1042876003964 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 1042876003965 active site 1042876003966 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1042876003967 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1042876003968 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1042876003969 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042876003970 active site 1042876003971 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1042876003972 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1042876003973 putative active site [active] 1042876003974 putative PHP Thumb interface [polypeptide binding]; other site 1042876003975 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 1042876003976 generic binding surface II; other site 1042876003977 generic binding surface I; other site 1042876003978 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1042876003979 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1042876003980 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 1042876003981 Ligand Binding Site [chemical binding]; other site 1042876003982 TilS substrate binding domain; Region: TilS; pfam09179 1042876003983 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1042876003984 CTP synthetase; Validated; Region: pyrG; PRK05380 1042876003985 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 1042876003986 Catalytic site [active] 1042876003987 active site 1042876003988 UTP binding site [chemical binding]; other site 1042876003989 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1042876003990 active site 1042876003991 putative oxyanion hole; other site 1042876003992 catalytic triad [active] 1042876003993 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1042876003994 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042876003995 enolase; Provisional; Region: eno; PRK00077 1042876003996 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 1042876003997 dimer interface [polypeptide binding]; other site 1042876003998 metal binding site [ion binding]; metal-binding site 1042876003999 substrate binding pocket [chemical binding]; other site 1042876004000 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1042876004001 Septum formation initiator; Region: DivIC; cl17659 1042876004002 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1042876004003 substrate binding site; other site 1042876004004 dimer interface; other site 1042876004005 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042876004006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004007 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 1042876004008 putative effector binding pocket; other site 1042876004009 putative dimerization interface [polypeptide binding]; other site 1042876004010 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1042876004011 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1042876004012 substrate binding site [chemical binding]; other site 1042876004013 catalytic Zn binding site [ion binding]; other site 1042876004014 NAD binding site [chemical binding]; other site 1042876004015 structural Zn binding site [ion binding]; other site 1042876004016 dimer interface [polypeptide binding]; other site 1042876004017 S-formylglutathione hydrolase; Region: PLN02442 1042876004018 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1042876004019 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 1042876004020 homotrimer interaction site [polypeptide binding]; other site 1042876004021 zinc binding site [ion binding]; other site 1042876004022 CDP-binding sites; other site 1042876004023 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1042876004024 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1042876004025 Permutation of conserved domain; other site 1042876004026 active site 1042876004027 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1042876004028 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1042876004029 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1042876004030 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004031 S-adenosylmethionine binding site [chemical binding]; other site 1042876004032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876004033 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042876004034 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1042876004035 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1042876004036 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876004037 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042876004038 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 1042876004039 DNA binding residues [nucleotide binding] 1042876004040 Ferredoxin [Energy production and conversion]; Region: COG1146 1042876004041 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1042876004042 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1042876004043 MutS domain I; Region: MutS_I; pfam01624 1042876004044 MutS domain II; Region: MutS_II; pfam05188 1042876004045 MutS domain III; Region: MutS_III; pfam05192 1042876004046 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1042876004047 Walker A/P-loop; other site 1042876004048 ATP binding site [chemical binding]; other site 1042876004049 Q-loop/lid; other site 1042876004050 ABC transporter signature motif; other site 1042876004051 Walker B; other site 1042876004052 D-loop; other site 1042876004053 H-loop/switch region; other site 1042876004054 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1042876004055 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 1042876004056 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 1042876004057 dimer interface [polypeptide binding]; other site 1042876004058 active site 1042876004059 Int/Topo IB signature motif; other site 1042876004060 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1042876004061 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 1042876004062 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 1042876004063 Ligand Binding Site [chemical binding]; other site 1042876004064 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876004065 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 1042876004066 DNA binding residues [nucleotide binding] 1042876004067 dimerization interface [polypeptide binding]; other site 1042876004068 tellurite resistance protein terB; Region: terB; cd07176 1042876004069 putative metal binding site [ion binding]; other site 1042876004070 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 1042876004071 Catalytic site [active] 1042876004072 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1042876004073 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876004074 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876004075 Walker A motif; other site 1042876004076 ATP binding site [chemical binding]; other site 1042876004077 Walker B motif; other site 1042876004078 arginine finger; other site 1042876004079 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 1042876004080 VRR-NUC domain; Region: VRR_NUC; pfam08774 1042876004081 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 1042876004082 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1042876004083 active site 1042876004084 Int/Topo IB signature motif; other site 1042876004085 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1042876004086 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 1042876004087 active site 1042876004088 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1042876004089 Phage Terminase; Region: Terminase_1; pfam03354 1042876004090 Phage portal protein; Region: Phage_portal; pfam04860 1042876004091 Phage-related protein [Function unknown]; Region: COG4695 1042876004092 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1042876004093 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1042876004094 tandem repeat interface [polypeptide binding]; other site 1042876004095 oligomer interface [polypeptide binding]; other site 1042876004096 active site residues [active] 1042876004097 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1042876004098 Phage capsid family; Region: Phage_capsid; pfam05065 1042876004099 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 1042876004100 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 1042876004101 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 1042876004102 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 1042876004103 Phage tail tube protein; Region: Tail_tube; pfam10618 1042876004104 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1042876004105 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1042876004106 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 1042876004107 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 1042876004108 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042876004109 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; pfam06890 1042876004110 Phage protein GP46; Region: GP46; pfam07409 1042876004111 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 1042876004112 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 1042876004113 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042876004114 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1042876004115 catalytic residue [active] 1042876004116 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1042876004117 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1042876004118 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1042876004119 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876004120 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1042876004121 Walker A/P-loop; other site 1042876004122 ATP binding site [chemical binding]; other site 1042876004123 Q-loop/lid; other site 1042876004124 ABC transporter signature motif; other site 1042876004125 Walker B; other site 1042876004126 D-loop; other site 1042876004127 H-loop/switch region; other site 1042876004128 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1042876004129 recombinase A; Provisional; Region: recA; PRK09354 1042876004130 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 1042876004131 hexamer interface [polypeptide binding]; other site 1042876004132 Walker A motif; other site 1042876004133 ATP binding site [chemical binding]; other site 1042876004134 Walker B motif; other site 1042876004135 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1042876004136 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1042876004137 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1042876004138 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1042876004139 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876004140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876004141 active site 1042876004142 phosphorylation site [posttranslational modification] 1042876004143 intermolecular recognition site; other site 1042876004144 dimerization interface [polypeptide binding]; other site 1042876004145 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 1042876004146 DNA binding residues [nucleotide binding] 1042876004147 dimerization interface [polypeptide binding]; other site 1042876004148 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1042876004149 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1042876004150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004151 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 1042876004152 putative dimerization interface [polypeptide binding]; other site 1042876004153 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042876004154 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 1042876004155 FAD binding pocket [chemical binding]; other site 1042876004156 FAD binding motif [chemical binding]; other site 1042876004157 phosphate binding motif [ion binding]; other site 1042876004158 beta-alpha-beta structure motif; other site 1042876004159 NAD binding pocket [chemical binding]; other site 1042876004160 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876004161 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876004162 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876004163 hypothetical protein; Provisional; Region: PRK04860 1042876004164 SprT homologues; Region: SprT; cl01182 1042876004165 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1042876004166 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1042876004167 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 1042876004168 Ligand Binding Site [chemical binding]; other site 1042876004169 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 1042876004170 Predicted membrane protein [Function unknown]; Region: COG3308 1042876004171 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042876004172 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876004173 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 1042876004174 ArsC family; Region: ArsC; pfam03960 1042876004175 catalytic residues [active] 1042876004176 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 1042876004177 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876004178 catalytic residues [active] 1042876004179 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1042876004180 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042876004181 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1042876004182 putative ligand binding site [chemical binding]; other site 1042876004183 putative NAD binding site [chemical binding]; other site 1042876004184 catalytic site [active] 1042876004185 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1042876004186 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 1042876004187 dimerization interface [polypeptide binding]; other site 1042876004188 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 1042876004189 dimer interface [polypeptide binding]; other site 1042876004190 phosphorylation site [posttranslational modification] 1042876004191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876004192 ATP binding site [chemical binding]; other site 1042876004193 Mg2+ binding site [ion binding]; other site 1042876004194 G-X-G motif; other site 1042876004195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876004196 active site 1042876004197 phosphorylation site [posttranslational modification] 1042876004198 intermolecular recognition site; other site 1042876004199 dimerization interface [polypeptide binding]; other site 1042876004200 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 1042876004201 putative binding surface; other site 1042876004202 active site 1042876004203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876004204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876004205 active site 1042876004206 phosphorylation site [posttranslational modification] 1042876004207 intermolecular recognition site; other site 1042876004208 dimerization interface [polypeptide binding]; other site 1042876004209 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 1042876004210 DNA binding site [nucleotide binding] 1042876004211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876004212 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 1042876004213 dimerization interface [polypeptide binding]; other site 1042876004214 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1042876004215 dimer interface [polypeptide binding]; other site 1042876004216 phosphorylation site [posttranslational modification] 1042876004217 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876004218 ATP binding site [chemical binding]; other site 1042876004219 Mg2+ binding site [ion binding]; other site 1042876004220 G-X-G motif; other site 1042876004221 cysteine synthase B; Region: cysM; TIGR01138 1042876004222 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 1042876004223 dimer interface [polypeptide binding]; other site 1042876004224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876004225 catalytic residue [active] 1042876004226 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1042876004227 TRAM domain; Region: TRAM; pfam01938 1042876004228 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004229 S-adenosylmethionine binding site [chemical binding]; other site 1042876004230 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1042876004231 HD domain; Region: HD_4; pfam13328 1042876004232 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042876004233 synthetase active site [active] 1042876004234 NTP binding site [chemical binding]; other site 1042876004235 metal binding site [ion binding]; metal-binding site 1042876004236 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 1042876004237 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1042876004238 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1042876004239 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 1042876004240 homodimer interface [polypeptide binding]; other site 1042876004241 metal binding site [ion binding]; metal-binding site 1042876004242 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 1042876004243 homodimer interface [polypeptide binding]; other site 1042876004244 active site 1042876004245 putative chemical substrate binding site [chemical binding]; other site 1042876004246 metal binding site [ion binding]; metal-binding site 1042876004247 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1042876004248 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1042876004249 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1042876004250 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1042876004251 active site 1042876004252 substrate binding site [chemical binding]; other site 1042876004253 cosubstrate binding site; other site 1042876004254 catalytic site [active] 1042876004255 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1042876004256 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 1042876004257 dimerization interface [polypeptide binding]; other site 1042876004258 putative ATP binding site [chemical binding]; other site 1042876004259 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1042876004260 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042876004261 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042876004262 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1042876004263 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876004264 Walker A motif; other site 1042876004265 ATP binding site [chemical binding]; other site 1042876004266 Walker B motif; other site 1042876004267 arginine finger; other site 1042876004268 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042876004269 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042876004270 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042876004271 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042876004272 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1042876004273 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876004274 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1042876004275 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1042876004276 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 1042876004277 Walker A motif; other site 1042876004278 homodimer interface [polypeptide binding]; other site 1042876004279 ATP binding site [chemical binding]; other site 1042876004280 hydroxycobalamin binding site [chemical binding]; other site 1042876004281 Walker B motif; other site 1042876004282 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1042876004283 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 1042876004284 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1042876004285 catalytic triad [active] 1042876004286 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1042876004287 putative FMN binding site [chemical binding]; other site 1042876004288 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1042876004289 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1042876004290 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 1042876004291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876004292 homodimer interface [polypeptide binding]; other site 1042876004293 catalytic residue [active] 1042876004294 cobyric acid synthase; Provisional; Region: PRK00784 1042876004295 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1042876004296 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1042876004297 catalytic triad [active] 1042876004298 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 1042876004299 homotrimer interface [polypeptide binding]; other site 1042876004300 Walker A motif; other site 1042876004301 GTP binding site [chemical binding]; other site 1042876004302 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1042876004303 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1042876004304 putative dimer interface [polypeptide binding]; other site 1042876004305 active site pocket [active] 1042876004306 putative cataytic base [active] 1042876004307 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 1042876004308 catalytic core [active] 1042876004309 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1042876004310 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1042876004311 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1042876004312 MarR family; Region: MarR_2; pfam12802 1042876004313 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1042876004314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876004315 putative substrate translocation pore; other site 1042876004316 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042876004317 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 1042876004318 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876004319 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004320 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 1042876004321 putative effector binding pocket; other site 1042876004322 dimerization interface [polypeptide binding]; other site 1042876004323 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1042876004324 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1042876004325 RmuC family; Region: RmuC; pfam02646 1042876004326 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1042876004327 Na binding site [ion binding]; other site 1042876004328 PAS domain; Region: PAS; smart00091 1042876004329 PAS fold; Region: PAS_7; pfam12860 1042876004330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876004331 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 1042876004332 dimer interface [polypeptide binding]; other site 1042876004333 phosphorylation site [posttranslational modification] 1042876004334 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876004335 ATP binding site [chemical binding]; other site 1042876004336 Mg2+ binding site [ion binding]; other site 1042876004337 G-X-G motif; other site 1042876004338 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876004339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876004340 active site 1042876004341 phosphorylation site [posttranslational modification] 1042876004342 intermolecular recognition site; other site 1042876004343 dimerization interface [polypeptide binding]; other site 1042876004344 putative transporter; Provisional; Region: PRK10054 1042876004345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876004346 putative substrate translocation pore; other site 1042876004347 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1042876004348 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1042876004349 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876004350 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042876004351 putative acyl-acceptor binding pocket; other site 1042876004352 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1042876004353 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1042876004354 Sodium Bile acid symporter family; Region: SBF; cl17470 1042876004355 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1042876004356 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 1042876004357 active site 1042876004358 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 1042876004359 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 1042876004360 [4Fe-4S] binding site [ion binding]; other site 1042876004361 molybdopterin cofactor binding site; other site 1042876004362 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 1042876004363 molybdopterin cofactor binding site; other site 1042876004364 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1042876004365 Flavodoxin; Region: Flavodoxin_1; pfam00258 1042876004366 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; cd06199 1042876004367 FAD binding pocket [chemical binding]; other site 1042876004368 FAD binding motif [chemical binding]; other site 1042876004369 catalytic residues [active] 1042876004370 NAD binding pocket [chemical binding]; other site 1042876004371 phosphate binding motif [ion binding]; other site 1042876004372 beta-alpha-beta structure motif; other site 1042876004373 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1042876004374 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876004375 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042876004376 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1042876004377 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042876004378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004379 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 1042876004380 dimerization interface [polypeptide binding]; other site 1042876004381 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1042876004382 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042876004383 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876004384 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1042876004385 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 1042876004386 salt bridge; other site 1042876004387 non-specific DNA binding site [nucleotide binding]; other site 1042876004388 sequence-specific DNA binding site [nucleotide binding]; other site 1042876004389 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 1042876004390 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 1042876004391 carboxy-terminal protease; Provisional; Region: PRK11186 1042876004392 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1042876004393 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 1042876004394 protein binding site [polypeptide binding]; other site 1042876004395 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1042876004396 Catalytic dyad [active] 1042876004397 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1042876004398 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1042876004399 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1042876004400 NAD(P) binding site [chemical binding]; other site 1042876004401 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1042876004402 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042876004403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876004404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876004405 Walker A/P-loop; other site 1042876004406 ATP binding site [chemical binding]; other site 1042876004407 Q-loop/lid; other site 1042876004408 ABC transporter signature motif; other site 1042876004409 Walker B; other site 1042876004410 D-loop; other site 1042876004411 H-loop/switch region; other site 1042876004412 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876004413 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876004414 dimer interface [polypeptide binding]; other site 1042876004415 conserved gate region; other site 1042876004416 ABC-ATPase subunit interface; other site 1042876004417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876004418 dimer interface [polypeptide binding]; other site 1042876004419 conserved gate region; other site 1042876004420 putative PBP binding loops; other site 1042876004421 ABC-ATPase subunit interface; other site 1042876004422 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 1042876004423 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876004424 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876004425 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876004426 transcriptional regulator protein; Region: phnR; TIGR03337 1042876004427 DNA-binding site [nucleotide binding]; DNA binding site 1042876004428 UTRA domain; Region: UTRA; pfam07702 1042876004429 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042876004430 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876004431 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1042876004432 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1042876004433 active site 1042876004434 metal binding site [ion binding]; metal-binding site 1042876004435 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042876004436 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042876004437 active site 1042876004438 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1042876004439 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1042876004440 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 1042876004441 Switch I; other site 1042876004442 Switch II; other site 1042876004443 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1042876004444 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1042876004445 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1042876004446 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1042876004447 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1042876004448 putative acyl-acceptor binding pocket; other site 1042876004449 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042876004450 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042876004451 active site 1042876004452 nucleophile elbow; other site 1042876004453 VacJ like lipoprotein; Region: VacJ; cl01073 1042876004454 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 1042876004455 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1042876004456 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042876004457 Predicted membrane protein [Function unknown]; Region: COG3162 1042876004458 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042876004459 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042876004460 Na binding site [ion binding]; other site 1042876004461 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 1042876004462 short chain dehydrogenase; Provisional; Region: PRK05650 1042876004463 classical (c) SDRs; Region: SDR_c; cd05233 1042876004464 NAD(P) binding site [chemical binding]; other site 1042876004465 active site 1042876004466 Global regulator protein family; Region: CsrA; pfam02599 1042876004467 hypothetical protein; Provisional; Region: PRK00304 1042876004468 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1042876004469 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1042876004470 putative oligomer interface [polypeptide binding]; other site 1042876004471 putative active site [active] 1042876004472 metal binding site [ion binding]; metal-binding site 1042876004473 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1042876004474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876004475 Coenzyme A binding pocket [chemical binding]; other site 1042876004476 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042876004477 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1042876004478 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 1042876004479 active site 1042876004480 dimer interface [polypeptide binding]; other site 1042876004481 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 1042876004482 Ligand Binding Site [chemical binding]; other site 1042876004483 Molecular Tunnel; other site 1042876004484 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1042876004485 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1042876004486 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1042876004487 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1042876004488 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1042876004489 EamA-like transporter family; Region: EamA; pfam00892 1042876004490 fumarate hydratase; Provisional; Region: PRK12425 1042876004491 Class II fumarases; Region: Fumarase_classII; cd01362 1042876004492 active site 1042876004493 tetramer interface [polypeptide binding]; other site 1042876004494 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1042876004495 BolA-like protein; Region: BolA; pfam01722 1042876004496 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1042876004497 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1042876004498 active site residue [active] 1042876004499 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1042876004500 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 1042876004501 catalytic residues [active] 1042876004502 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876004503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876004504 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876004505 Walker A/P-loop; other site 1042876004506 ATP binding site [chemical binding]; other site 1042876004507 Q-loop/lid; other site 1042876004508 ABC transporter signature motif; other site 1042876004509 Walker B; other site 1042876004510 D-loop; other site 1042876004511 H-loop/switch region; other site 1042876004512 PAS domain S-box; Region: sensory_box; TIGR00229 1042876004513 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 1042876004514 putative active site [active] 1042876004515 heme pocket [chemical binding]; other site 1042876004516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876004517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876004518 metal binding site [ion binding]; metal-binding site 1042876004519 active site 1042876004520 I-site; other site 1042876004521 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 1042876004522 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 1042876004523 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1042876004524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876004525 NAD(P) binding site [chemical binding]; other site 1042876004526 active site 1042876004527 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1042876004528 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 1042876004529 motif II; other site 1042876004530 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1042876004531 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004532 S-adenosylmethionine binding site [chemical binding]; other site 1042876004533 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1042876004534 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1042876004535 DNA gyrase subunit A; Validated; Region: PRK05560 1042876004536 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 1042876004537 CAP-like domain; other site 1042876004538 active site 1042876004539 primary dimer interface [polypeptide binding]; other site 1042876004540 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004541 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004542 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004543 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004544 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004545 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1042876004546 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 1042876004547 homodimer interface [polypeptide binding]; other site 1042876004548 substrate-cofactor binding pocket; other site 1042876004549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876004550 catalytic residue [active] 1042876004551 Chorismate mutase type II; Region: CM_2; cl00693 1042876004552 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1042876004553 Prephenate dehydratase; Region: PDT; pfam00800 1042876004554 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 1042876004555 putative L-Phe binding site [chemical binding]; other site 1042876004556 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1042876004557 prephenate dehydrogenase; Validated; Region: PRK08507 1042876004558 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 1042876004559 hinge; other site 1042876004560 active site 1042876004561 cytidylate kinase; Provisional; Region: cmk; PRK00023 1042876004562 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 1042876004563 CMP-binding site; other site 1042876004564 The sites determining sugar specificity; other site 1042876004565 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1042876004566 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 1042876004567 RNA binding site [nucleotide binding]; other site 1042876004568 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 1042876004569 RNA binding site [nucleotide binding]; other site 1042876004570 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 1042876004571 RNA binding site [nucleotide binding]; other site 1042876004572 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 1042876004573 RNA binding site [nucleotide binding]; other site 1042876004574 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 1042876004575 RNA binding site [nucleotide binding]; other site 1042876004576 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 1042876004577 RNA binding site [nucleotide binding]; other site 1042876004578 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 1042876004579 IHF dimer interface [polypeptide binding]; other site 1042876004580 IHF - DNA interface [nucleotide binding]; other site 1042876004581 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1042876004582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042876004583 Beta-Casp domain; Region: Beta-Casp; smart01027 1042876004584 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1042876004585 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1042876004586 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1042876004587 Substrate binding site; other site 1042876004588 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1042876004589 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 1042876004590 phosphomannomutase CpsG; Provisional; Region: PRK15414 1042876004591 active site 1042876004592 substrate binding site [chemical binding]; other site 1042876004593 metal binding site [ion binding]; metal-binding site 1042876004594 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1042876004595 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1042876004596 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1042876004597 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1042876004598 Walker A/P-loop; other site 1042876004599 ATP binding site [chemical binding]; other site 1042876004600 Q-loop/lid; other site 1042876004601 ABC transporter signature motif; other site 1042876004602 Walker B; other site 1042876004603 D-loop; other site 1042876004604 H-loop/switch region; other site 1042876004605 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1042876004606 putative carbohydrate binding site [chemical binding]; other site 1042876004607 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1042876004608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004609 S-adenosylmethionine binding site [chemical binding]; other site 1042876004610 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 1042876004611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004612 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 1042876004613 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004614 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 1042876004615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004616 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 1042876004617 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1042876004618 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1042876004619 substrate binding site; other site 1042876004620 tetramer interface; other site 1042876004621 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 1042876004622 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1042876004623 NADP binding site [chemical binding]; other site 1042876004624 active site 1042876004625 putative substrate binding site [chemical binding]; other site 1042876004626 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1042876004627 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1042876004628 NAD binding site [chemical binding]; other site 1042876004629 substrate binding site [chemical binding]; other site 1042876004630 homodimer interface [polypeptide binding]; other site 1042876004631 active site 1042876004632 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 1042876004633 binding surface 1042876004634 TPR motif; other site 1042876004635 TPR repeat; Region: TPR_11; pfam13414 1042876004636 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004637 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1042876004638 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 1042876004639 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 1042876004640 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004641 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876004642 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876004643 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876004644 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876004645 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876004646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876004647 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876004648 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876004649 Walker A motif; other site 1042876004650 ATP binding site [chemical binding]; other site 1042876004651 Walker B motif; other site 1042876004652 arginine finger; other site 1042876004653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876004654 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876004655 Integrase core domain; Region: rve; pfam00665 1042876004656 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1042876004657 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; cl17915 1042876004658 motif II; other site 1042876004659 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1042876004660 ligand binding site; other site 1042876004661 tetramer interface; other site 1042876004662 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 1042876004663 active site 1042876004664 catalytic residues [active] 1042876004665 metal binding site [ion binding]; metal-binding site 1042876004666 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 1042876004667 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876004668 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1042876004669 Probable Catalytic site; other site 1042876004670 metal-binding site 1042876004671 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876004672 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 1042876004673 active site 1042876004674 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1042876004675 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1042876004676 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 1042876004677 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1042876004678 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876004679 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1042876004680 Walker A/P-loop; other site 1042876004681 ATP binding site [chemical binding]; other site 1042876004682 Q-loop/lid; other site 1042876004683 ABC transporter signature motif; other site 1042876004684 Walker B; other site 1042876004685 D-loop; other site 1042876004686 H-loop/switch region; other site 1042876004687 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042876004688 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876004689 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876004690 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042876004691 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1042876004692 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1042876004693 NADP-binding site; other site 1042876004694 homotetramer interface [polypeptide binding]; other site 1042876004695 substrate binding site [chemical binding]; other site 1042876004696 homodimer interface [polypeptide binding]; other site 1042876004697 active site 1042876004698 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1042876004699 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1042876004700 NADP-binding site; other site 1042876004701 homotetramer interface [polypeptide binding]; other site 1042876004702 substrate binding site [chemical binding]; other site 1042876004703 homodimer interface [polypeptide binding]; other site 1042876004704 active site 1042876004705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004706 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 1042876004707 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876004708 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 1042876004709 putative ADP-binding pocket [chemical binding]; other site 1042876004710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876004711 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042876004712 NAD(P) binding site [chemical binding]; other site 1042876004713 active site 1042876004714 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 1042876004715 Mg++ binding site [ion binding]; other site 1042876004716 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1042876004717 putative catalytic motif [active] 1042876004718 putative substrate binding site [chemical binding]; other site 1042876004719 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1042876004720 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1042876004721 NAD(P) binding site [chemical binding]; other site 1042876004722 homodimer interface [polypeptide binding]; other site 1042876004723 substrate binding site [chemical binding]; other site 1042876004724 active site 1042876004725 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1042876004726 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 1042876004727 putative active site [active] 1042876004728 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 1042876004729 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 1042876004730 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042876004731 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1042876004732 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1042876004733 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 1042876004734 dimer interface [polypeptide binding]; other site 1042876004735 active site 1042876004736 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1042876004737 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 1042876004738 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876004739 active site 1042876004740 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1042876004741 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1042876004742 active site 1042876004743 homodimer interface [polypeptide binding]; other site 1042876004744 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1042876004745 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1042876004746 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 1042876004747 active site 1042876004748 dimer interface [polypeptide binding]; other site 1042876004749 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1042876004750 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1042876004751 NAD(P) binding site [chemical binding]; other site 1042876004752 substrate binding site [chemical binding]; other site 1042876004753 dimer interface [polypeptide binding]; other site 1042876004754 short chain dehydrogenase; Provisional; Region: PRK06172 1042876004755 classical (c) SDRs; Region: SDR_c; cd05233 1042876004756 NAD(P) binding site [chemical binding]; other site 1042876004757 active site 1042876004758 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876004759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876004760 dimer interface [polypeptide binding]; other site 1042876004761 putative CheW interface [polypeptide binding]; other site 1042876004762 benzoate transporter; Region: benE; TIGR00843 1042876004763 Benzoate membrane transport protein; Region: BenE; pfam03594 1042876004764 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876004765 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 1042876004766 putative C-terminal domain interface [polypeptide binding]; other site 1042876004767 putative GSH binding site (G-site) [chemical binding]; other site 1042876004768 putative dimer interface [polypeptide binding]; other site 1042876004769 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042876004770 N-terminal domain interface [polypeptide binding]; other site 1042876004771 dimer interface [polypeptide binding]; other site 1042876004772 substrate binding pocket (H-site) [chemical binding]; other site 1042876004773 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1042876004774 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1042876004775 GTP cyclohydrolase I; Provisional; Region: PLN03044 1042876004776 active site 1042876004777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1042876004778 Smr domain; Region: Smr; pfam01713 1042876004779 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 1042876004780 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876004781 catalytic triad [active] 1042876004782 conserved cis-peptide bond; other site 1042876004783 HemK family putative methylases; Region: hemK_fam; TIGR00536 1042876004784 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004785 S-adenosylmethionine binding site [chemical binding]; other site 1042876004786 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876004787 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1042876004788 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1042876004789 Tetramer interface [polypeptide binding]; other site 1042876004790 active site 1042876004791 FMN-binding site [chemical binding]; other site 1042876004792 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876004793 putative substrate translocation pore; other site 1042876004794 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1042876004795 Cupin domain; Region: Cupin_2; cl17218 1042876004796 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1042876004797 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1042876004798 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 1042876004799 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042876004800 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1042876004801 ZIP Zinc transporter; Region: Zip; pfam02535 1042876004802 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042876004803 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1042876004804 Sulfatase; Region: Sulfatase; pfam00884 1042876004805 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1042876004806 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876004807 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876004808 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1042876004809 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1042876004810 catalytic triad [active] 1042876004811 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1042876004812 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 1042876004813 oligomer interface [polypeptide binding]; other site 1042876004814 metal binding site [ion binding]; metal-binding site 1042876004815 metal binding site [ion binding]; metal-binding site 1042876004816 putative Cl binding site [ion binding]; other site 1042876004817 basic sphincter; other site 1042876004818 hydrophobic gate; other site 1042876004819 periplasmic entrance; other site 1042876004820 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1042876004821 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042876004822 putative acyl-acceptor binding pocket; other site 1042876004823 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1042876004824 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 1042876004825 substrate binding site [chemical binding]; other site 1042876004826 oxyanion hole (OAH) forming residues; other site 1042876004827 trimer interface [polypeptide binding]; other site 1042876004828 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876004829 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 1042876004830 N-terminal plug; other site 1042876004831 ligand-binding site [chemical binding]; other site 1042876004832 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876004833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876004834 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876004835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876004836 NAD(P) binding site [chemical binding]; other site 1042876004837 active site 1042876004838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876004839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004840 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 1042876004841 putative effector binding pocket; other site 1042876004842 dimerization interface [polypeptide binding]; other site 1042876004843 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042876004844 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1042876004845 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1042876004846 elongation factor P; Validated; Region: PRK00529 1042876004847 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1042876004848 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 1042876004849 RNA binding site [nucleotide binding]; other site 1042876004850 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 1042876004851 RNA binding site [nucleotide binding]; other site 1042876004852 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1042876004853 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042876004854 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 1042876004855 dimerization interface [polypeptide binding]; other site 1042876004856 putative Zn2+ binding site [ion binding]; other site 1042876004857 putative DNA binding site [nucleotide binding]; other site 1042876004858 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876004859 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004860 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 1042876004861 putative effector binding pocket; other site 1042876004862 dimerization interface [polypeptide binding]; other site 1042876004863 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876004864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876004865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876004866 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 1042876004867 dimerization interface [polypeptide binding]; other site 1042876004868 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1042876004869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1042876004870 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1042876004871 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1042876004872 spermidine synthase; Provisional; Region: PRK00811 1042876004873 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876004874 helicase 45; Provisional; Region: PTZ00424 1042876004875 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 1042876004876 ATP binding site [chemical binding]; other site 1042876004877 Mg++ binding site [ion binding]; other site 1042876004878 motif III; other site 1042876004879 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 1042876004880 nucleotide binding region [chemical binding]; other site 1042876004881 ATP-binding site [chemical binding]; other site 1042876004882 DbpA RNA binding domain; Region: DbpA; pfam03880 1042876004883 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 1042876004884 putative active site [active] 1042876004885 metal binding site [ion binding]; metal-binding site 1042876004886 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1042876004887 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 1042876004888 heat shock protein HtpX; Provisional; Region: PRK05457 1042876004889 aminotransferase AlaT; Validated; Region: PRK09265 1042876004890 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 1042876004891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876004892 homodimer interface [polypeptide binding]; other site 1042876004893 catalytic residue [active] 1042876004894 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1042876004895 SelR domain; Region: SelR; pfam01641 1042876004896 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 1042876004897 catalytic residues [active] 1042876004898 dimer interface [polypeptide binding]; other site 1042876004899 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 1042876004900 dimer interface [polypeptide binding]; other site 1042876004901 phosphorylation site [posttranslational modification] 1042876004902 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876004903 ATP binding site [chemical binding]; other site 1042876004904 Mg2+ binding site [ion binding]; other site 1042876004905 G-X-G motif; other site 1042876004906 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876004907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876004908 active site 1042876004909 phosphorylation site [posttranslational modification] 1042876004910 intermolecular recognition site; other site 1042876004911 dimerization interface [polypeptide binding]; other site 1042876004912 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1042876004913 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876004914 Walker A motif; other site 1042876004915 ATP binding site [chemical binding]; other site 1042876004916 Walker B motif; other site 1042876004917 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1042876004918 GAF domain; Region: GAF_2; pfam13185 1042876004919 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1042876004920 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1042876004921 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1042876004922 PapC C-terminal domain; Region: PapC_C; pfam13953 1042876004923 RHS Repeat; Region: RHS_repeat; cl11982 1042876004924 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1042876004925 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1042876004926 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1042876004927 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1042876004928 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1042876004929 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1042876004930 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1042876004931 active site 1042876004932 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1042876004933 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876004934 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 1042876004935 putative C-terminal domain interface [polypeptide binding]; other site 1042876004936 putative GSH binding site (G-site) [chemical binding]; other site 1042876004937 putative dimer interface [polypeptide binding]; other site 1042876004938 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1042876004939 putative N-terminal domain interface [polypeptide binding]; other site 1042876004940 putative dimer interface [polypeptide binding]; other site 1042876004941 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876004942 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1042876004943 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876004944 Walker A/P-loop; other site 1042876004945 ATP binding site [chemical binding]; other site 1042876004946 Q-loop/lid; other site 1042876004947 ABC transporter signature motif; other site 1042876004948 Walker B; other site 1042876004949 D-loop; other site 1042876004950 H-loop/switch region; other site 1042876004951 inner membrane transport permease; Provisional; Region: PRK15066 1042876004952 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042876004953 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 1042876004954 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1042876004955 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1042876004956 Competence protein; Region: Competence; pfam03772 1042876004957 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 1042876004958 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1042876004959 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042876004960 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1042876004961 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 1042876004962 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1042876004963 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1042876004964 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1042876004965 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1042876004966 Ligand binding site; other site 1042876004967 oligomer interface; other site 1042876004968 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1042876004969 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042876004970 active site 1042876004971 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1042876004972 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876004973 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1042876004974 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1042876004975 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 1042876004976 homodimer interface [polypeptide binding]; other site 1042876004977 oligonucleotide binding site [chemical binding]; other site 1042876004978 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1042876004979 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 1042876004980 RNA binding surface [nucleotide binding]; other site 1042876004981 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1042876004982 active site 1042876004983 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042876004984 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 1042876004985 motif II; other site 1042876004986 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1042876004987 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1042876004988 tandem repeat interface [polypeptide binding]; other site 1042876004989 oligomer interface [polypeptide binding]; other site 1042876004990 active site residues [active] 1042876004991 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 1042876004992 active site 1042876004993 dimer interface [polypeptide binding]; other site 1042876004994 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1042876004995 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1042876004996 putative phosphate acyltransferase; Provisional; Region: PRK05331 1042876004997 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1042876004998 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1042876004999 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876005000 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1042876005001 NAD(P) binding site [chemical binding]; other site 1042876005002 homotetramer interface [polypeptide binding]; other site 1042876005003 homodimer interface [polypeptide binding]; other site 1042876005004 active site 1042876005005 acyl carrier protein; Provisional; Region: acpP; PRK00982 1042876005006 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1042876005007 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 1042876005008 dimer interface [polypeptide binding]; other site 1042876005009 active site 1042876005010 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1042876005011 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 1042876005012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876005013 catalytic residue [active] 1042876005014 YceG-like family; Region: YceG; pfam02618 1042876005015 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1042876005016 dimerization interface [polypeptide binding]; other site 1042876005017 thymidylate kinase; Validated; Region: tmk; PRK00698 1042876005018 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 1042876005019 TMP-binding site; other site 1042876005020 ATP-binding site [chemical binding]; other site 1042876005021 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1042876005022 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1042876005023 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042876005024 active site 1042876005025 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876005026 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876005027 WHG domain; Region: WHG; pfam13305 1042876005028 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1042876005029 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 1042876005030 FeS/SAM binding site; other site 1042876005031 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042876005032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1042876005033 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1042876005034 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1042876005035 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 1042876005036 nucleoside/Zn binding site; other site 1042876005037 dimer interface [polypeptide binding]; other site 1042876005038 catalytic motif [active] 1042876005039 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1042876005040 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 1042876005041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876005042 homodimer interface [polypeptide binding]; other site 1042876005043 catalytic residue [active] 1042876005044 excinuclease ABC subunit B; Provisional; Region: PRK05298 1042876005045 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 1042876005046 ATP binding site [chemical binding]; other site 1042876005047 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 1042876005048 nucleotide binding region [chemical binding]; other site 1042876005049 ATP-binding site [chemical binding]; other site 1042876005050 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1042876005051 UvrB/uvrC motif; Region: UVR; pfam02151 1042876005052 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042876005053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005054 putative substrate translocation pore; other site 1042876005055 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005056 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1042876005057 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876005058 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 1042876005059 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876005060 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1042876005061 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042876005062 active site 1042876005063 HIGH motif; other site 1042876005064 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1042876005065 active site 1042876005066 KMSKS motif; other site 1042876005067 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876005068 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876005069 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876005070 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 1042876005071 active site 1042876005072 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1042876005073 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 1042876005074 FMN binding site [chemical binding]; other site 1042876005075 active site 1042876005076 catalytic residues [active] 1042876005077 substrate binding site [chemical binding]; other site 1042876005078 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042876005079 MULE transposase domain; Region: MULE; pfam10551 1042876005080 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1042876005081 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 1042876005082 putative dimer interface [polypeptide binding]; other site 1042876005083 PAS fold; Region: PAS_3; pfam08447 1042876005084 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 1042876005085 putative active site [active] 1042876005086 heme pocket [chemical binding]; other site 1042876005087 PAS domain S-box; Region: sensory_box; TIGR00229 1042876005088 PAS domain; Region: PAS; smart00091 1042876005089 putative active site [active] 1042876005090 heme pocket [chemical binding]; other site 1042876005091 PAS fold; Region: PAS_3; pfam08447 1042876005092 PAS domain S-box; Region: sensory_box; TIGR00229 1042876005093 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 1042876005094 putative active site [active] 1042876005095 heme pocket [chemical binding]; other site 1042876005096 PAS domain S-box; Region: sensory_box; TIGR00229 1042876005097 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 1042876005098 putative active site [active] 1042876005099 heme pocket [chemical binding]; other site 1042876005100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876005101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876005102 metal binding site [ion binding]; metal-binding site 1042876005103 active site 1042876005104 I-site; other site 1042876005105 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 1042876005106 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876005107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005108 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 1042876005109 dimerization interface [polypeptide binding]; other site 1042876005110 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1042876005111 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1042876005112 substrate binding site [chemical binding]; other site 1042876005113 ligand binding site [chemical binding]; other site 1042876005114 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1042876005115 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 1042876005116 substrate binding site [chemical binding]; other site 1042876005117 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876005118 S-adenosylmethionine binding site [chemical binding]; other site 1042876005119 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1042876005120 tartrate dehydrogenase; Region: TTC; TIGR02089 1042876005121 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1042876005122 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042876005123 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 1042876005124 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042876005125 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876005126 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1042876005127 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1042876005128 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1042876005129 dimerization interface 3.5A [polypeptide binding]; other site 1042876005130 active site 1042876005131 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 1042876005132 active site 1042876005133 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1042876005134 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042876005135 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1042876005136 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876005137 Sporulation related domain; Region: SPOR; pfam05036 1042876005138 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1042876005139 Colicin V production protein; Region: Colicin_V; cl00567 1042876005140 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1042876005141 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 1042876005142 active site 1042876005143 tetramer interface [polypeptide binding]; other site 1042876005144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876005145 active site 1042876005146 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1042876005147 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 1042876005148 homodimer interface [polypeptide binding]; other site 1042876005149 substrate-cofactor binding pocket; other site 1042876005150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876005151 catalytic residue [active] 1042876005152 oxidoreductase; Validated; Region: PRK05717 1042876005153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876005154 NAD(P) binding site [chemical binding]; other site 1042876005155 active site 1042876005156 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 1042876005157 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876005158 EamA-like transporter family; Region: EamA; pfam00892 1042876005159 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 1042876005160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876005161 DNA-binding site [nucleotide binding]; DNA binding site 1042876005162 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 1042876005163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876005164 homodimer interface [polypeptide binding]; other site 1042876005165 catalytic residue [active] 1042876005166 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876005167 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876005168 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876005169 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1042876005170 active site 1042876005171 catalytic triad [active] 1042876005172 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876005173 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 1042876005174 active site 1042876005175 FMN binding site [chemical binding]; other site 1042876005176 2,4-decadienoyl-CoA binding site; other site 1042876005177 catalytic residue [active] 1042876005178 4Fe-4S cluster binding site [ion binding]; other site 1042876005179 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1042876005180 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 1042876005181 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1042876005182 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1042876005183 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1042876005184 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1042876005185 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042876005186 active site 1042876005187 metal binding site [ion binding]; metal-binding site 1042876005188 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1042876005189 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1042876005190 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1042876005191 aminopeptidase N; Provisional; Region: pepN; PRK14015 1042876005192 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1042876005193 active site 1042876005194 Zn binding site [ion binding]; other site 1042876005195 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042876005196 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042876005197 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1042876005198 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 1042876005199 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876005200 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 1042876005201 putative GSH binding site (G-site) [chemical binding]; other site 1042876005202 active site cysteine [active] 1042876005203 putative C-terminal domain interface [polypeptide binding]; other site 1042876005204 putative dimer interface [polypeptide binding]; other site 1042876005205 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 1042876005206 putative N-terminal domain interface [polypeptide binding]; other site 1042876005207 putative dimer interface [polypeptide binding]; other site 1042876005208 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876005209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876005210 AAA domain; Region: AAA_23; pfam13476 1042876005211 Walker A/P-loop; other site 1042876005212 ATP binding site [chemical binding]; other site 1042876005213 Q-loop/lid; other site 1042876005214 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876005215 ABC transporter signature motif; other site 1042876005216 Walker B; other site 1042876005217 D-loop; other site 1042876005218 H-loop/switch region; other site 1042876005219 exonuclease subunit SbcD; Provisional; Region: PRK10966 1042876005220 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1042876005221 active site 1042876005222 metal binding site [ion binding]; metal-binding site 1042876005223 DNA binding site [nucleotide binding] 1042876005224 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1042876005225 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1042876005226 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1042876005227 Oxygen tolerance; Region: BatD; pfam13584 1042876005228 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 1042876005229 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1042876005230 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 1042876005231 TPR motif; other site 1042876005232 binding surface 1042876005233 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 1042876005234 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 1042876005235 metal ion-dependent adhesion site (MIDAS); other site 1042876005236 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1042876005237 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1042876005238 Protein of unknown function DUF58; Region: DUF58; pfam01882 1042876005239 MoxR-like ATPases [General function prediction only]; Region: COG0714 1042876005240 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876005241 Walker A motif; other site 1042876005242 ATP binding site [chemical binding]; other site 1042876005243 Walker B motif; other site 1042876005244 arginine finger; other site 1042876005245 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1042876005246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876005247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005248 benzoate transporter; Region: benE; TIGR00843 1042876005249 Benzoate membrane transport protein; Region: BenE; pfam03594 1042876005250 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 1042876005251 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876005252 DNA-binding site [nucleotide binding]; DNA binding site 1042876005253 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 1042876005254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876005255 homodimer interface [polypeptide binding]; other site 1042876005256 catalytic residue [active] 1042876005257 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042876005258 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1042876005259 inhibitor site; inhibition site 1042876005260 active site 1042876005261 dimer interface [polypeptide binding]; other site 1042876005262 catalytic residue [active] 1042876005263 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 1042876005264 intersubunit interface [polypeptide binding]; other site 1042876005265 active site 1042876005266 Zn2+ binding site [ion binding]; other site 1042876005267 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1042876005268 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 1042876005269 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876005270 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 1042876005271 DNA binding site [nucleotide binding] 1042876005272 Predicted integral membrane protein [Function unknown]; Region: COG5616 1042876005273 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 1042876005274 TPR motif; other site 1042876005275 binding surface 1042876005276 TPR repeat; Region: TPR_11; pfam13414 1042876005277 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 1042876005278 TPR motif; other site 1042876005279 binding surface 1042876005280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876005281 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1042876005282 NAD(P) binding site [chemical binding]; other site 1042876005283 active site 1042876005284 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1042876005285 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042876005286 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876005287 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876005288 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042876005289 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005290 putative substrate translocation pore; other site 1042876005291 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 1042876005292 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1042876005293 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1042876005294 DNA binding residues [nucleotide binding] 1042876005295 dimer interface [polypeptide binding]; other site 1042876005296 [2Fe-2S] cluster binding site [ion binding]; other site 1042876005297 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1042876005298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876005299 DNA-binding site [nucleotide binding]; DNA binding site 1042876005300 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1042876005301 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042876005302 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876005303 Coenzyme A binding pocket [chemical binding]; other site 1042876005304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876005305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005306 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1042876005307 putative substrate binding pocket [chemical binding]; other site 1042876005308 putative dimerization interface [polypeptide binding]; other site 1042876005309 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1042876005310 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1042876005311 active site 1042876005312 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876005313 substrate binding site [chemical binding]; other site 1042876005314 catalytic residues [active] 1042876005315 dimer interface [polypeptide binding]; other site 1042876005316 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1042876005317 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005318 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 1042876005319 dimerization interface [polypeptide binding]; other site 1042876005320 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1042876005321 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 1042876005322 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1042876005323 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1042876005324 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1042876005325 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042876005326 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042876005327 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876005328 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876005329 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1042876005330 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1042876005331 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1042876005332 Cl binding site [ion binding]; other site 1042876005333 oligomer interface [polypeptide binding]; other site 1042876005334 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1042876005335 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876005336 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 1042876005337 DNA binding residues [nucleotide binding] 1042876005338 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1042876005339 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876005340 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876005341 ligand binding site [chemical binding]; other site 1042876005342 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1042876005343 active site 1042876005344 SAM binding site [chemical binding]; other site 1042876005345 homodimer interface [polypeptide binding]; other site 1042876005346 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1042876005347 active site 1042876005348 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1042876005349 active site 1042876005350 ATP binding site [chemical binding]; other site 1042876005351 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1042876005352 substrate binding site [chemical binding]; other site 1042876005353 activation loop (A-loop); other site 1042876005354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1042876005355 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1042876005356 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005357 putative substrate translocation pore; other site 1042876005358 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1042876005359 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005360 active site 1042876005361 phosphorylation site [posttranslational modification] 1042876005362 intermolecular recognition site; other site 1042876005363 dimerization interface [polypeptide binding]; other site 1042876005364 ANTAR domain; Region: ANTAR; pfam03861 1042876005365 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1042876005366 NMT1-like family; Region: NMT1_2; pfam13379 1042876005367 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1042876005368 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 1042876005369 quinone interaction residues [chemical binding]; other site 1042876005370 active site 1042876005371 catalytic residues [active] 1042876005372 FMN binding site [chemical binding]; other site 1042876005373 substrate binding site [chemical binding]; other site 1042876005374 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1042876005375 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1042876005376 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876005377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876005378 S-adenosylmethionine binding site [chemical binding]; other site 1042876005379 CHASE domain; Region: CHASE; pfam03924 1042876005380 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 1042876005381 PAS domain; Region: PAS_9; pfam13426 1042876005382 putative active site [active] 1042876005383 heme pocket [chemical binding]; other site 1042876005384 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 1042876005385 heme pocket [chemical binding]; other site 1042876005386 putative active site [active] 1042876005387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876005388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876005389 metal binding site [ion binding]; metal-binding site 1042876005390 active site 1042876005391 I-site; other site 1042876005392 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1042876005393 hypothetical protein; Provisional; Region: PRK11702 1042876005394 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042876005395 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 1042876005396 substrate binding pocket [chemical binding]; other site 1042876005397 membrane-bound complex binding site; other site 1042876005398 hinge residues; other site 1042876005399 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876005400 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 1042876005401 substrate binding pocket [chemical binding]; other site 1042876005402 membrane-bound complex binding site; other site 1042876005403 hinge residues; other site 1042876005404 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042876005405 PAS domain; Region: PAS; smart00091 1042876005406 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 1042876005407 dimer interface [polypeptide binding]; other site 1042876005408 phosphorylation site [posttranslational modification] 1042876005409 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876005410 ATP binding site [chemical binding]; other site 1042876005411 Mg2+ binding site [ion binding]; other site 1042876005412 G-X-G motif; other site 1042876005413 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876005414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005415 active site 1042876005416 phosphorylation site [posttranslational modification] 1042876005417 intermolecular recognition site; other site 1042876005418 dimerization interface [polypeptide binding]; other site 1042876005419 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876005420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005421 active site 1042876005422 phosphorylation site [posttranslational modification] 1042876005423 intermolecular recognition site; other site 1042876005424 dimerization interface [polypeptide binding]; other site 1042876005425 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 1042876005426 DNA binding residues [nucleotide binding] 1042876005427 dimerization interface [polypeptide binding]; other site 1042876005428 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1042876005429 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042876005430 Zn2+ binding site [ion binding]; other site 1042876005431 Mg2+ binding site [ion binding]; other site 1042876005432 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1042876005433 Predicted membrane protein [Function unknown]; Region: COG5393 1042876005434 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1042876005435 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1042876005436 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1042876005437 Peptidase M15; Region: Peptidase_M15_3; pfam08291 1042876005438 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1042876005439 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1042876005440 probable active site [active] 1042876005441 PAS domain; Region: PAS_9; pfam13426 1042876005442 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 1042876005443 putative active site [active] 1042876005444 heme pocket [chemical binding]; other site 1042876005445 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876005446 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876005447 dimer interface [polypeptide binding]; other site 1042876005448 putative CheW interface [polypeptide binding]; other site 1042876005449 aconitate hydratase; Validated; Region: PRK09277 1042876005450 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1042876005451 substrate binding site [chemical binding]; other site 1042876005452 ligand binding site [chemical binding]; other site 1042876005453 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 1042876005454 substrate binding site [chemical binding]; other site 1042876005455 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1042876005456 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1042876005457 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 1042876005458 CPxP motif; other site 1042876005459 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1042876005460 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1042876005461 ligand binding site [chemical binding]; other site 1042876005462 NAD binding site [chemical binding]; other site 1042876005463 catalytic site [active] 1042876005464 homodimer interface [polypeptide binding]; other site 1042876005465 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1042876005466 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876005467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876005468 Walker A/P-loop; other site 1042876005469 ATP binding site [chemical binding]; other site 1042876005470 Q-loop/lid; other site 1042876005471 ABC transporter signature motif; other site 1042876005472 Walker B; other site 1042876005473 D-loop; other site 1042876005474 H-loop/switch region; other site 1042876005475 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 1042876005476 dimerization interface [polypeptide binding]; other site 1042876005477 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876005478 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876005479 dimer interface [polypeptide binding]; other site 1042876005480 putative CheW interface [polypeptide binding]; other site 1042876005481 malate:quinone oxidoreductase; Validated; Region: PRK05257 1042876005482 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1042876005483 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1042876005484 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 1042876005485 MPT binding site; other site 1042876005486 trimer interface [polypeptide binding]; other site 1042876005487 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1042876005488 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 1042876005489 dimer interface [polypeptide binding]; other site 1042876005490 putative functional site; other site 1042876005491 putative MPT binding site; other site 1042876005492 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 1042876005493 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1042876005494 lipid kinase; Reviewed; Region: PRK13054 1042876005495 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1042876005496 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876005497 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005498 active site 1042876005499 phosphorylation site [posttranslational modification] 1042876005500 intermolecular recognition site; other site 1042876005501 dimerization interface [polypeptide binding]; other site 1042876005502 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 1042876005503 DNA binding residues [nucleotide binding] 1042876005504 dimerization interface [polypeptide binding]; other site 1042876005505 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042876005506 Histidine kinase; Region: HisKA_3; pfam07730 1042876005507 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876005508 ATP binding site [chemical binding]; other site 1042876005509 Mg2+ binding site [ion binding]; other site 1042876005510 G-X-G motif; other site 1042876005511 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876005512 dinuclear metal binding motif [ion binding]; other site 1042876005513 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042876005514 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876005515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005516 active site 1042876005517 phosphorylation site [posttranslational modification] 1042876005518 intermolecular recognition site; other site 1042876005519 dimerization interface [polypeptide binding]; other site 1042876005520 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1042876005521 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1042876005522 MOSC domain; Region: MOSC; pfam03473 1042876005523 lytic murein transglycosylase; Provisional; Region: PRK11619 1042876005524 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 1042876005525 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876005526 catalytic residue [active] 1042876005527 ABC transporter ATPase component; Reviewed; Region: PRK11147 1042876005528 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876005529 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876005530 ABC transporter; Region: ABC_tran_2; pfam12848 1042876005531 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876005532 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 1042876005533 Ligand Binding Site [chemical binding]; other site 1042876005534 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1042876005535 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 1042876005536 substrate binding site [chemical binding]; other site 1042876005537 oxyanion hole (OAH) forming residues; other site 1042876005538 trimer interface [polypeptide binding]; other site 1042876005539 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042876005540 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042876005541 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1042876005542 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 1042876005543 dimer interface [polypeptide binding]; other site 1042876005544 active site 1042876005545 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1042876005546 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1042876005547 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 1042876005548 active site 1042876005549 interdomain interaction site; other site 1042876005550 putative metal-binding site [ion binding]; other site 1042876005551 nucleotide binding site [chemical binding]; other site 1042876005552 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 1042876005553 domain I; other site 1042876005554 DNA binding groove [nucleotide binding] 1042876005555 phosphate binding site [ion binding]; other site 1042876005556 domain II; other site 1042876005557 domain III; other site 1042876005558 nucleotide binding site [chemical binding]; other site 1042876005559 catalytic site [active] 1042876005560 domain IV; other site 1042876005561 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1042876005562 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1042876005563 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1042876005564 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1042876005565 Cell division inhibitor SulA; Region: SulA; cl01880 1042876005566 LexA repressor; Validated; Region: PRK00215 1042876005567 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1042876005568 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 1042876005569 Catalytic site [active] 1042876005570 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876005571 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876005572 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 1042876005573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1042876005574 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042876005575 beta-hexosaminidase; Provisional; Region: PRK05337 1042876005576 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1042876005577 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1042876005578 beta-hexosaminidase; Provisional; Region: PRK05337 1042876005579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876005580 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876005581 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876005582 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1042876005583 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 1042876005584 ATP binding site [chemical binding]; other site 1042876005585 putative Mg++ binding site [ion binding]; other site 1042876005586 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 1042876005587 nucleotide binding region [chemical binding]; other site 1042876005588 ATP-binding site [chemical binding]; other site 1042876005589 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1042876005590 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1042876005591 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042876005592 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042876005593 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042876005594 ApbE family; Region: ApbE; pfam02424 1042876005595 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1042876005596 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876005597 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876005598 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1042876005599 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 1042876005600 active site 1042876005601 catalytic site [active] 1042876005602 metal binding site [ion binding]; metal-binding site 1042876005603 PilZ domain; Region: PilZ; pfam07238 1042876005604 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1042876005605 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042876005606 FtsX-like permease family; Region: FtsX; pfam02687 1042876005607 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1042876005608 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042876005609 Walker A/P-loop; other site 1042876005610 ATP binding site [chemical binding]; other site 1042876005611 Q-loop/lid; other site 1042876005612 ABC transporter signature motif; other site 1042876005613 Walker B; other site 1042876005614 D-loop; other site 1042876005615 H-loop/switch region; other site 1042876005616 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1042876005617 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042876005618 FtsX-like permease family; Region: FtsX; pfam02687 1042876005619 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876005620 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1042876005621 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 1042876005622 dimer interface [polypeptide binding]; other site 1042876005623 phosphorylation site [posttranslational modification] 1042876005624 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876005625 ATP binding site [chemical binding]; other site 1042876005626 Mg2+ binding site [ion binding]; other site 1042876005627 G-X-G motif; other site 1042876005628 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876005629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005630 active site 1042876005631 phosphorylation site [posttranslational modification] 1042876005632 intermolecular recognition site; other site 1042876005633 dimerization interface [polypeptide binding]; other site 1042876005634 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 1042876005635 DNA binding site [nucleotide binding] 1042876005636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1042876005637 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1042876005638 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1042876005639 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1042876005640 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1042876005641 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1042876005642 PilZ domain; Region: PilZ; pfam07238 1042876005643 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876005644 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876005645 active site 1042876005646 phosphorylation site [posttranslational modification] 1042876005647 intermolecular recognition site; other site 1042876005648 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 1042876005649 dimerization interface [polypeptide binding]; other site 1042876005650 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1042876005651 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 1042876005652 anti sigma factor interaction site; other site 1042876005653 regulatory phosphorylation site [posttranslational modification]; other site 1042876005654 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1042876005655 metal binding site [ion binding]; metal-binding site 1042876005656 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1042876005657 putative active site [active] 1042876005658 putative metal binding site [ion binding]; other site 1042876005659 transaldolase-like protein; Provisional; Region: PTZ00411 1042876005660 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1042876005661 active site 1042876005662 dimer interface [polypeptide binding]; other site 1042876005663 catalytic residue [active] 1042876005664 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1042876005665 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 1042876005666 FMN binding site [chemical binding]; other site 1042876005667 active site 1042876005668 catalytic residues [active] 1042876005669 substrate binding site [chemical binding]; other site 1042876005670 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 1042876005671 active site 1042876005672 DNA binding site [nucleotide binding] 1042876005673 Int/Topo IB signature motif; other site 1042876005674 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1042876005675 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 1042876005676 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 1042876005677 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042876005678 non-specific DNA binding site [nucleotide binding]; other site 1042876005679 salt bridge; other site 1042876005680 sequence-specific DNA binding site [nucleotide binding]; other site 1042876005681 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 1042876005682 Predicted transcriptional regulator [Transcription]; Region: COG2932 1042876005683 Catalytic site [active] 1042876005684 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1042876005685 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1042876005686 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1042876005687 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 1042876005688 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1042876005689 oligomer interface [polypeptide binding]; other site 1042876005690 active site residues [active] 1042876005691 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1042876005692 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1042876005693 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1042876005694 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1042876005695 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 1042876005696 Baseplate J-like protein; Region: Baseplate_J; cl01294 1042876005697 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 1042876005698 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1042876005699 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1042876005700 Phage tail tube protein FII; Region: Phage_tube; pfam04985 1042876005701 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1042876005702 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1042876005703 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1042876005704 Phage Tail Protein X; Region: Phage_tail_X; cl02088 1042876005705 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1042876005706 Predicted chitinase [General function prediction only]; Region: COG3179 1042876005707 catalytic residue [active] 1042876005708 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1042876005709 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1042876005710 AIPR protein; Region: AIPR; pfam10592 1042876005711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876005712 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876005713 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876005714 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1042876005715 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1042876005716 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1042876005717 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1042876005718 tetramer interface [polypeptide binding]; other site 1042876005719 active site 1042876005720 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876005721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042876005722 Coenzyme A binding pocket [chemical binding]; other site 1042876005723 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1042876005724 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 1042876005725 active site 1042876005726 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042876005727 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005728 putative substrate translocation pore; other site 1042876005729 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1042876005730 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042876005731 ligand binding site [chemical binding]; other site 1042876005732 NAD binding site [chemical binding]; other site 1042876005733 dimerization interface [polypeptide binding]; other site 1042876005734 catalytic site [active] 1042876005735 hypothetical protein; Validated; Region: PRK06201 1042876005736 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042876005737 H+ Antiporter protein; Region: 2A0121; TIGR00900 1042876005738 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042876005739 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005740 putative substrate translocation pore; other site 1042876005741 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1042876005742 Strictosidine synthase; Region: Str_synth; pfam03088 1042876005743 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876005744 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042876005745 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1042876005746 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876005747 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 1042876005748 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 1042876005749 putative dimer interface [polypeptide binding]; other site 1042876005750 [2Fe-2S] cluster binding site [ion binding]; other site 1042876005751 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 1042876005752 putative dimer interface [polypeptide binding]; other site 1042876005753 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 1042876005754 SLBB domain; Region: SLBB; pfam10531 1042876005755 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1042876005756 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 1042876005757 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 1042876005758 catalytic loop [active] 1042876005759 iron binding site [ion binding]; other site 1042876005760 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042876005761 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 1042876005762 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 1042876005763 [4Fe-4S] binding site [ion binding]; other site 1042876005764 molybdopterin cofactor binding site; other site 1042876005765 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 1042876005766 molybdopterin cofactor binding site; other site 1042876005767 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 1042876005768 universal stress protein UspE; Provisional; Region: PRK11175 1042876005769 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 1042876005770 Ligand Binding Site [chemical binding]; other site 1042876005771 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 1042876005772 Ligand Binding Site [chemical binding]; other site 1042876005773 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1042876005774 active site 1042876005775 dinuclear metal binding site [ion binding]; other site 1042876005776 dimerization interface [polypeptide binding]; other site 1042876005777 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1042876005778 Water Stress and Hypersensitive response; Region: WHy; smart00769 1042876005779 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876005780 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1042876005781 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 1042876005782 DNA binding residues [nucleotide binding] 1042876005783 FecR protein; Region: FecR; pfam04773 1042876005784 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876005785 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876005786 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 1042876005787 N-terminal plug; other site 1042876005788 ligand-binding site [chemical binding]; other site 1042876005789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876005790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005791 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042876005792 dimerization interface [polypeptide binding]; other site 1042876005793 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876005794 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876005795 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1042876005796 agmatinase; Region: agmatinase; TIGR01230 1042876005797 oligomer interface [polypeptide binding]; other site 1042876005798 putative active site [active] 1042876005799 Mn binding site [ion binding]; other site 1042876005800 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1042876005801 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1042876005802 Predicted ATPase [General function prediction only]; Region: COG1485 1042876005803 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042876005804 Walker A motif; other site 1042876005805 ATP binding site [chemical binding]; other site 1042876005806 Walker B motif; other site 1042876005807 arginine finger; other site 1042876005808 DinB family; Region: DinB; cl17821 1042876005809 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 1042876005810 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876005811 Predicted membrane protein [Function unknown]; Region: COG1238 1042876005812 Protein of unknown function, DUF; Region: DUF411; cl01142 1042876005813 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1042876005814 putative protease; Provisional; Region: PRK15452 1042876005815 Peptidase family U32; Region: Peptidase_U32; pfam01136 1042876005816 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042876005817 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042876005818 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 1042876005819 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 1042876005820 motif II; other site 1042876005821 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 1042876005822 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876005823 catalytic residue [active] 1042876005824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005825 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042876005826 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 1042876005827 dimerization interface [polypeptide binding]; other site 1042876005828 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876005829 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876005830 SurA N-terminal domain; Region: SurA_N; pfam09312 1042876005831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876005832 Leucine rich repeat; Region: LRR_8; pfam13855 1042876005833 Leucine rich repeat; Region: LRR_8; pfam13855 1042876005834 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1042876005835 Leucine rich repeat; Region: LRR_8; pfam13855 1042876005836 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1042876005837 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1042876005838 active site 1042876005839 acyl-activating enzyme (AAE) consensus motif; other site 1042876005840 putative CoA binding site [chemical binding]; other site 1042876005841 AMP binding site [chemical binding]; other site 1042876005842 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1042876005843 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876005844 NAD(P) binding site [chemical binding]; other site 1042876005845 active site 1042876005846 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1042876005847 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 1042876005848 dimer interface [polypeptide binding]; other site 1042876005849 active site 1042876005850 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876005851 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 1042876005852 FAD binding site [chemical binding]; other site 1042876005853 homotetramer interface [polypeptide binding]; other site 1042876005854 substrate binding pocket [chemical binding]; other site 1042876005855 catalytic base [active] 1042876005856 enoyl-CoA hydratase; Provisional; Region: PRK05862 1042876005857 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 1042876005858 substrate binding site [chemical binding]; other site 1042876005859 oxyanion hole (OAH) forming residues; other site 1042876005860 trimer interface [polypeptide binding]; other site 1042876005861 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1042876005862 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1042876005863 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1042876005864 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1042876005865 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1042876005866 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042876005867 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1042876005868 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1042876005869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042876005870 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1042876005871 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1042876005872 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 1042876005873 EamA-like transporter family; Region: EamA; pfam00892 1042876005874 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042876005875 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 1042876005876 non-specific DNA binding site [nucleotide binding]; other site 1042876005877 salt bridge; other site 1042876005878 sequence-specific DNA binding site [nucleotide binding]; other site 1042876005879 Cupin domain; Region: Cupin_2; pfam07883 1042876005880 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876005881 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 1042876005882 catalytic triad [active] 1042876005883 conserved cis-peptide bond; other site 1042876005884 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876005885 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1042876005886 conserved cys residue [active] 1042876005887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876005888 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876005889 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876005890 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1042876005891 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042876005892 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1042876005893 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1042876005894 active site 1042876005895 threonine and homoserine efflux system; Provisional; Region: PRK10532 1042876005896 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1042876005897 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1042876005898 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1042876005899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876005900 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876005901 putative substrate translocation pore; other site 1042876005902 outer membrane receptor FepA; Provisional; Region: PRK13524 1042876005903 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 1042876005904 N-terminal plug; other site 1042876005905 ligand-binding site [chemical binding]; other site 1042876005906 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 1042876005907 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876005908 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042876005909 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 1042876005910 non-specific DNA binding site [nucleotide binding]; other site 1042876005911 salt bridge; other site 1042876005912 sequence-specific DNA binding site [nucleotide binding]; other site 1042876005913 Cupin domain; Region: Cupin_2; pfam07883 1042876005914 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876005915 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876005916 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 1042876005917 homotrimer interaction site [polypeptide binding]; other site 1042876005918 putative active site [active] 1042876005919 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1042876005920 Cache domain; Region: Cache_1; pfam02743 1042876005921 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 1042876005922 dimerization interface [polypeptide binding]; other site 1042876005923 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876005924 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876005925 dimer interface [polypeptide binding]; other site 1042876005926 putative CheW interface [polypeptide binding]; other site 1042876005927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876005928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876005929 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 1042876005930 dimerization interface [polypeptide binding]; other site 1042876005931 Predicted membrane protein [Function unknown]; Region: COG4125 1042876005932 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876005933 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876005934 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876005935 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876005936 DNA-binding site [nucleotide binding]; DNA binding site 1042876005937 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876005938 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876005939 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876005940 DNA-binding site [nucleotide binding]; DNA binding site 1042876005941 FCD domain; Region: FCD; pfam07729 1042876005942 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 1042876005943 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876005944 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 1042876005945 PAS fold; Region: PAS_3; pfam08447 1042876005946 putative active site [active] 1042876005947 heme pocket [chemical binding]; other site 1042876005948 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876005949 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876005950 dimer interface [polypeptide binding]; other site 1042876005951 putative CheW interface [polypeptide binding]; other site 1042876005952 PAS domain; Region: PAS_9; pfam13426 1042876005953 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 1042876005954 putative active site [active] 1042876005955 heme pocket [chemical binding]; other site 1042876005956 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876005957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876005958 metal binding site [ion binding]; metal-binding site 1042876005959 active site 1042876005960 I-site; other site 1042876005961 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 1042876005962 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 1042876005963 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042876005964 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876005965 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042876005966 MULE transposase domain; Region: MULE; pfam10551 1042876005967 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042876005968 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042876005969 GAF domain; Region: GAF; pfam01590 1042876005970 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876005971 Walker A motif; other site 1042876005972 ATP binding site [chemical binding]; other site 1042876005973 Walker B motif; other site 1042876005974 arginine finger; other site 1042876005975 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876005976 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1042876005977 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042876005978 Walker A/P-loop; other site 1042876005979 ATP binding site [chemical binding]; other site 1042876005980 Q-loop/lid; other site 1042876005981 ABC transporter signature motif; other site 1042876005982 Walker B; other site 1042876005983 D-loop; other site 1042876005984 H-loop/switch region; other site 1042876005985 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1042876005986 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042876005987 Walker A/P-loop; other site 1042876005988 ATP binding site [chemical binding]; other site 1042876005989 Q-loop/lid; other site 1042876005990 ABC transporter signature motif; other site 1042876005991 Walker B; other site 1042876005992 D-loop; other site 1042876005993 H-loop/switch region; other site 1042876005994 TOBE domain; Region: TOBE; pfam03459 1042876005995 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1042876005996 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876005997 dimer interface [polypeptide binding]; other site 1042876005998 conserved gate region; other site 1042876005999 putative PBP binding loops; other site 1042876006000 ABC-ATPase subunit interface; other site 1042876006001 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1042876006002 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876006003 dimer interface [polypeptide binding]; other site 1042876006004 conserved gate region; other site 1042876006005 putative PBP binding loops; other site 1042876006006 ABC-ATPase subunit interface; other site 1042876006007 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1042876006008 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1042876006009 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1042876006010 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1042876006011 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1042876006012 homodimer interface [polypeptide binding]; other site 1042876006013 NADP binding site [chemical binding]; other site 1042876006014 substrate binding site [chemical binding]; other site 1042876006015 trigger factor; Provisional; Region: tig; PRK01490 1042876006016 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876006017 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1042876006018 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1042876006019 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1042876006020 oligomer interface [polypeptide binding]; other site 1042876006021 active site residues [active] 1042876006022 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1042876006023 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1042876006024 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876006025 Walker A motif; other site 1042876006026 ATP binding site [chemical binding]; other site 1042876006027 Walker B motif; other site 1042876006028 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042876006029 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1042876006030 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1042876006031 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876006032 Walker A motif; other site 1042876006033 ATP binding site [chemical binding]; other site 1042876006034 Walker B motif; other site 1042876006035 arginine finger; other site 1042876006036 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042876006037 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 1042876006038 IHF dimer interface [polypeptide binding]; other site 1042876006039 IHF - DNA interface [nucleotide binding]; other site 1042876006040 periplasmic folding chaperone; Provisional; Region: PRK10788 1042876006041 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1042876006042 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1042876006043 hypothetical protein; Provisional; Region: PRK10279 1042876006044 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042876006045 active site 1042876006046 nucleophile elbow; other site 1042876006047 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 1042876006048 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1042876006049 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 1042876006050 active site 1042876006051 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 1042876006052 active site 2 [active] 1042876006053 active site 1 [active] 1042876006054 Terminase small subunit; Region: Terminase_2; cl01513 1042876006055 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 1042876006056 dimerization interface [polypeptide binding]; other site 1042876006057 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876006058 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876006059 dimer interface [polypeptide binding]; other site 1042876006060 putative CheW interface [polypeptide binding]; other site 1042876006061 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1042876006062 active site 1042876006063 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 1042876006064 substrate binding pocket [chemical binding]; other site 1042876006065 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042876006066 membrane-bound complex binding site; other site 1042876006067 hinge residues; other site 1042876006068 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 1042876006069 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876006070 catalytic residue [active] 1042876006071 Predicted membrane protein [Function unknown]; Region: COG2259 1042876006072 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1042876006073 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042876006074 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042876006075 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1042876006076 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1042876006077 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042876006078 Walker A/P-loop; other site 1042876006079 ATP binding site [chemical binding]; other site 1042876006080 Q-loop/lid; other site 1042876006081 ABC transporter signature motif; other site 1042876006082 Walker B; other site 1042876006083 D-loop; other site 1042876006084 H-loop/switch region; other site 1042876006085 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 1042876006086 active site 1042876006087 catalytic triad [active] 1042876006088 oxyanion hole [active] 1042876006089 switch loop; other site 1042876006090 L,D-transpeptidase; Provisional; Region: PRK10260 1042876006091 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1042876006092 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876006093 Coenzyme A binding pocket [chemical binding]; other site 1042876006094 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1042876006095 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042876006096 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 1042876006097 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042876006098 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042876006099 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 1042876006100 Ligand Binding Site [chemical binding]; other site 1042876006101 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1042876006102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006103 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1042876006104 substrate binding site [chemical binding]; other site 1042876006105 dimerization interface [polypeptide binding]; other site 1042876006106 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1042876006107 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 1042876006108 Active Sites [active] 1042876006109 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1042876006110 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1042876006111 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1042876006112 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1042876006113 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1042876006114 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1042876006115 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1042876006116 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876006117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876006118 DNA-binding site [nucleotide binding]; DNA binding site 1042876006119 FCD domain; Region: FCD; pfam07729 1042876006120 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042876006121 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 1042876006122 tetramer interface [polypeptide binding]; other site 1042876006123 active site 1042876006124 Mg2+/Mn2+ binding site [ion binding]; other site 1042876006125 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042876006126 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 1042876006127 dimer interface [polypeptide binding]; other site 1042876006128 active site 1042876006129 citrylCoA binding site [chemical binding]; other site 1042876006130 oxalacetate/citrate binding site [chemical binding]; other site 1042876006131 coenzyme A binding site [chemical binding]; other site 1042876006132 catalytic triad [active] 1042876006133 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1042876006134 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042876006135 substrate binding site [chemical binding]; other site 1042876006136 ligand binding site [chemical binding]; other site 1042876006137 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 1042876006138 substrate binding site [chemical binding]; other site 1042876006139 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1042876006140 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1042876006141 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1042876006142 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1042876006143 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 1042876006144 substrate binding site [chemical binding]; other site 1042876006145 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1042876006146 substrate binding site [chemical binding]; other site 1042876006147 ligand binding site [chemical binding]; other site 1042876006148 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1042876006149 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1042876006150 active site 1042876006151 Predicted membrane protein [Function unknown]; Region: COG3212 1042876006152 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042876006153 Predicted membrane protein [Function unknown]; Region: COG3212 1042876006154 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042876006155 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876006156 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006157 active site 1042876006158 phosphorylation site [posttranslational modification] 1042876006159 intermolecular recognition site; other site 1042876006160 dimerization interface [polypeptide binding]; other site 1042876006161 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 1042876006162 DNA binding site [nucleotide binding] 1042876006163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876006164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006165 ATP binding site [chemical binding]; other site 1042876006166 Mg2+ binding site [ion binding]; other site 1042876006167 G-X-G motif; other site 1042876006168 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1042876006169 HPP family; Region: HPP; pfam04982 1042876006170 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1042876006171 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 1042876006172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006174 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042876006175 dimerization interface [polypeptide binding]; other site 1042876006176 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1042876006177 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1042876006178 acyl-activating enzyme (AAE) consensus motif; other site 1042876006179 putative AMP binding site [chemical binding]; other site 1042876006180 putative active site [active] 1042876006181 putative CoA binding site [chemical binding]; other site 1042876006182 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042876006183 Predicted ATPase [General function prediction only]; Region: COG1485 1042876006184 Walker A motif; other site 1042876006185 ATP binding site [chemical binding]; other site 1042876006186 Walker B motif; other site 1042876006187 arginine finger; other site 1042876006188 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1042876006189 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876006190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006191 active site 1042876006192 phosphorylation site [posttranslational modification] 1042876006193 intermolecular recognition site; other site 1042876006194 dimerization interface [polypeptide binding]; other site 1042876006195 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 1042876006196 PAS fold; Region: PAS_3; pfam08447 1042876006197 putative active site [active] 1042876006198 heme pocket [chemical binding]; other site 1042876006199 PAS fold; Region: PAS_4; pfam08448 1042876006200 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 1042876006201 dimer interface [polypeptide binding]; other site 1042876006202 phosphorylation site [posttranslational modification] 1042876006203 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006204 ATP binding site [chemical binding]; other site 1042876006205 Mg2+ binding site [ion binding]; other site 1042876006206 G-X-G motif; other site 1042876006207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006208 active site 1042876006209 phosphorylation site [posttranslational modification] 1042876006210 intermolecular recognition site; other site 1042876006211 dimerization interface [polypeptide binding]; other site 1042876006212 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876006213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006214 active site 1042876006215 phosphorylation site [posttranslational modification] 1042876006216 intermolecular recognition site; other site 1042876006217 dimerization interface [polypeptide binding]; other site 1042876006218 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 1042876006219 GAF domain; Region: GAF; pfam01590 1042876006220 Phytochrome region; Region: PHY; pfam00360 1042876006221 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 1042876006222 dimer interface [polypeptide binding]; other site 1042876006223 phosphorylation site [posttranslational modification] 1042876006224 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006225 ATP binding site [chemical binding]; other site 1042876006226 Mg2+ binding site [ion binding]; other site 1042876006227 G-X-G motif; other site 1042876006228 Spore Coat Protein U domain; Region: SCPU; pfam05229 1042876006229 Spore Coat Protein U domain; Region: SCPU; pfam05229 1042876006230 Spore Coat Protein U domain; Region: SCPU; pfam05229 1042876006231 Spore Coat Protein U domain; Region: SCPU; pfam05229 1042876006232 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1042876006233 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1042876006234 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1042876006235 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1042876006236 PapC N-terminal domain; Region: PapC_N; pfam13954 1042876006237 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1042876006238 PapC C-terminal domain; Region: PapC_C; pfam13953 1042876006239 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1042876006240 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1042876006241 active site 1042876006242 Zn binding site [ion binding]; other site 1042876006243 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876006244 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006245 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876006246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006248 putative substrate translocation pore; other site 1042876006249 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876006250 VacJ like lipoprotein; Region: VacJ; cl01073 1042876006251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876006252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006253 active site 1042876006254 phosphorylation site [posttranslational modification] 1042876006255 intermolecular recognition site; other site 1042876006256 dimerization interface [polypeptide binding]; other site 1042876006257 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 1042876006258 DNA binding site [nucleotide binding] 1042876006259 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 1042876006260 dimer interface [polypeptide binding]; other site 1042876006261 phosphorylation site [posttranslational modification] 1042876006262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006263 ATP binding site [chemical binding]; other site 1042876006264 Mg2+ binding site [ion binding]; other site 1042876006265 G-X-G motif; other site 1042876006266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 1042876006267 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042876006268 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042876006269 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 1042876006270 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876006271 active site 1042876006272 catalytic tetrad [active] 1042876006273 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 1042876006274 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1042876006275 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042876006276 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042876006277 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 1042876006278 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042876006279 putative ligand binding site [chemical binding]; other site 1042876006280 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1042876006281 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1042876006282 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1042876006283 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1042876006284 substrate binding pocket [chemical binding]; other site 1042876006285 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 1042876006286 B12 binding site [chemical binding]; other site 1042876006287 cobalt ligand [ion binding]; other site 1042876006288 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1042876006289 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1042876006290 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1042876006291 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1042876006292 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1042876006293 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1042876006294 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1042876006295 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 1042876006296 Cu(I) binding site [ion binding]; other site 1042876006297 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1042876006298 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 1042876006299 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 1042876006300 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 1042876006301 FeS/SAM binding site; other site 1042876006302 H+ Antiporter protein; Region: 2A0121; TIGR00900 1042876006303 ornithine decarboxylase; Provisional; Region: PRK13578 1042876006304 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 1042876006305 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876006306 catalytic residue [active] 1042876006307 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1042876006308 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1042876006309 active site 1042876006310 DNA polymerase IV; Validated; Region: PRK02406 1042876006311 DNA binding site [nucleotide binding] 1042876006312 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876006313 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876006314 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006316 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1042876006317 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1042876006318 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876006319 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 1042876006320 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006321 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006322 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 1042876006323 dimerization interface [polypeptide binding]; other site 1042876006324 DNA polymerase II; Reviewed; Region: PRK05762 1042876006325 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1042876006326 active site 1042876006327 catalytic site [active] 1042876006328 substrate binding site [chemical binding]; other site 1042876006329 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 1042876006330 active site 1042876006331 metal-binding site 1042876006332 Leucine rich repeat; Region: LRR_8; pfam13855 1042876006333 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 1042876006334 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1042876006335 EF-hand domain pair; Region: EF_hand_5; pfam13499 1042876006336 Ca2+ binding site [ion binding]; other site 1042876006337 hypothetical protein; Provisional; Region: PRK05409 1042876006338 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1042876006339 Predicted membrane protein [Function unknown]; Region: COG2259 1042876006340 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876006341 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 1042876006342 dimer interface [polypeptide binding]; other site 1042876006343 phosphorylation site [posttranslational modification] 1042876006344 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006345 ATP binding site [chemical binding]; other site 1042876006346 Mg2+ binding site [ion binding]; other site 1042876006347 G-X-G motif; other site 1042876006348 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1042876006349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006350 active site 1042876006351 phosphorylation site [posttranslational modification] 1042876006352 intermolecular recognition site; other site 1042876006353 dimerization interface [polypeptide binding]; other site 1042876006354 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 1042876006355 DNA binding site [nucleotide binding] 1042876006356 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876006357 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 1042876006358 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876006359 catalytic residues [active] 1042876006360 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 1042876006361 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042876006362 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042876006363 shikimate binding site; other site 1042876006364 NAD(P) binding site [chemical binding]; other site 1042876006365 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 1042876006366 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1042876006367 trimer interface [polypeptide binding]; other site 1042876006368 active site 1042876006369 dimer interface [polypeptide binding]; other site 1042876006370 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042876006371 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1042876006372 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876006373 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1042876006374 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006375 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876006376 putative substrate translocation pore; other site 1042876006377 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1042876006378 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042876006379 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 1042876006380 P-loop; other site 1042876006381 Magnesium ion binding site [ion binding]; other site 1042876006382 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 1042876006383 Magnesium ion binding site [ion binding]; other site 1042876006384 Cache domain; Region: Cache_1; pfam02743 1042876006385 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876006386 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876006387 metal binding site [ion binding]; metal-binding site 1042876006388 active site 1042876006389 I-site; other site 1042876006390 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876006391 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1042876006392 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1042876006393 Walker A/P-loop; other site 1042876006394 ATP binding site [chemical binding]; other site 1042876006395 Q-loop/lid; other site 1042876006396 ABC transporter signature motif; other site 1042876006397 Walker B; other site 1042876006398 D-loop; other site 1042876006399 H-loop/switch region; other site 1042876006400 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1042876006401 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 1042876006402 ABC-ATPase subunit interface; other site 1042876006403 dimer interface [polypeptide binding]; other site 1042876006404 putative PBP binding regions; other site 1042876006405 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 1042876006406 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1042876006407 putative ligand binding residues [chemical binding]; other site 1042876006408 Predicted membrane protein [Function unknown]; Region: COG3503 1042876006409 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876006410 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 1042876006411 N-terminal plug; other site 1042876006412 ligand-binding site [chemical binding]; other site 1042876006413 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1042876006414 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006415 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1042876006416 putative dimerization interface [polypeptide binding]; other site 1042876006417 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1042876006418 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 1042876006419 putative active site [active] 1042876006420 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876006421 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876006422 Sporulation related domain; Region: SPOR; pfam05036 1042876006423 HD domain; Region: HD_4; pfam13328 1042876006424 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1042876006425 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 1042876006426 homodimer interface [polypeptide binding]; other site 1042876006427 active site 1042876006428 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 1042876006429 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042876006430 ligand binding site [chemical binding]; other site 1042876006431 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1042876006432 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042876006433 Walker A/P-loop; other site 1042876006434 ATP binding site [chemical binding]; other site 1042876006435 Q-loop/lid; other site 1042876006436 ABC transporter signature motif; other site 1042876006437 Walker B; other site 1042876006438 D-loop; other site 1042876006439 H-loop/switch region; other site 1042876006440 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042876006441 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042876006442 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 1042876006443 TM-ABC transporter signature motif; other site 1042876006444 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042876006445 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042876006446 DNA binding site [nucleotide binding] 1042876006447 domain linker motif; other site 1042876006448 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042876006449 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042876006450 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 1042876006451 substrate binding site [chemical binding]; other site 1042876006452 dimer interface [polypeptide binding]; other site 1042876006453 ATP binding site [chemical binding]; other site 1042876006454 D-ribose pyranase; Provisional; Region: PRK11797 1042876006455 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 1042876006456 active site 1042876006457 tetramer interface [polypeptide binding]; other site 1042876006458 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1042876006459 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 1042876006460 DNA-binding site [nucleotide binding]; DNA binding site 1042876006461 RNA-binding motif; other site 1042876006462 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1042876006463 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 1042876006464 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1042876006465 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 1042876006466 active site 1042876006467 dimer interface [polypeptide binding]; other site 1042876006468 motif 1; other site 1042876006469 motif 2; other site 1042876006470 motif 3; other site 1042876006471 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 1042876006472 anticodon binding site; other site 1042876006473 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1042876006474 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1042876006475 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1042876006476 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1042876006477 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1042876006478 23S rRNA binding site [nucleotide binding]; other site 1042876006479 L21 binding site [polypeptide binding]; other site 1042876006480 L13 binding site [polypeptide binding]; other site 1042876006481 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1042876006482 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1042876006483 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 1042876006484 dimer interface [polypeptide binding]; other site 1042876006485 motif 1; other site 1042876006486 active site 1042876006487 motif 2; other site 1042876006488 motif 3; other site 1042876006489 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1042876006490 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 1042876006491 putative tRNA-binding site [nucleotide binding]; other site 1042876006492 B3/4 domain; Region: B3_4; pfam03483 1042876006493 tRNA synthetase B5 domain; Region: B5; smart00874 1042876006494 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 1042876006495 dimer interface [polypeptide binding]; other site 1042876006496 motif 1; other site 1042876006497 motif 3; other site 1042876006498 motif 2; other site 1042876006499 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1042876006500 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 1042876006501 IHF dimer interface [polypeptide binding]; other site 1042876006502 IHF - DNA interface [nucleotide binding]; other site 1042876006503 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1042876006504 transposase/IS protein; Provisional; Region: PRK09183 1042876006505 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876006506 Walker A motif; other site 1042876006507 ATP binding site [chemical binding]; other site 1042876006508 Walker B motif; other site 1042876006509 arginine finger; other site 1042876006510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876006511 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876006512 Integrase core domain; Region: rve; pfam00665 1042876006513 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042876006514 GAF domain; Region: GAF; pfam01590 1042876006515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876006516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876006517 metal binding site [ion binding]; metal-binding site 1042876006518 active site 1042876006519 I-site; other site 1042876006520 glutaminase; Provisional; Region: PRK00971 1042876006521 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1042876006522 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876006523 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876006524 DNA-binding site [nucleotide binding]; DNA binding site 1042876006525 FCD domain; Region: FCD; pfam07729 1042876006526 dihydroxy-acid dehydratase; Validated; Region: PRK06131 1042876006527 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042876006528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006529 putative substrate translocation pore; other site 1042876006530 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1042876006531 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042876006532 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042876006533 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042876006534 dimer interface [polypeptide binding]; other site 1042876006535 NADP binding site [chemical binding]; other site 1042876006536 catalytic residues [active] 1042876006537 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 1042876006538 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 1042876006539 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1042876006540 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 1042876006541 homodimer interface [polypeptide binding]; other site 1042876006542 substrate-cofactor binding pocket; other site 1042876006543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876006544 catalytic residue [active] 1042876006545 OPT oligopeptide transporter protein; Region: OPT; pfam03169 1042876006546 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876006547 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042876006548 conserved cys residue [active] 1042876006549 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876006551 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042876006552 Zn2+ binding site [ion binding]; other site 1042876006553 Mg2+ binding site [ion binding]; other site 1042876006554 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 1042876006555 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1042876006556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006557 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 1042876006558 putative effector binding pocket; other site 1042876006559 putative dimerization interface [polypeptide binding]; other site 1042876006560 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876006561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006562 putative substrate translocation pore; other site 1042876006563 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876006564 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 1042876006565 putative C-terminal domain interface [polypeptide binding]; other site 1042876006566 putative GSH binding site (G-site) [chemical binding]; other site 1042876006567 putative dimer interface [polypeptide binding]; other site 1042876006568 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1042876006569 putative N-terminal domain interface [polypeptide binding]; other site 1042876006570 putative dimer interface [polypeptide binding]; other site 1042876006571 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876006572 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876006573 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042876006574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006575 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 1042876006576 dimerization interface [polypeptide binding]; other site 1042876006577 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006578 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1042876006579 putative substrate translocation pore; other site 1042876006580 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042876006581 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042876006582 active site 1042876006583 NAD binding site [chemical binding]; other site 1042876006584 metal binding site [ion binding]; metal-binding site 1042876006585 NIPSNAP; Region: NIPSNAP; pfam07978 1042876006586 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042876006587 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1042876006588 putative NAD(P) binding site [chemical binding]; other site 1042876006589 putative active site [active] 1042876006590 WYL domain; Region: WYL; pfam13280 1042876006591 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 1042876006592 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876006593 putative NAD(P) binding site [chemical binding]; other site 1042876006594 substrate binding site [chemical binding]; other site 1042876006595 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876006596 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006597 putative substrate translocation pore; other site 1042876006598 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876006599 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 1042876006600 FMN binding site [chemical binding]; other site 1042876006601 active site 1042876006602 substrate binding site [chemical binding]; other site 1042876006603 catalytic residue [active] 1042876006604 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1042876006605 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1042876006606 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006607 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006608 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 1042876006609 dimerization interface [polypeptide binding]; other site 1042876006610 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876006611 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006612 putative substrate translocation pore; other site 1042876006613 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042876006614 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042876006615 active site 1042876006616 metal binding site [ion binding]; metal-binding site 1042876006617 dimer interface [polypeptide binding]; other site 1042876006618 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1042876006619 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042876006620 active site 1042876006621 Zn binding site [ion binding]; other site 1042876006622 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 1042876006623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876006624 DNA-binding site [nucleotide binding]; DNA binding site 1042876006625 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 1042876006626 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876006627 homodimer interface [polypeptide binding]; other site 1042876006628 catalytic residue [active] 1042876006629 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876006630 Spore germination protein; Region: Spore_permease; cl17796 1042876006631 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1042876006632 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876006633 S-adenosylmethionine binding site [chemical binding]; other site 1042876006634 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 1042876006635 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042876006636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006637 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 1042876006638 dimerization interface [polypeptide binding]; other site 1042876006639 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1042876006640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006641 putative substrate translocation pore; other site 1042876006642 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876006643 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876006644 hypothetical protein; Provisional; Region: PRK12378 1042876006645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006647 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 1042876006648 substrate binding pocket [chemical binding]; other site 1042876006649 dimerization interface [polypeptide binding]; other site 1042876006650 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 1042876006651 tyrosine decarboxylase; Region: PLN02880 1042876006652 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876006653 catalytic residue [active] 1042876006654 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006655 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876006656 putative substrate translocation pore; other site 1042876006657 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042876006658 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1042876006659 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1042876006660 dimer interface [polypeptide binding]; other site 1042876006661 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1042876006662 active site 1042876006663 Fe binding site [ion binding]; other site 1042876006664 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042876006665 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876006666 S-adenosylmethionine binding site [chemical binding]; other site 1042876006667 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1042876006668 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1042876006669 Chromate transporter; Region: Chromate_transp; pfam02417 1042876006670 PAS domain S-box; Region: sensory_box; TIGR00229 1042876006671 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 1042876006672 putative active site [active] 1042876006673 heme pocket [chemical binding]; other site 1042876006674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876006675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876006676 metal binding site [ion binding]; metal-binding site 1042876006677 active site 1042876006678 I-site; other site 1042876006679 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042876006680 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042876006681 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 1042876006682 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1042876006683 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876006684 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 1042876006685 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 1042876006686 Walker A/P-loop; other site 1042876006687 ATP binding site [chemical binding]; other site 1042876006688 Q-loop/lid; other site 1042876006689 ABC transporter signature motif; other site 1042876006690 Walker B; other site 1042876006691 D-loop; other site 1042876006692 H-loop/switch region; other site 1042876006693 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 1042876006694 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 1042876006695 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042876006696 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876006697 transcriptional activator TtdR; Provisional; Region: PRK09801 1042876006698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006699 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_9; cd08479 1042876006700 putative effector binding pocket; other site 1042876006701 putative dimerization interface [polypeptide binding]; other site 1042876006702 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 1042876006703 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876006704 catalytic triad [active] 1042876006705 conserved cis-peptide bond; other site 1042876006706 Pirin-related protein [General function prediction only]; Region: COG1741 1042876006707 Pirin; Region: Pirin; pfam02678 1042876006708 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1042876006709 Family description; Region: UvrD_C_2; pfam13538 1042876006710 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 1042876006711 Leucine-rich repeats; other site 1042876006712 Substrate binding site [chemical binding]; other site 1042876006713 Leucine rich repeat; Region: LRR_8; pfam13855 1042876006714 Leucine rich repeat; Region: LRR_8; pfam13855 1042876006715 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876006716 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876006717 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 1042876006718 dimer interface [polypeptide binding]; other site 1042876006719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876006720 metal binding site [ion binding]; metal-binding site 1042876006721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876006722 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 1042876006723 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006724 putative substrate translocation pore; other site 1042876006725 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1042876006726 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 1042876006727 AMP-binding enzyme; Region: AMP-binding; pfam00501 1042876006728 acyl-activating enzyme (AAE) consensus motif; other site 1042876006729 putative AMP binding site [chemical binding]; other site 1042876006730 putative active site [active] 1042876006731 putative CoA binding site [chemical binding]; other site 1042876006732 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 1042876006733 heme binding pocket [chemical binding]; other site 1042876006734 heme ligand [chemical binding]; other site 1042876006735 short chain dehydrogenase; Provisional; Region: PRK09072 1042876006736 classical (c) SDRs; Region: SDR_c; cd05233 1042876006737 NAD(P) binding site [chemical binding]; other site 1042876006738 active site 1042876006739 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 1042876006740 TPR motif; other site 1042876006741 binding surface 1042876006742 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1042876006743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876006744 active site 1042876006745 phosphorylation site [posttranslational modification] 1042876006746 intermolecular recognition site; other site 1042876006747 dimerization interface [polypeptide binding]; other site 1042876006748 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 1042876006749 DNA binding site [nucleotide binding] 1042876006750 sensor protein QseC; Provisional; Region: PRK10337 1042876006751 HAMP domain; Region: HAMP; pfam00672 1042876006752 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 1042876006753 dimer interface [polypeptide binding]; other site 1042876006754 phosphorylation site [posttranslational modification] 1042876006755 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876006756 ATP binding site [chemical binding]; other site 1042876006757 Mg2+ binding site [ion binding]; other site 1042876006758 G-X-G motif; other site 1042876006759 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876006760 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_16; cd07263 1042876006761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006763 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 1042876006764 putative substrate binding pocket [chemical binding]; other site 1042876006765 dimerization interface [polypeptide binding]; other site 1042876006766 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042876006767 Paraquat-inducible protein A; Region: PqiA; pfam04403 1042876006768 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1042876006769 mce related protein; Region: MCE; pfam02470 1042876006770 mce related protein; Region: MCE; pfam02470 1042876006771 mce related protein; Region: MCE; pfam02470 1042876006772 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1042876006773 hypothetical protein; Provisional; Region: PRK10649 1042876006774 Sulfatase; Region: Sulfatase; pfam00884 1042876006775 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 1042876006776 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042876006777 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876006778 Coenzyme A binding pocket [chemical binding]; other site 1042876006779 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1042876006780 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 1042876006781 active site 1042876006782 putative substrate binding pocket [chemical binding]; other site 1042876006783 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876006784 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042876006785 dimer interface [polypeptide binding]; other site 1042876006786 NADP binding site [chemical binding]; other site 1042876006787 catalytic residues [active] 1042876006788 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042876006789 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876006790 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 1042876006791 DNA binding residues [nucleotide binding] 1042876006792 dimerization interface [polypeptide binding]; other site 1042876006793 putative aminotransferase; Provisional; Region: PRK12403 1042876006794 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 1042876006795 inhibitor-cofactor binding pocket; inhibition site 1042876006796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876006797 catalytic residue [active] 1042876006798 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1042876006799 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1042876006800 NAD(P) binding site [chemical binding]; other site 1042876006801 catalytic residues [active] 1042876006802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876006803 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876006804 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876006805 Cache domain; Region: Cache_1; pfam02743 1042876006806 GAF domain; Region: GAF_3; pfam13492 1042876006807 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042876006808 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1042876006809 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876006810 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042876006811 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042876006812 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042876006813 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876006814 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1042876006815 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1042876006816 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1042876006817 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006818 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876006819 putative substrate translocation pore; other site 1042876006820 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 1042876006821 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1042876006822 NIPSNAP; Region: NIPSNAP; pfam07978 1042876006823 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12843 1042876006824 Predicted oxidoreductase [General function prediction only]; Region: COG3573 1042876006825 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1042876006826 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042876006827 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042876006828 shikimate binding site; other site 1042876006829 NAD(P) binding site [chemical binding]; other site 1042876006830 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042876006831 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042876006832 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876006833 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876006834 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876006835 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876006836 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876006837 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1042876006838 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1042876006839 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042876006840 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042876006841 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876006842 dimer interface [polypeptide binding]; other site 1042876006843 conserved gate region; other site 1042876006844 putative PBP binding loops; other site 1042876006845 ABC-ATPase subunit interface; other site 1042876006846 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042876006847 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876006848 dimer interface [polypeptide binding]; other site 1042876006849 conserved gate region; other site 1042876006850 putative PBP binding loops; other site 1042876006851 ABC-ATPase subunit interface; other site 1042876006852 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876006853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876006854 Walker A/P-loop; other site 1042876006855 ATP binding site [chemical binding]; other site 1042876006856 Q-loop/lid; other site 1042876006857 ABC transporter signature motif; other site 1042876006858 Walker B; other site 1042876006859 D-loop; other site 1042876006860 H-loop/switch region; other site 1042876006861 TOBE domain; Region: TOBE_2; pfam08402 1042876006862 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042876006863 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 1042876006864 putative DNA binding site [nucleotide binding]; other site 1042876006865 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876006866 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042876006867 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876006868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876006869 Walker A/P-loop; other site 1042876006870 ATP binding site [chemical binding]; other site 1042876006871 Q-loop/lid; other site 1042876006872 ABC transporter signature motif; other site 1042876006873 Walker B; other site 1042876006874 D-loop; other site 1042876006875 H-loop/switch region; other site 1042876006876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876006877 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876006878 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 1042876006879 putative substrate binding pocket [chemical binding]; other site 1042876006880 dimerization interface [polypeptide binding]; other site 1042876006881 hypothetical protein; Provisional; Region: PRK12569 1042876006882 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 1042876006883 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1042876006884 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1042876006885 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1042876006886 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1042876006887 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1042876006888 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042876006889 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1042876006890 PAAR motif; Region: PAAR_motif; cl15808 1042876006891 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042876006892 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042876006893 dimer interface [polypeptide binding]; other site 1042876006894 active site 1042876006895 catalytic residue [active] 1042876006896 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042876006897 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 1042876006898 catalytic loop [active] 1042876006899 iron binding site [ion binding]; other site 1042876006900 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 1042876006901 FAD binding pocket [chemical binding]; other site 1042876006902 FAD binding motif [chemical binding]; other site 1042876006903 phosphate binding motif [ion binding]; other site 1042876006904 beta-alpha-beta structure motif; other site 1042876006905 NAD binding pocket [chemical binding]; other site 1042876006906 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 1042876006907 active site 1042876006908 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 1042876006909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876006910 DNA-binding site [nucleotide binding]; DNA binding site 1042876006911 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 1042876006912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876006913 homodimer interface [polypeptide binding]; other site 1042876006914 catalytic residue [active] 1042876006915 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 1042876006916 TPR motif; other site 1042876006917 binding surface 1042876006918 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042876006919 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 1042876006920 dimerization interface [polypeptide binding]; other site 1042876006921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876006922 dimer interface [polypeptide binding]; other site 1042876006923 putative CheW interface [polypeptide binding]; other site 1042876006924 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1042876006925 potassium uptake protein; Region: kup; TIGR00794 1042876006926 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876006927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876006928 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876006929 putative arabinose transporter; Provisional; Region: PRK03545 1042876006930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876006931 putative substrate translocation pore; other site 1042876006932 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 1042876006933 Ligand Binding Site [chemical binding]; other site 1042876006934 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 1042876006935 Ligand Binding Site [chemical binding]; other site 1042876006936 phosphate ABC transporter, phosphate-binding protein; Region: 3a0107s03; TIGR00975 1042876006937 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1042876006938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876006939 dimer interface [polypeptide binding]; other site 1042876006940 conserved gate region; other site 1042876006941 putative PBP binding loops; other site 1042876006942 ABC-ATPase subunit interface; other site 1042876006943 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1042876006944 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876006945 dimer interface [polypeptide binding]; other site 1042876006946 conserved gate region; other site 1042876006947 putative PBP binding loops; other site 1042876006948 ABC-ATPase subunit interface; other site 1042876006949 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14263 1042876006950 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1042876006951 Walker A/P-loop; other site 1042876006952 ATP binding site [chemical binding]; other site 1042876006953 Q-loop/lid; other site 1042876006954 ABC transporter signature motif; other site 1042876006955 Walker B; other site 1042876006956 D-loop; other site 1042876006957 H-loop/switch region; other site 1042876006958 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1042876006959 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042876006960 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 1042876006961 non-specific DNA binding site [nucleotide binding]; other site 1042876006962 salt bridge; other site 1042876006963 sequence-specific DNA binding site [nucleotide binding]; other site 1042876006964 Cupin domain; Region: Cupin_2; pfam07883 1042876006965 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876006966 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876006967 Peptidase C26; Region: Peptidase_C26; pfam07722 1042876006968 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1042876006969 catalytic triad [active] 1042876006970 putative aminotransferase; Validated; Region: PRK07480 1042876006971 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 1042876006972 inhibitor-cofactor binding pocket; inhibition site 1042876006973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876006974 catalytic residue [active] 1042876006975 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042876006976 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 1042876006977 non-specific DNA binding site [nucleotide binding]; other site 1042876006978 salt bridge; other site 1042876006979 sequence-specific DNA binding site [nucleotide binding]; other site 1042876006980 Cupin domain; Region: Cupin_2; pfam07883 1042876006981 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1042876006982 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1042876006983 NADP binding site [chemical binding]; other site 1042876006984 homodimer interface [polypeptide binding]; other site 1042876006985 active site 1042876006986 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1042876006987 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1042876006988 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1042876006989 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1042876006990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876006991 S-adenosylmethionine binding site [chemical binding]; other site 1042876006992 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1042876006993 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1042876006994 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876006995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876006996 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 1042876006997 NAD(P) binding site [chemical binding]; other site 1042876006998 active site 1042876006999 SnoaL-like domain; Region: SnoaL_2; pfam12680 1042876007000 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 1042876007001 PAS domain; Region: PAS_9; pfam13426 1042876007002 putative active site [active] 1042876007003 heme pocket [chemical binding]; other site 1042876007004 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1042876007005 DNA binding residues [nucleotide binding] 1042876007006 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042876007007 Gram-negative porin; Region: Porin_4; pfam13609 1042876007008 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1042876007009 FIST N domain; Region: FIST; pfam08495 1042876007010 FIST C domain; Region: FIST_C; pfam10442 1042876007011 PAS fold; Region: PAS_4; pfam08448 1042876007012 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 1042876007013 putative active site [active] 1042876007014 heme pocket [chemical binding]; other site 1042876007015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876007016 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 1042876007017 dimer interface [polypeptide binding]; other site 1042876007018 phosphorylation site [posttranslational modification] 1042876007019 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876007020 ATP binding site [chemical binding]; other site 1042876007021 Mg2+ binding site [ion binding]; other site 1042876007022 G-X-G motif; other site 1042876007023 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876007024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876007025 active site 1042876007026 phosphorylation site [posttranslational modification] 1042876007027 intermolecular recognition site; other site 1042876007028 dimerization interface [polypeptide binding]; other site 1042876007029 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876007030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876007031 active site 1042876007032 phosphorylation site [posttranslational modification] 1042876007033 intermolecular recognition site; other site 1042876007034 dimerization interface [polypeptide binding]; other site 1042876007035 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 1042876007036 DNA binding residues [nucleotide binding] 1042876007037 dimerization interface [polypeptide binding]; other site 1042876007038 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 1042876007039 active site residue [active] 1042876007040 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 1042876007041 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042876007042 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1042876007043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876007044 Walker A/P-loop; other site 1042876007045 ATP binding site [chemical binding]; other site 1042876007046 Q-loop/lid; other site 1042876007047 ABC transporter signature motif; other site 1042876007048 Walker B; other site 1042876007049 D-loop; other site 1042876007050 H-loop/switch region; other site 1042876007051 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1042876007052 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042876007053 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042876007054 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042876007055 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042876007056 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 1042876007057 ligand binding site [chemical binding]; other site 1042876007058 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042876007059 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 1042876007060 dimerization interface [polypeptide binding]; other site 1042876007061 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1042876007062 Histidine kinase; Region: HisKA_3; pfam07730 1042876007063 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876007064 ATP binding site [chemical binding]; other site 1042876007065 Mg2+ binding site [ion binding]; other site 1042876007066 G-X-G motif; other site 1042876007067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876007068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876007069 active site 1042876007070 phosphorylation site [posttranslational modification] 1042876007071 intermolecular recognition site; other site 1042876007072 dimerization interface [polypeptide binding]; other site 1042876007073 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 1042876007074 DNA binding residues [nucleotide binding] 1042876007075 dimerization interface [polypeptide binding]; other site 1042876007076 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1042876007077 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1042876007078 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1042876007079 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1042876007080 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1042876007081 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1042876007082 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042876007083 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1042876007084 dimer interface [polypeptide binding]; other site 1042876007085 Trp docking motif [polypeptide binding]; other site 1042876007086 active site 1042876007087 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876007088 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 1042876007089 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876007090 substrate binding pocket [chemical binding]; other site 1042876007091 membrane-bound complex binding site; other site 1042876007092 hinge residues; other site 1042876007093 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1042876007094 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1042876007095 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1042876007096 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1042876007097 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1042876007098 dimer interface [polypeptide binding]; other site 1042876007099 Trp docking motif [polypeptide binding]; other site 1042876007100 active site 1042876007101 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876007102 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876007103 NAD(P) binding site [chemical binding]; other site 1042876007104 catalytic residues [active] 1042876007105 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1042876007106 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1042876007107 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042876007108 putative active site [active] 1042876007109 metal binding site [ion binding]; metal-binding site 1042876007110 PAS domain S-box; Region: sensory_box; TIGR00229 1042876007111 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1042876007112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876007113 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 1042876007114 dimer interface [polypeptide binding]; other site 1042876007115 phosphorylation site [posttranslational modification] 1042876007116 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876007117 ATP binding site [chemical binding]; other site 1042876007118 Mg2+ binding site [ion binding]; other site 1042876007119 G-X-G motif; other site 1042876007120 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876007121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876007122 active site 1042876007123 phosphorylation site [posttranslational modification] 1042876007124 intermolecular recognition site; other site 1042876007125 dimerization interface [polypeptide binding]; other site 1042876007126 putative transporter; Provisional; Region: PRK11660 1042876007127 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042876007128 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042876007129 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 1042876007130 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876007131 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 1042876007132 E3 interaction surface; other site 1042876007133 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876007134 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042876007135 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876007136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007137 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876007138 putative substrate translocation pore; other site 1042876007139 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 1042876007140 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1042876007141 PYR/PP interface [polypeptide binding]; other site 1042876007142 dimer interface [polypeptide binding]; other site 1042876007143 TPP binding site [chemical binding]; other site 1042876007144 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876007145 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 1042876007146 TPP-binding site [chemical binding]; other site 1042876007147 dimer interface [polypeptide binding]; other site 1042876007148 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1042876007149 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1042876007150 dimer interface [polypeptide binding]; other site 1042876007151 active site 1042876007152 metal binding site [ion binding]; metal-binding site 1042876007153 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876007154 classical (c) SDRs; Region: SDR_c; cd05233 1042876007155 NAD(P) binding site [chemical binding]; other site 1042876007156 active site 1042876007157 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 1042876007158 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042876007159 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042876007160 shikimate binding site; other site 1042876007161 NAD(P) binding site [chemical binding]; other site 1042876007162 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1042876007163 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1042876007164 dimer interface [polypeptide binding]; other site 1042876007165 active site 1042876007166 metal binding site [ion binding]; metal-binding site 1042876007167 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1042876007168 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1042876007169 active site 1042876007170 NAD binding site [chemical binding]; other site 1042876007171 metal binding site [ion binding]; metal-binding site 1042876007172 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 1042876007173 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876007174 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1042876007175 NAD(P) binding site [chemical binding]; other site 1042876007176 catalytic residues [active] 1042876007177 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 1042876007178 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1042876007179 ligand binding site [chemical binding]; other site 1042876007180 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1042876007181 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1042876007182 Walker A/P-loop; other site 1042876007183 ATP binding site [chemical binding]; other site 1042876007184 Q-loop/lid; other site 1042876007185 ABC transporter signature motif; other site 1042876007186 Walker B; other site 1042876007187 D-loop; other site 1042876007188 H-loop/switch region; other site 1042876007189 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1042876007190 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042876007191 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 1042876007192 TM-ABC transporter signature motif; other site 1042876007193 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876007194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876007195 DNA-binding site [nucleotide binding]; DNA binding site 1042876007196 FCD domain; Region: FCD; pfam07729 1042876007197 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1042876007198 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 1042876007199 putative catalytic site [active] 1042876007200 putative phosphate binding site [ion binding]; other site 1042876007201 active site 1042876007202 metal binding site A [ion binding]; metal-binding site 1042876007203 DNA binding site [nucleotide binding] 1042876007204 putative AP binding site [nucleotide binding]; other site 1042876007205 putative metal binding site B [ion binding]; other site 1042876007206 mechanosensitive channel MscS; Provisional; Region: PRK10334 1042876007207 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876007208 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]; Region: COG2846 1042876007209 Predicted membrane protein [Function unknown]; Region: COG2323 1042876007210 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1042876007211 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042876007212 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1042876007213 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1042876007214 NAD binding site [chemical binding]; other site 1042876007215 catalytic Zn binding site [ion binding]; other site 1042876007216 structural Zn binding site [ion binding]; other site 1042876007217 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 1042876007218 Cupin; Region: Cupin_6; pfam12852 1042876007219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007220 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876007221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007222 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042876007223 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 1042876007224 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876007225 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876007226 conserved cys residue [active] 1042876007227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007228 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876007229 Creatinine amidohydrolase; Region: Creatininase; pfam02633 1042876007230 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1042876007231 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1042876007232 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1042876007233 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 1042876007234 active site 1042876007235 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1042876007236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007238 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042876007239 dimerization interface [polypeptide binding]; other site 1042876007240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007242 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 1042876007243 putative effector binding pocket; other site 1042876007244 dimerization interface [polypeptide binding]; other site 1042876007245 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 1042876007246 Enoylreductase; Region: PKS_ER; smart00829 1042876007247 putative NAD(P) binding site [chemical binding]; other site 1042876007248 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876007249 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1042876007250 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042876007251 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042876007252 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1042876007253 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876007254 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1042876007255 arsenical-resistance protein; Region: acr3; TIGR00832 1042876007256 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 1042876007257 dimerization interface [polypeptide binding]; other site 1042876007258 putative DNA binding site [nucleotide binding]; other site 1042876007259 putative Zn2+ binding site [ion binding]; other site 1042876007260 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1042876007261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007262 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1042876007263 putative dimerization interface [polypeptide binding]; other site 1042876007264 tricarballylate dehydrogenase; Validated; Region: PRK08274 1042876007265 tricarballylate utilization protein B; Provisional; Region: PRK15033 1042876007266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007268 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 1042876007269 putative dimerization interface [polypeptide binding]; other site 1042876007270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1042876007271 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042876007272 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876007273 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1042876007274 Citrate transporter; Region: CitMHS; pfam03600 1042876007275 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876007276 EamA-like transporter family; Region: EamA; pfam00892 1042876007277 Cache domain; Region: Cache_1; pfam02743 1042876007278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876007279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876007280 metal binding site [ion binding]; metal-binding site 1042876007281 active site 1042876007282 I-site; other site 1042876007283 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 1042876007284 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1042876007285 putative NAD(P) binding site [chemical binding]; other site 1042876007286 active site 1042876007287 putative substrate binding site [chemical binding]; other site 1042876007288 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042876007289 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1042876007290 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1042876007291 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 1042876007292 DNA binding residues [nucleotide binding] 1042876007293 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876007294 FecR protein; Region: FecR; pfam04773 1042876007295 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876007296 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876007297 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 1042876007298 N-terminal plug; other site 1042876007299 ligand-binding site [chemical binding]; other site 1042876007300 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876007301 Coenzyme A binding pocket [chemical binding]; other site 1042876007302 2-isopropylmalate synthase; Validated; Region: PRK03739 1042876007303 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1042876007304 active site 1042876007305 catalytic residues [active] 1042876007306 metal binding site [ion binding]; metal-binding site 1042876007307 transposase/IS protein; Provisional; Region: PRK09183 1042876007308 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876007309 Walker A motif; other site 1042876007310 ATP binding site [chemical binding]; other site 1042876007311 Walker B motif; other site 1042876007312 arginine finger; other site 1042876007313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876007314 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876007315 Integrase core domain; Region: rve; pfam00665 1042876007316 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1042876007317 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1042876007318 Walker A/P-loop; other site 1042876007319 ATP binding site [chemical binding]; other site 1042876007320 Q-loop/lid; other site 1042876007321 ABC transporter signature motif; other site 1042876007322 Walker B; other site 1042876007323 D-loop; other site 1042876007324 H-loop/switch region; other site 1042876007325 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 1042876007326 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876007327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876007328 dimer interface [polypeptide binding]; other site 1042876007329 conserved gate region; other site 1042876007330 putative PBP binding loops; other site 1042876007331 ABC-ATPase subunit interface; other site 1042876007332 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1042876007333 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042876007334 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1042876007335 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 1042876007336 active site 1042876007337 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 1042876007338 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 1042876007339 NAD binding site [chemical binding]; other site 1042876007340 catalytic Zn binding site [ion binding]; other site 1042876007341 structural Zn binding site [ion binding]; other site 1042876007342 BCCT family transporter; Region: BCCT; pfam02028 1042876007343 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042876007344 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 1042876007345 FAD binding pocket [chemical binding]; other site 1042876007346 FAD binding motif [chemical binding]; other site 1042876007347 phosphate binding motif [ion binding]; other site 1042876007348 beta-alpha-beta structure motif; other site 1042876007349 NAD binding pocket [chemical binding]; other site 1042876007350 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 1042876007351 catalytic loop [active] 1042876007352 iron binding site [ion binding]; other site 1042876007353 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 1042876007354 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042876007355 putative alpha subunit interface [polypeptide binding]; other site 1042876007356 putative active site [active] 1042876007357 putative substrate binding site [chemical binding]; other site 1042876007358 Fe binding site [ion binding]; other site 1042876007359 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 1042876007360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007361 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 1042876007362 dimerization interface [polypeptide binding]; other site 1042876007363 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1042876007364 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1042876007365 tetramerization interface [polypeptide binding]; other site 1042876007366 NAD(P) binding site [chemical binding]; other site 1042876007367 catalytic residues [active] 1042876007368 acetolactate synthase; Reviewed; Region: PRK08322 1042876007369 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876007370 PYR/PP interface [polypeptide binding]; other site 1042876007371 dimer interface [polypeptide binding]; other site 1042876007372 TPP binding site [chemical binding]; other site 1042876007373 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876007374 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 1042876007375 TPP-binding site [chemical binding]; other site 1042876007376 dimer interface [polypeptide binding]; other site 1042876007377 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1042876007378 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876007379 NAD(P) binding site [chemical binding]; other site 1042876007380 catalytic residues [active] 1042876007381 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042876007382 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1042876007383 putative ligand binding site [chemical binding]; other site 1042876007384 putative NAD binding site [chemical binding]; other site 1042876007385 catalytic site [active] 1042876007386 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876007387 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876007388 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876007389 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876007390 conserved cys residue [active] 1042876007391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007392 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 1042876007393 homotrimer interaction site [polypeptide binding]; other site 1042876007394 putative active site [active] 1042876007395 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1042876007396 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1042876007397 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007398 putative substrate translocation pore; other site 1042876007399 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 1042876007400 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1042876007401 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876007402 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876007403 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042876007404 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1042876007405 inhibitor site; inhibition site 1042876007406 active site 1042876007407 dimer interface [polypeptide binding]; other site 1042876007408 catalytic residue [active] 1042876007409 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876007410 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876007411 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876007412 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1042876007413 NAD(P) binding site [chemical binding]; other site 1042876007414 catalytic residues [active] 1042876007415 benzoate transport; Region: 2A0115; TIGR00895 1042876007416 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007417 putative substrate translocation pore; other site 1042876007418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876007419 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 1042876007420 DNA-binding site [nucleotide binding]; DNA binding site 1042876007421 FCD domain; Region: FCD; cl11656 1042876007422 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876007423 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876007424 conserved cys residue [active] 1042876007425 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1042876007426 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 1042876007427 [2Fe-2S] cluster binding site [ion binding]; other site 1042876007428 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 1042876007429 putative alpha subunit interface [polypeptide binding]; other site 1042876007430 putative active site [active] 1042876007431 putative substrate binding site [chemical binding]; other site 1042876007432 Fe binding site [ion binding]; other site 1042876007433 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1042876007434 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042876007435 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1042876007436 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876007437 dimer interface [polypeptide binding]; other site 1042876007438 conserved gate region; other site 1042876007439 putative PBP binding loops; other site 1042876007440 ABC-ATPase subunit interface; other site 1042876007441 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1042876007442 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1042876007443 Walker A/P-loop; other site 1042876007444 ATP binding site [chemical binding]; other site 1042876007445 Q-loop/lid; other site 1042876007446 ABC transporter signature motif; other site 1042876007447 Walker B; other site 1042876007448 D-loop; other site 1042876007449 H-loop/switch region; other site 1042876007450 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 1042876007451 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1042876007452 Putative helicase; Region: TraI_2; pfam07514 1042876007453 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1042876007454 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1042876007455 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1042876007456 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 1042876007457 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 1042876007458 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 1042876007459 integrating conjugative element protein, PFL_4710 family; Region: conj_TIGR03756 1042876007460 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 1042876007461 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 1042876007462 Protein of unknown function (DUF327); Region: DUF327; cl00753 1042876007463 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 1042876007464 Walker A motif; other site 1042876007465 ATP binding site [chemical binding]; other site 1042876007466 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 1042876007467 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 1042876007468 Protein of unknown function (DUF904); Region: DUF904; pfam06005 1042876007469 Protein of unknown function (DUF3438); Region: DUF3438; pfam11920 1042876007470 integrating conjugative element protein, PFL_4703 family; Region: conj_TIGR03746 1042876007471 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 1042876007472 integrating conjugative element membrane protein, PFL_4702 family; Region: conj_TIGR03745 1042876007473 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 1042876007474 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1042876007475 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876007476 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876007478 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876007479 NAD(P) binding site [chemical binding]; other site 1042876007480 active site 1042876007481 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 1042876007482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876007483 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1042876007484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876007485 NAD(P) binding site [chemical binding]; other site 1042876007486 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 1042876007487 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 1042876007488 conjugative coupling factor TraD, TOL family; Region: conj_TOL_TraD; TIGR03754 1042876007489 integrating conjugative element protein, PFL_4695 family; Region: ICE_PFL_4695; TIGR03765 1042876007490 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1042876007491 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 1042876007492 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 1042876007493 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042876007494 MPN+ (JAMM) motif; other site 1042876007495 Zinc-binding site [ion binding]; other site 1042876007496 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 1042876007497 DNA topoisomerase III; Provisional; Region: PRK07726 1042876007498 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 1042876007499 active site 1042876007500 putative interdomain interaction site [polypeptide binding]; other site 1042876007501 putative metal-binding site [ion binding]; other site 1042876007502 putative nucleotide binding site [chemical binding]; other site 1042876007503 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 1042876007504 domain I; other site 1042876007505 DNA binding groove [nucleotide binding] 1042876007506 phosphate binding site [ion binding]; other site 1042876007507 domain II; other site 1042876007508 domain III; other site 1042876007509 nucleotide binding site [chemical binding]; other site 1042876007510 catalytic site [active] 1042876007511 domain IV; other site 1042876007512 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1042876007513 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042876007514 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 1042876007515 non-specific DNA binding site [nucleotide binding]; other site 1042876007516 salt bridge; other site 1042876007517 sequence-specific DNA binding site [nucleotide binding]; other site 1042876007518 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1042876007519 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 1042876007520 dimer interface [polypeptide binding]; other site 1042876007521 ssDNA binding site [nucleotide binding]; other site 1042876007522 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042876007523 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 1042876007524 integrating conjugative element protein, PFL_4669 family; Region: ICE_PFL4669; TIGR03761 1042876007525 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 1042876007526 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 1042876007527 ParB-like nuclease domain; Region: ParBc; pfam02195 1042876007528 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1042876007529 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042876007530 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 1042876007531 Magnesium ion binding site [ion binding]; other site 1042876007532 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1042876007533 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1042876007534 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876007535 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876007536 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876007537 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876007538 Na binding site [ion binding]; other site 1042876007539 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876007540 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042876007541 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 1042876007542 active site 1042876007543 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042876007544 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 1042876007545 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042876007546 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 1042876007547 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042876007548 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1042876007549 dimerization interface [polypeptide binding]; other site 1042876007550 active site 1042876007551 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876007552 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876007553 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876007554 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1042876007555 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876007556 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876007557 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876007558 NAD(P) binding site [chemical binding]; other site 1042876007559 catalytic residues [active] 1042876007560 EthD domain; Region: EthD; cl17553 1042876007561 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042876007562 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1042876007563 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1042876007564 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876007565 Transposase; Region: HTH_Tnp_1; pfam01527 1042876007566 HTH-like domain; Region: HTH_21; pfam13276 1042876007567 Integrase core domain; Region: rve; pfam00665 1042876007568 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1042876007569 Integrase core domain; Region: rve_3; pfam13683 1042876007570 Cache domain; Region: Cache_1; pfam02743 1042876007571 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 1042876007572 dimerization interface [polypeptide binding]; other site 1042876007573 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876007574 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876007575 dimer interface [polypeptide binding]; other site 1042876007576 putative CheW interface [polypeptide binding]; other site 1042876007577 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042876007578 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 1042876007579 tetramer interface [polypeptide binding]; other site 1042876007580 active site 1042876007581 Mg2+/Mn2+ binding site [ion binding]; other site 1042876007582 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 1042876007583 dimer interface [polypeptide binding]; other site 1042876007584 Citrate synthase; Region: Citrate_synt; pfam00285 1042876007585 active site 1042876007586 citrylCoA binding site [chemical binding]; other site 1042876007587 oxalacetate/citrate binding site [chemical binding]; other site 1042876007588 coenzyme A binding site [chemical binding]; other site 1042876007589 catalytic triad [active] 1042876007590 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1042876007591 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1042876007592 substrate binding site [chemical binding]; other site 1042876007593 ligand binding site [chemical binding]; other site 1042876007594 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 1042876007595 substrate binding site [chemical binding]; other site 1042876007596 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1042876007597 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 1042876007598 substrate binding site [chemical binding]; other site 1042876007599 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1042876007600 substrate binding site [chemical binding]; other site 1042876007601 ligand binding site [chemical binding]; other site 1042876007602 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 1042876007603 active site 1042876007604 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 1042876007605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876007606 NAD(P) binding site [chemical binding]; other site 1042876007607 active site 1042876007608 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 1042876007609 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1042876007610 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1042876007611 NADP binding site [chemical binding]; other site 1042876007612 dimer interface [polypeptide binding]; other site 1042876007613 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 1042876007614 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876007615 acyl-activating enzyme (AAE) consensus motif; other site 1042876007616 AMP binding site [chemical binding]; other site 1042876007617 active site 1042876007618 CoA binding site [chemical binding]; other site 1042876007619 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876007620 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876007621 active site 1042876007622 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876007623 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876007624 Walker A/P-loop; other site 1042876007625 ATP binding site [chemical binding]; other site 1042876007626 Q-loop/lid; other site 1042876007627 ABC transporter signature motif; other site 1042876007628 Walker B; other site 1042876007629 D-loop; other site 1042876007630 H-loop/switch region; other site 1042876007631 TOBE domain; Region: TOBE_2; pfam08402 1042876007632 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876007633 hypothetical protein; Provisional; Region: PRK11622 1042876007634 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876007635 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042876007636 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876007637 dimer interface [polypeptide binding]; other site 1042876007638 conserved gate region; other site 1042876007639 putative PBP binding loops; other site 1042876007640 ABC-ATPase subunit interface; other site 1042876007641 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042876007642 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1042876007643 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007645 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 1042876007646 dimerization interface [polypeptide binding]; other site 1042876007647 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1042876007648 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 1042876007649 inhibitor-cofactor binding pocket; inhibition site 1042876007650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876007651 catalytic residue [active] 1042876007652 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042876007653 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042876007654 tetrameric interface [polypeptide binding]; other site 1042876007655 NAD binding site [chemical binding]; other site 1042876007656 catalytic residues [active] 1042876007657 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 1042876007658 inhibitor-cofactor binding pocket; inhibition site 1042876007659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876007660 catalytic residue [active] 1042876007661 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 1042876007662 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 1042876007663 homotrimer interaction site [polypeptide binding]; other site 1042876007664 putative active site [active] 1042876007665 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876007666 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876007667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007668 putative substrate translocation pore; other site 1042876007669 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042876007670 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042876007671 active site 1042876007672 metal binding site [ion binding]; metal-binding site 1042876007673 dimer interface [polypeptide binding]; other site 1042876007674 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042876007675 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042876007676 aldolase II superfamily protein; Provisional; Region: PRK07044 1042876007677 active site 1042876007678 intersubunit interface [polypeptide binding]; other site 1042876007679 Zn2+ binding site [ion binding]; other site 1042876007680 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876007681 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007682 putative substrate translocation pore; other site 1042876007683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007685 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 1042876007686 dimerization interface [polypeptide binding]; other site 1042876007687 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1042876007688 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876007689 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876007690 ornithine cyclodeaminase; Validated; Region: PRK07589 1042876007691 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1042876007692 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 1042876007693 Amidinotransferase; Region: Amidinotransf; pfam02274 1042876007694 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876007695 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876007696 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876007697 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 1042876007698 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1042876007699 active site 1042876007700 Int/Topo IB signature motif; other site 1042876007701 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 1042876007702 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1042876007703 active site 1042876007704 Int/Topo IB signature motif; other site 1042876007705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007707 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1042876007708 putative substrate binding pocket [chemical binding]; other site 1042876007709 putative dimerization interface [polypeptide binding]; other site 1042876007710 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1042876007711 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876007712 putative NAD(P) binding site [chemical binding]; other site 1042876007713 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 1042876007714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876007715 DNA-binding site [nucleotide binding]; DNA binding site 1042876007716 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 1042876007717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876007718 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042876007719 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007720 putative substrate translocation pore; other site 1042876007721 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1042876007722 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1042876007723 putative active site pocket [active] 1042876007724 metal binding site [ion binding]; metal-binding site 1042876007725 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1042876007726 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1042876007727 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 1042876007728 active site 1042876007729 DNA binding site [nucleotide binding] 1042876007730 Int/Topo IB signature motif; other site 1042876007731 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1042876007732 active site 1042876007733 metal binding site [ion binding]; metal-binding site 1042876007734 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1042876007735 ERF superfamily; Region: ERF; pfam04404 1042876007736 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 1042876007737 sequence-specific DNA binding site [nucleotide binding]; other site 1042876007738 salt bridge; other site 1042876007739 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 1042876007740 Predicted transcriptional regulator [Transcription]; Region: COG2932 1042876007741 Catalytic site [active] 1042876007742 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1042876007743 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 1042876007744 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1042876007745 phage replicative helicase, DnaB family, HK022 subfamily; Region: phage_DnaB; TIGR03600 1042876007746 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 1042876007747 Walker A motif; other site 1042876007748 ATP binding site [chemical binding]; other site 1042876007749 Walker B motif; other site 1042876007750 DNA binding loops [nucleotide binding] 1042876007751 Phage endonuclease I; Region: Phage_endo_I; cl11622 1042876007752 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1042876007753 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042876007754 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 1042876007755 Terminase-like family; Region: Terminase_6; pfam03237 1042876007756 Phage terminase large subunit; Region: Terminase_3; cl12054 1042876007757 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 1042876007758 LytB protein; Region: LYTB; cl00507 1042876007759 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 1042876007760 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1042876007761 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1042876007762 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 1042876007763 Short C-terminal domain; Region: SHOCT; pfam09851 1042876007764 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1042876007765 Phage-related minor tail protein [Function unknown]; Region: COG5281 1042876007766 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1042876007767 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 1042876007768 virion protein; Provisional; Region: V; PHA02564 1042876007769 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 1042876007770 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1042876007771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007772 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 1042876007773 putative dimerization interface [polypeptide binding]; other site 1042876007774 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042876007775 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1042876007776 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042876007777 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042876007778 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 1042876007779 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042876007780 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007781 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876007782 putative substrate translocation pore; other site 1042876007783 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1042876007784 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1042876007785 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 1042876007786 DEAD_2; Region: DEAD_2; pfam06733 1042876007787 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1042876007788 NnrS protein; Region: NnrS; pfam05940 1042876007789 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1042876007790 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 1042876007791 active site 1042876007792 DNA binding site [nucleotide binding] 1042876007793 Int/Topo IB signature motif; other site 1042876007794 UreD urease accessory protein; Region: UreD; cl00530 1042876007795 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 1042876007796 alpha-gamma subunit interface [polypeptide binding]; other site 1042876007797 beta-gamma subunit interface [polypeptide binding]; other site 1042876007798 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 1042876007799 gamma-beta subunit interface [polypeptide binding]; other site 1042876007800 alpha-beta subunit interface [polypeptide binding]; other site 1042876007801 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1042876007802 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 1042876007803 subunit interactions [polypeptide binding]; other site 1042876007804 active site 1042876007805 flap region; other site 1042876007806 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1042876007807 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 1042876007808 dimer interface [polypeptide binding]; other site 1042876007809 catalytic residues [active] 1042876007810 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1042876007811 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1042876007812 UreF; Region: UreF; pfam01730 1042876007813 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1042876007814 G1 box; other site 1042876007815 GTP/Mg2+ binding site [chemical binding]; other site 1042876007816 Switch I region; other site 1042876007817 Switch II region; other site 1042876007818 G4 box; other site 1042876007819 G5 box; other site 1042876007820 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 1042876007821 Sulfatase; Region: Sulfatase; pfam00884 1042876007822 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 1042876007823 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 1042876007824 putative active site [active] 1042876007825 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1042876007826 AAA domain; Region: AAA_28; pfam13521 1042876007827 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1042876007828 Cache domain; Region: Cache_2; pfam08269 1042876007829 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042876007830 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 1042876007831 dimerization interface [polypeptide binding]; other site 1042876007832 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876007833 dimer interface [polypeptide binding]; other site 1042876007834 putative CheW interface [polypeptide binding]; other site 1042876007835 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1042876007836 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1042876007837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1042876007838 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042876007839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007840 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 1042876007841 dimerization interface [polypeptide binding]; other site 1042876007842 azoreductase; Reviewed; Region: PRK00170 1042876007843 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876007844 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1042876007845 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876007846 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042876007847 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 1042876007848 non-specific DNA binding site [nucleotide binding]; other site 1042876007849 salt bridge; other site 1042876007850 sequence-specific DNA binding site [nucleotide binding]; other site 1042876007851 Cupin domain; Region: Cupin_2; pfam07883 1042876007852 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1042876007853 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 1042876007854 putative active site [active] 1042876007855 putative FMN binding site [chemical binding]; other site 1042876007856 putative substrate binding site [chemical binding]; other site 1042876007857 putative catalytic residue [active] 1042876007858 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1042876007859 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876007860 aldolase II superfamily protein; Provisional; Region: PRK07044 1042876007861 intersubunit interface [polypeptide binding]; other site 1042876007862 active site 1042876007863 Zn2+ binding site [ion binding]; other site 1042876007864 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1042876007865 EamA-like transporter family; Region: EamA; pfam00892 1042876007866 Uncharacterized conserved protein [Function unknown]; Region: COG0393 1042876007867 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042876007868 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1042876007869 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1042876007870 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1042876007871 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 1042876007872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876007873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876007874 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 1042876007875 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1042876007876 putative NAD(P) binding site [chemical binding]; other site 1042876007877 active site 1042876007878 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 1042876007879 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 1042876007880 putative catalytic residue [active] 1042876007881 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042876007882 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 1042876007883 salt bridge; other site 1042876007884 non-specific DNA binding site [nucleotide binding]; other site 1042876007885 sequence-specific DNA binding site [nucleotide binding]; other site 1042876007886 Cupin domain; Region: Cupin_2; pfam07883 1042876007887 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876007888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007889 putative substrate translocation pore; other site 1042876007890 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1042876007891 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1042876007892 putative heme binding pocket [chemical binding]; other site 1042876007893 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1042876007894 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 1042876007895 DNA binding residues [nucleotide binding] 1042876007896 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 1042876007897 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876007898 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876007899 conserved cys residue [active] 1042876007900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876007901 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042876007902 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 1042876007903 homotrimer interaction site [polypeptide binding]; other site 1042876007904 putative active site [active] 1042876007905 EamA-like transporter family; Region: EamA; pfam00892 1042876007906 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 1042876007907 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1042876007908 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1042876007909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007911 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 1042876007912 dimerization interface [polypeptide binding]; other site 1042876007913 Predicted membrane protein [Function unknown]; Region: COG4125 1042876007914 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876007915 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876007916 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1042876007917 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 1042876007918 homodimer interface [polypeptide binding]; other site 1042876007919 substrate-cofactor binding pocket; other site 1042876007920 catalytic residue [active] 1042876007921 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1042876007922 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1042876007923 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042876007924 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1042876007925 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1042876007926 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1042876007927 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 1042876007928 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876007929 Walker A motif; other site 1042876007930 ATP binding site [chemical binding]; other site 1042876007931 Walker B motif; other site 1042876007932 arginine finger; other site 1042876007933 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 1042876007934 metal ion-dependent adhesion site (MIDAS); other site 1042876007935 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876007936 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876007937 Walker A motif; other site 1042876007938 ATP binding site [chemical binding]; other site 1042876007939 Walker B motif; other site 1042876007940 arginine finger; other site 1042876007941 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876007942 putative S-transferase; Provisional; Region: PRK11752 1042876007943 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 1042876007944 C-terminal domain interface [polypeptide binding]; other site 1042876007945 GSH binding site (G-site) [chemical binding]; other site 1042876007946 dimer interface [polypeptide binding]; other site 1042876007947 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1042876007948 dimer interface [polypeptide binding]; other site 1042876007949 N-terminal domain interface [polypeptide binding]; other site 1042876007950 active site 1042876007951 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042876007952 major facilitator superfamily transporter; Provisional; Region: PRK05122 1042876007953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007954 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1042876007955 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876007956 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876007957 Walker A/P-loop; other site 1042876007958 ATP binding site [chemical binding]; other site 1042876007959 ABC transporter signature motif; other site 1042876007960 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876007961 Walker B; other site 1042876007962 ABC transporter; Region: ABC_tran_2; pfam12848 1042876007963 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1042876007964 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 1042876007965 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1042876007966 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1042876007967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876007968 active site 1042876007969 phosphorylation site [posttranslational modification] 1042876007970 intermolecular recognition site; other site 1042876007971 dimerization interface [polypeptide binding]; other site 1042876007972 HD domain; Region: HD_5; pfam13487 1042876007973 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1042876007974 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876007975 ATP binding site [chemical binding]; other site 1042876007976 Mg2+ binding site [ion binding]; other site 1042876007977 G-X-G motif; other site 1042876007978 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042876007979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876007980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876007981 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 1042876007982 dimerization interface [polypeptide binding]; other site 1042876007983 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042876007984 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876007985 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1042876007986 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 1042876007987 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1042876007988 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042876007989 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042876007990 NADP binding site [chemical binding]; other site 1042876007991 dimer interface [polypeptide binding]; other site 1042876007992 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 1042876007993 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1042876007994 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 1042876007995 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876007996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876007997 putative substrate translocation pore; other site 1042876007998 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1042876007999 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042876008000 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 1042876008001 iron-sulfur cluster [ion binding]; other site 1042876008002 [2Fe-2S] cluster binding site [ion binding]; other site 1042876008003 Predicted membrane protein [Function unknown]; Region: COG2855 1042876008004 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876008005 SurA N-terminal domain; Region: SurA_N; pfam09312 1042876008006 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876008007 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008008 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1042876008009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876008010 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1042876008011 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1042876008012 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1042876008013 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1042876008014 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876008015 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042876008016 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042876008017 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876008018 active site 1042876008019 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042876008020 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1042876008021 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876008022 acyl-activating enzyme (AAE) consensus motif; other site 1042876008023 AMP binding site [chemical binding]; other site 1042876008024 active site 1042876008025 CoA binding site [chemical binding]; other site 1042876008026 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1042876008027 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1042876008028 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 1042876008029 DNA binding site [nucleotide binding] 1042876008030 active site 1042876008031 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042876008032 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1042876008033 active site 1042876008034 catalytic triad [active] 1042876008035 dimer interface [polypeptide binding]; other site 1042876008036 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1042876008037 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1042876008038 active site 1042876008039 metal binding site [ion binding]; metal-binding site 1042876008040 LysE type translocator; Region: LysE; cl00565 1042876008041 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876008042 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008043 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876008044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008045 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876008046 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1042876008047 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1042876008048 Autotransporter beta-domain; Region: Autotransporter; smart00869 1042876008049 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1042876008050 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1042876008051 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1042876008052 acyl-activating enzyme (AAE) consensus motif; other site 1042876008053 putative AMP binding site [chemical binding]; other site 1042876008054 putative active site [active] 1042876008055 putative CoA binding site [chemical binding]; other site 1042876008056 ecotin; Provisional; Region: PRK03719 1042876008057 secondary substrate binding site; other site 1042876008058 primary substrate binding site; other site 1042876008059 inhibition loop; other site 1042876008060 dimerization interface [polypeptide binding]; other site 1042876008061 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1042876008062 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1042876008063 NAD binding site [chemical binding]; other site 1042876008064 homotetramer interface [polypeptide binding]; other site 1042876008065 homodimer interface [polypeptide binding]; other site 1042876008066 substrate binding site [chemical binding]; other site 1042876008067 active site 1042876008068 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1042876008069 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1042876008070 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876008071 Walker B motif; other site 1042876008072 arginine finger; other site 1042876008073 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876008074 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1042876008075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876008076 dimer interface [polypeptide binding]; other site 1042876008077 conserved gate region; other site 1042876008078 putative PBP binding loops; other site 1042876008079 ABC-ATPase subunit interface; other site 1042876008080 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1042876008081 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876008082 dimer interface [polypeptide binding]; other site 1042876008083 conserved gate region; other site 1042876008084 putative PBP binding loops; other site 1042876008085 ABC-ATPase subunit interface; other site 1042876008086 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1042876008087 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 1042876008088 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1042876008089 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1042876008090 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1042876008091 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1042876008092 substrate binding site [chemical binding]; other site 1042876008093 DNA-specific endonuclease I; Provisional; Region: PRK15137 1042876008094 Endonuclease I; Region: Endonuclease_1; pfam04231 1042876008095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008096 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876008097 putative substrate translocation pore; other site 1042876008098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008100 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 1042876008101 dimerization interface [polypeptide binding]; other site 1042876008102 acetolactate synthase; Reviewed; Region: PRK08322 1042876008103 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876008104 PYR/PP interface [polypeptide binding]; other site 1042876008105 dimer interface [polypeptide binding]; other site 1042876008106 TPP binding site [chemical binding]; other site 1042876008107 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876008108 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 1042876008109 TPP-binding site [chemical binding]; other site 1042876008110 dimer interface [polypeptide binding]; other site 1042876008111 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042876008112 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042876008113 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 1042876008114 putative active site [active] 1042876008115 catalytic triad [active] 1042876008116 putative dimer interface [polypeptide binding]; other site 1042876008117 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876008118 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 1042876008119 DNA binding residues [nucleotide binding] 1042876008120 dimerization interface [polypeptide binding]; other site 1042876008121 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 1042876008122 TMP-binding site; other site 1042876008123 ATP-binding site [chemical binding]; other site 1042876008124 Predicted transporter component [General function prediction only]; Region: COG2391 1042876008125 Predicted transporter component [General function prediction only]; Region: COG2391 1042876008126 Sulphur transport; Region: Sulf_transp; pfam04143 1042876008127 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1042876008128 catalytic triad [active] 1042876008129 dimer interface [polypeptide binding]; other site 1042876008130 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 1042876008131 short chain dehydrogenase; Provisional; Region: PRK06180 1042876008132 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042876008133 NADP binding site [chemical binding]; other site 1042876008134 active site 1042876008135 steroid binding site; other site 1042876008136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008138 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 1042876008139 putative effector binding pocket; other site 1042876008140 putative dimerization interface [polypeptide binding]; other site 1042876008141 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1042876008142 putative active site [active] 1042876008143 putative catalytic site [active] 1042876008144 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042876008145 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 1042876008146 active site 1042876008147 nucleophile elbow; other site 1042876008148 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1042876008149 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1042876008150 PYR/PP interface [polypeptide binding]; other site 1042876008151 dimer interface [polypeptide binding]; other site 1042876008152 tetramer interface [polypeptide binding]; other site 1042876008153 TPP binding site [chemical binding]; other site 1042876008154 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876008155 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 1042876008156 TPP-binding site [chemical binding]; other site 1042876008157 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1042876008158 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 1042876008159 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1042876008160 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1042876008161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008163 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 1042876008164 putative effector binding pocket; other site 1042876008165 dimerization interface [polypeptide binding]; other site 1042876008166 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1042876008167 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1042876008168 putative NAD(P) binding site [chemical binding]; other site 1042876008169 dimer interface [polypeptide binding]; other site 1042876008170 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 1042876008171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876008172 NAD(P) binding site [chemical binding]; other site 1042876008173 active site 1042876008174 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1042876008175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876008176 NAD(P) binding site [chemical binding]; other site 1042876008177 active site 1042876008178 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876008179 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042876008180 conserved cys residue [active] 1042876008181 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008182 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; cl00447 1042876008183 nudix motif; other site 1042876008184 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 1042876008185 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876008186 putative DNA binding site [nucleotide binding]; other site 1042876008187 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042876008188 putative Zn2+ binding site [ion binding]; other site 1042876008189 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876008190 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876008192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008193 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 1042876008194 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876008195 catalytic triad [active] 1042876008196 dimer interface [polypeptide binding]; other site 1042876008197 conserved cis-peptide bond; other site 1042876008198 transposase/IS protein; Provisional; Region: PRK09183 1042876008199 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876008200 Walker A motif; other site 1042876008201 ATP binding site [chemical binding]; other site 1042876008202 Walker B motif; other site 1042876008203 arginine finger; other site 1042876008204 HipA N-terminal domain; Region: Couple_hipA; cl11853 1042876008205 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1042876008206 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1042876008207 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 1042876008208 non-specific DNA binding site [nucleotide binding]; other site 1042876008209 salt bridge; other site 1042876008210 sequence-specific DNA binding site [nucleotide binding]; other site 1042876008211 PaaX-like protein; Region: PaaX; pfam07848 1042876008212 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1042876008213 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1042876008214 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1042876008215 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1042876008216 putative trimer interface [polypeptide binding]; other site 1042876008217 putative metal binding site [ion binding]; other site 1042876008218 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1042876008219 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 1042876008220 substrate binding site [chemical binding]; other site 1042876008221 oxyanion hole (OAH) forming residues; other site 1042876008222 trimer interface [polypeptide binding]; other site 1042876008223 enoyl-CoA hydratase; Provisional; Region: PRK08140 1042876008224 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 1042876008225 substrate binding site [chemical binding]; other site 1042876008226 oxyanion hole (OAH) forming residues; other site 1042876008227 trimer interface [polypeptide binding]; other site 1042876008228 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 1042876008229 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042876008230 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042876008231 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042876008232 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 1042876008233 CoenzymeA binding site [chemical binding]; other site 1042876008234 subunit interaction site [polypeptide binding]; other site 1042876008235 PHB binding site; other site 1042876008236 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1042876008237 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 1042876008238 dimer interface [polypeptide binding]; other site 1042876008239 active site 1042876008240 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1042876008241 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1042876008242 active site 1042876008243 AMP binding site [chemical binding]; other site 1042876008244 homodimer interface [polypeptide binding]; other site 1042876008245 acyl-activating enzyme (AAE) consensus motif; other site 1042876008246 CoA binding site [chemical binding]; other site 1042876008247 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1042876008248 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1042876008249 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1042876008250 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 1042876008251 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1042876008252 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1042876008253 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1042876008254 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1042876008255 FAD binding pocket [chemical binding]; other site 1042876008256 FAD binding motif [chemical binding]; other site 1042876008257 phosphate binding motif [ion binding]; other site 1042876008258 beta-alpha-beta structure motif; other site 1042876008259 NAD(p) ribose binding residues [chemical binding]; other site 1042876008260 NAD binding pocket [chemical binding]; other site 1042876008261 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1042876008262 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 1042876008263 catalytic loop [active] 1042876008264 iron binding site [ion binding]; other site 1042876008265 Protein of unknown function, DUF485; Region: DUF485; pfam04341 1042876008266 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1042876008267 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1042876008268 Na binding site [ion binding]; other site 1042876008269 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876008270 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1042876008271 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1042876008272 substrate binding site [chemical binding]; other site 1042876008273 dimer interface [polypeptide binding]; other site 1042876008274 NADP binding site [chemical binding]; other site 1042876008275 catalytic residues [active] 1042876008276 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1042876008277 substrate binding site [chemical binding]; other site 1042876008278 General stress protein [General function prediction only]; Region: GsiB; COG3729 1042876008279 CheB methylesterase; Region: CheB_methylest; pfam01339 1042876008280 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1042876008281 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1042876008282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876008283 S-adenosylmethionine binding site [chemical binding]; other site 1042876008284 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 1042876008285 putative active site [active] 1042876008286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008287 heme pocket [chemical binding]; other site 1042876008288 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 1042876008289 dimer interface [polypeptide binding]; other site 1042876008290 phosphorylation site [posttranslational modification] 1042876008291 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008292 ATP binding site [chemical binding]; other site 1042876008293 Mg2+ binding site [ion binding]; other site 1042876008294 G-X-G motif; other site 1042876008295 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876008296 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008297 active site 1042876008298 phosphorylation site [posttranslational modification] 1042876008299 intermolecular recognition site; other site 1042876008300 dimerization interface [polypeptide binding]; other site 1042876008301 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_10; cd04667 1042876008302 nudix motif; other site 1042876008303 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 1042876008304 active site 1042876008305 Low affinity iron permease; Region: Iron_permease; pfam04120 1042876008306 Protein of unknown function DUF72; Region: DUF72; pfam01904 1042876008307 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1042876008308 putative catalytic site [active] 1042876008309 putative metal binding site [ion binding]; other site 1042876008310 putative phosphate binding site [ion binding]; other site 1042876008311 cardiolipin synthase 2; Provisional; Region: PRK11263 1042876008312 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1042876008313 putative active site [active] 1042876008314 catalytic site [active] 1042876008315 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1042876008316 putative active site [active] 1042876008317 catalytic site [active] 1042876008318 Predicted integral membrane protein [Function unknown]; Region: COG0392 1042876008319 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 1042876008320 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1042876008321 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1042876008322 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1042876008323 active site 1042876008324 DNA binding site [nucleotide binding] 1042876008325 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 1042876008326 DNA binding site [nucleotide binding] 1042876008327 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 1042876008328 nucleotide binding site [chemical binding]; other site 1042876008329 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876008330 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876008331 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1042876008332 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876008333 S-adenosylmethionine binding site [chemical binding]; other site 1042876008334 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 1042876008335 active site 1042876008336 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1042876008337 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 1042876008338 putative DNA binding site [nucleotide binding]; other site 1042876008339 putative homodimer interface [polypeptide binding]; other site 1042876008340 oxidoreductase; Provisional; Region: PRK06128 1042876008341 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1042876008342 NAD binding site [chemical binding]; other site 1042876008343 metal binding site [ion binding]; metal-binding site 1042876008344 active site 1042876008345 nucleosidase; Provisional; Region: PRK05634 1042876008346 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1042876008347 carboxylate-amine ligase; Provisional; Region: PRK13515 1042876008348 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1042876008349 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1042876008350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876008351 S-adenosylmethionine binding site [chemical binding]; other site 1042876008352 TLC ATP/ADP transporter; Region: TLC; cl03940 1042876008353 TLC ATP/ADP transporter; Region: TLC; cl03940 1042876008354 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 1042876008355 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876008356 active site 1042876008357 catalytic tetrad [active] 1042876008358 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1042876008359 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1042876008360 Sodium Bile acid symporter family; Region: SBF; pfam01758 1042876008361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876008362 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876008363 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876008364 beta-carotene hydroxylase; Region: PLN02601 1042876008365 MgtC family; Region: MgtC; pfam02308 1042876008366 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876008367 Coenzyme A binding pocket [chemical binding]; other site 1042876008368 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876008369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876008370 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876008371 Cache domain; Region: Cache_1; pfam02743 1042876008372 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876008373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876008374 metal binding site [ion binding]; metal-binding site 1042876008375 active site 1042876008376 I-site; other site 1042876008377 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1042876008378 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 1042876008379 cytosine deaminase; Provisional; Region: PRK09230 1042876008380 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 1042876008381 active site 1042876008382 Putative transcription activator [Transcription]; Region: TenA; COG0819 1042876008383 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1042876008384 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1042876008385 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1042876008386 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 1042876008387 Cu(I) binding site [ion binding]; other site 1042876008388 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876008389 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876008390 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876008391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876008392 metal binding site [ion binding]; metal-binding site 1042876008393 active site 1042876008394 I-site; other site 1042876008395 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 1042876008396 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 1042876008397 DNA binding site [nucleotide binding] 1042876008398 dimer interface [polypeptide binding]; other site 1042876008399 active site 1042876008400 Int/Topo IB signature motif; other site 1042876008401 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1042876008402 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1042876008403 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1042876008404 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1042876008405 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042876008406 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 1042876008407 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008408 putative substrate translocation pore; other site 1042876008409 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 1042876008410 [2Fe-2S] cluster binding site [ion binding]; other site 1042876008411 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876008412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1042876008413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876008414 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 1042876008415 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876008416 active site 1042876008417 catalytic tetrad [active] 1042876008418 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 1042876008419 phosphate binding site [ion binding]; other site 1042876008420 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1042876008421 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042876008422 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1042876008423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008424 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 1042876008425 putative effector binding pocket; other site 1042876008426 dimerization interface [polypeptide binding]; other site 1042876008427 conjugal transfer protein TrbP; Provisional; Region: PRK13882 1042876008428 TraX protein; Region: TraX; pfam05857 1042876008429 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1042876008430 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876008431 benzoate transporter; Region: benE; TIGR00843 1042876008432 Benzoate membrane transport protein; Region: BenE; pfam03594 1042876008433 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 1042876008434 dimer interface [polypeptide binding]; other site 1042876008435 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1042876008436 active site 1042876008437 benzoate transport; Region: 2A0115; TIGR00895 1042876008438 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008439 putative substrate translocation pore; other site 1042876008440 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1042876008441 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1042876008442 putative NAD(P) binding site [chemical binding]; other site 1042876008443 active site 1042876008444 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1042876008445 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 1042876008446 catalytic loop [active] 1042876008447 iron binding site [ion binding]; other site 1042876008448 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 1042876008449 FAD binding pocket [chemical binding]; other site 1042876008450 FAD binding motif [chemical binding]; other site 1042876008451 phosphate binding motif [ion binding]; other site 1042876008452 beta-alpha-beta structure motif; other site 1042876008453 NAD binding pocket [chemical binding]; other site 1042876008454 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 1042876008455 inter-subunit interface; other site 1042876008456 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1042876008457 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 1042876008458 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 1042876008459 putative alpha subunit interface [polypeptide binding]; other site 1042876008460 putative active site [active] 1042876008461 putative substrate binding site [chemical binding]; other site 1042876008462 Fe binding site [ion binding]; other site 1042876008463 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876008464 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042876008465 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008466 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1042876008467 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1042876008468 active site 1042876008469 universal stress protein UspE; Provisional; Region: PRK11175 1042876008470 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 1042876008471 Ligand Binding Site [chemical binding]; other site 1042876008472 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 1042876008473 Ligand Binding Site [chemical binding]; other site 1042876008474 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876008475 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 1042876008476 N-terminal plug; other site 1042876008477 ligand-binding site [chemical binding]; other site 1042876008478 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1042876008479 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1042876008480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008482 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 1042876008483 putative dimerization interface [polypeptide binding]; other site 1042876008484 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1042876008485 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1042876008486 NAD(P) binding site [chemical binding]; other site 1042876008487 catalytic residues [active] 1042876008488 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876008489 AAA domain; Region: AAA_30; pfam13604 1042876008490 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042876008491 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876008492 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1042876008493 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876008494 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876008495 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876008496 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876008497 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876008498 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1042876008499 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1042876008500 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1042876008501 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1042876008502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008503 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876008504 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 1042876008505 dimerization interface [polypeptide binding]; other site 1042876008506 substrate binding pocket [chemical binding]; other site 1042876008507 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1042876008508 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1042876008509 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1042876008510 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876008511 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 1042876008512 DXD motif; other site 1042876008513 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876008514 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1042876008515 putative ADP-binding pocket [chemical binding]; other site 1042876008516 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1042876008517 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 1042876008518 active site 1042876008519 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 1042876008520 putative acyl transferase; Provisional; Region: PRK10191 1042876008521 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 1042876008522 trimer interface [polypeptide binding]; other site 1042876008523 active site 1042876008524 substrate binding site [chemical binding]; other site 1042876008525 CoA binding site [chemical binding]; other site 1042876008526 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1042876008527 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1042876008528 Probable Catalytic site; other site 1042876008529 metal-binding site 1042876008530 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1042876008531 trimer interface [polypeptide binding]; other site 1042876008532 CoA binding site [chemical binding]; other site 1042876008533 active site 1042876008534 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042876008535 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042876008536 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1042876008537 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1042876008538 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1042876008539 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1042876008540 NAD binding site [chemical binding]; other site 1042876008541 homodimer interface [polypeptide binding]; other site 1042876008542 active site 1042876008543 substrate binding site [chemical binding]; other site 1042876008544 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1042876008545 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 1042876008546 Chain length determinant protein; Region: Wzz; cl15801 1042876008547 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1042876008548 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1042876008549 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1042876008550 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 1042876008551 sequence-specific DNA binding site [nucleotide binding]; other site 1042876008552 salt bridge; other site 1042876008553 Cupin domain; Region: Cupin_2; pfam07883 1042876008554 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 1042876008555 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1042876008556 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1042876008557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008559 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 1042876008560 putative dimerization interface [polypeptide binding]; other site 1042876008561 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 1042876008562 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876008563 active site 1042876008564 catalytic tetrad [active] 1042876008565 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1042876008566 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1042876008567 putative active site [active] 1042876008568 putative PHP Thumb interface [polypeptide binding]; other site 1042876008569 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 1042876008570 generic binding surface I; other site 1042876008571 generic binding surface II; other site 1042876008572 DNA Polymerase Y-family; Region: PolY_like; cd03468 1042876008573 active site 1042876008574 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1042876008575 DNA binding site [nucleotide binding] 1042876008576 Cell division inhibitor SulA; Region: SulA; cl01880 1042876008577 LexA repressor; Provisional; Region: PRK12423 1042876008578 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1042876008579 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 1042876008580 Catalytic site [active] 1042876008581 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876008582 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876008583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008584 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 1042876008585 dimerization interface [polypeptide binding]; other site 1042876008586 substrate binding pocket [chemical binding]; other site 1042876008587 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1042876008588 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 1042876008589 motif II; other site 1042876008590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876008591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876008592 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 1042876008593 putative dimerization interface [polypeptide binding]; other site 1042876008594 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876008595 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042876008596 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1042876008597 amidase; Provisional; Region: PRK07486 1042876008598 Amidase; Region: Amidase; cl11426 1042876008599 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008600 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876008601 putative substrate translocation pore; other site 1042876008602 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1042876008603 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1042876008604 metal binding site [ion binding]; metal-binding site 1042876008605 putative dimer interface [polypeptide binding]; other site 1042876008606 RHS Repeat; Region: RHS_repeat; cl11982 1042876008607 PAAR motif; Region: PAAR_motif; pfam05488 1042876008608 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1042876008609 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 1042876008610 RHS Repeat; Region: RHS_repeat; cl11982 1042876008611 RHS Repeat; Region: RHS_repeat; pfam05593 1042876008612 RHS protein; Region: RHS; pfam03527 1042876008613 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1042876008614 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 1042876008615 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 1042876008616 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1042876008617 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042876008618 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1042876008619 Gp5 C-terminal repeat (3 copies); Region: Gp5_C; pfam06715 1042876008620 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1042876008621 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 1042876008622 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1042876008623 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1042876008624 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1042876008625 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1042876008626 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1042876008627 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1042876008628 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1042876008629 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1042876008630 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876008631 Walker A motif; other site 1042876008632 ATP binding site [chemical binding]; other site 1042876008633 Walker B motif; other site 1042876008634 arginine finger; other site 1042876008635 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876008636 Walker A motif; other site 1042876008637 ATP binding site [chemical binding]; other site 1042876008638 Walker B motif; other site 1042876008639 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042876008640 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1042876008641 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1042876008642 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1042876008643 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 1042876008644 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1042876008645 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1042876008646 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1042876008647 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 1042876008648 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1042876008649 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1042876008650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876008651 ligand binding site [chemical binding]; other site 1042876008652 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1042876008653 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1042876008654 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1042876008655 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 1042876008656 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042876008657 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1042876008658 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876008659 Walker A/P-loop; other site 1042876008660 ATP binding site [chemical binding]; other site 1042876008661 Q-loop/lid; other site 1042876008662 ABC transporter signature motif; other site 1042876008663 Walker B; other site 1042876008664 D-loop; other site 1042876008665 H-loop/switch region; other site 1042876008666 Predicted permeases [General function prediction only]; Region: COG0679 1042876008667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008668 putative substrate translocation pore; other site 1042876008669 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876008670 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1042876008671 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1042876008672 dimerization interface [polypeptide binding]; other site 1042876008673 ligand binding site [chemical binding]; other site 1042876008674 NADP binding site [chemical binding]; other site 1042876008675 catalytic site [active] 1042876008676 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876008677 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876008678 putative substrate translocation pore; other site 1042876008679 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1042876008680 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 1042876008681 substrate binding site [chemical binding]; other site 1042876008682 ATP binding site [chemical binding]; other site 1042876008683 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1042876008684 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042876008685 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042876008686 DNA binding site [nucleotide binding] 1042876008687 domain linker motif; other site 1042876008688 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 1042876008689 putative dimerization interface [polypeptide binding]; other site 1042876008690 putative ligand binding site [chemical binding]; other site 1042876008691 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876008692 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876008693 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876008694 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876008695 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1042876008696 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042876008697 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 1042876008698 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1042876008699 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1042876008700 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1042876008701 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1042876008702 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1042876008703 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1042876008704 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1042876008705 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1042876008706 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1042876008707 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1042876008708 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1042876008709 minor groove reading motif; other site 1042876008710 helix-hairpin-helix signature motif; other site 1042876008711 substrate binding pocket [chemical binding]; other site 1042876008712 active site 1042876008713 Pirin-related protein [General function prediction only]; Region: COG1741 1042876008714 Pirin; Region: Pirin; pfam02678 1042876008715 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042876008716 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 1042876008717 metal binding triad [ion binding]; metal-binding site 1042876008718 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876008719 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876008720 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876008721 putative acetyltransferase; Provisional; Region: PRK03624 1042876008722 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876008723 Coenzyme A binding pocket [chemical binding]; other site 1042876008724 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 1042876008725 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 1042876008726 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1042876008727 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1042876008728 active site 1042876008729 SAM binding site [chemical binding]; other site 1042876008730 homodimer interface [polypeptide binding]; other site 1042876008731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 1042876008732 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 1042876008733 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876008734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008735 active site 1042876008736 phosphorylation site [posttranslational modification] 1042876008737 intermolecular recognition site; other site 1042876008738 dimerization interface [polypeptide binding]; other site 1042876008739 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 1042876008740 DNA binding residues [nucleotide binding] 1042876008741 dimerization interface [polypeptide binding]; other site 1042876008742 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 1042876008743 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042876008744 substrate binding pocket [chemical binding]; other site 1042876008745 membrane-bound complex binding site; other site 1042876008746 hinge residues; other site 1042876008747 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 1042876008748 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876008749 substrate binding pocket [chemical binding]; other site 1042876008750 membrane-bound complex binding site; other site 1042876008751 hinge residues; other site 1042876008752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008753 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 1042876008754 dimer interface [polypeptide binding]; other site 1042876008755 phosphorylation site [posttranslational modification] 1042876008756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008757 ATP binding site [chemical binding]; other site 1042876008758 Mg2+ binding site [ion binding]; other site 1042876008759 G-X-G motif; other site 1042876008760 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876008761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008762 active site 1042876008763 phosphorylation site [posttranslational modification] 1042876008764 intermolecular recognition site; other site 1042876008765 dimerization interface [polypeptide binding]; other site 1042876008766 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 1042876008767 putative binding surface; other site 1042876008768 active site 1042876008769 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 1042876008770 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1042876008771 putative active site [active] 1042876008772 heme pocket [chemical binding]; other site 1042876008773 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 1042876008774 putative active site [active] 1042876008775 heme pocket [chemical binding]; other site 1042876008776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876008777 dimer interface [polypeptide binding]; other site 1042876008778 putative CheW interface [polypeptide binding]; other site 1042876008779 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 1042876008780 active site 1042876008781 Int/Topo IB signature motif; other site 1042876008782 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042876008783 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1042876008784 catalytic residues [active] 1042876008785 catalytic nucleophile [active] 1042876008786 Presynaptic Site I dimer interface [polypeptide binding]; other site 1042876008787 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1042876008788 Synaptic Flat tetramer interface [polypeptide binding]; other site 1042876008789 Synaptic Site I dimer interface [polypeptide binding]; other site 1042876008790 DNA binding site [nucleotide binding] 1042876008791 Homeodomain-like domain; Region: HTH_23; pfam13384 1042876008792 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 1042876008793 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1042876008794 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1042876008795 DNA binding site [nucleotide binding] 1042876008796 domain linker motif; other site 1042876008797 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 1042876008798 putative ligand binding site [chemical binding]; other site 1042876008799 putative dimerization interface [polypeptide binding]; other site 1042876008800 AAA domain; Region: AAA_33; pfam13671 1042876008801 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 1042876008802 ATP-binding site [chemical binding]; other site 1042876008803 Gluconate-6-phosphate binding site [chemical binding]; other site 1042876008804 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1042876008805 GntP family permease; Region: GntP_permease; pfam02447 1042876008806 hydroperoxidase II; Provisional; Region: katE; PRK11249 1042876008807 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876008808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008809 active site 1042876008810 phosphorylation site [posttranslational modification] 1042876008811 intermolecular recognition site; other site 1042876008812 dimerization interface [polypeptide binding]; other site 1042876008813 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876008814 Walker A motif; other site 1042876008815 ATP binding site [chemical binding]; other site 1042876008816 Walker B motif; other site 1042876008817 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876008818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008819 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 1042876008820 dimer interface [polypeptide binding]; other site 1042876008821 phosphorylation site [posttranslational modification] 1042876008822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008823 ATP binding site [chemical binding]; other site 1042876008824 Mg2+ binding site [ion binding]; other site 1042876008825 G-X-G motif; other site 1042876008826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008827 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 1042876008828 dimer interface [polypeptide binding]; other site 1042876008829 phosphorylation site [posttranslational modification] 1042876008830 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008831 ATP binding site [chemical binding]; other site 1042876008832 Mg2+ binding site [ion binding]; other site 1042876008833 G-X-G motif; other site 1042876008834 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1042876008835 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 1042876008836 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876008837 catalytic residue [active] 1042876008838 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1042876008839 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042876008840 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1042876008841 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876008842 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1042876008843 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876008844 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876008845 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876008846 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1042876008847 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1042876008848 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 1042876008849 binding surface 1042876008850 TPR motif; other site 1042876008851 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 1042876008852 binding surface 1042876008853 TPR motif; other site 1042876008854 TPR repeat; Region: TPR_11; pfam13414 1042876008855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008856 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 1042876008857 dimer interface [polypeptide binding]; other site 1042876008858 phosphorylation site [posttranslational modification] 1042876008859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008860 ATP binding site [chemical binding]; other site 1042876008861 Mg2+ binding site [ion binding]; other site 1042876008862 G-X-G motif; other site 1042876008863 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876008864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008865 active site 1042876008866 phosphorylation site [posttranslational modification] 1042876008867 intermolecular recognition site; other site 1042876008868 dimerization interface [polypeptide binding]; other site 1042876008869 PAS fold; Region: PAS_4; pfam08448 1042876008870 PAS domain S-box; Region: sensory_box; TIGR00229 1042876008871 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 1042876008872 putative active site [active] 1042876008873 heme pocket [chemical binding]; other site 1042876008874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876008875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008876 ATP binding site [chemical binding]; other site 1042876008877 Mg2+ binding site [ion binding]; other site 1042876008878 G-X-G motif; other site 1042876008879 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876008880 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008881 active site 1042876008882 phosphorylation site [posttranslational modification] 1042876008883 intermolecular recognition site; other site 1042876008884 dimerization interface [polypeptide binding]; other site 1042876008885 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1042876008886 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1042876008887 potential catalytic triad [active] 1042876008888 conserved cys residue [active] 1042876008889 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1042876008890 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 1042876008891 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1042876008892 dimer interface [polypeptide binding]; other site 1042876008893 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1042876008894 active site 1042876008895 Fe binding site [ion binding]; other site 1042876008896 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1042876008897 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 1042876008898 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1042876008899 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 1042876008900 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1042876008901 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1042876008902 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 1042876008903 Transporter associated domain; Region: CorC_HlyC; smart01091 1042876008904 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876008905 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876008906 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008907 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876008908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876008909 Protein of unknown function (DUF563); Region: DUF563; pfam04577 1042876008910 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1042876008911 Leucine rich repeat; Region: LRR_8; pfam13855 1042876008912 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1042876008913 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876008914 tetrameric interface [polypeptide binding]; other site 1042876008915 activator binding site; other site 1042876008916 NADP binding site [chemical binding]; other site 1042876008917 substrate binding site [chemical binding]; other site 1042876008918 catalytic residues [active] 1042876008919 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_8; cd07246 1042876008920 putative dimer interface [polypeptide binding]; other site 1042876008921 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876008922 threonine dehydratase; Reviewed; Region: PRK12483 1042876008923 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 1042876008924 tetramer interface [polypeptide binding]; other site 1042876008925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876008926 catalytic residue [active] 1042876008927 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1042876008928 putative Ile/Val binding site [chemical binding]; other site 1042876008929 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1042876008930 putative Ile/Val binding site [chemical binding]; other site 1042876008931 Predicted membrane protein [Function unknown]; Region: COG4125 1042876008932 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876008933 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 1042876008934 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1042876008935 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1042876008936 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1042876008937 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 1042876008938 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 1042876008939 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 1042876008940 hypothetical protein; Provisional; Region: PRK09936 1042876008941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876008942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876008943 metal binding site [ion binding]; metal-binding site 1042876008944 active site 1042876008945 I-site; other site 1042876008946 sensor protein RstB; Provisional; Region: PRK10604 1042876008947 HAMP domain; Region: HAMP; pfam00672 1042876008948 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 1042876008949 dimer interface [polypeptide binding]; other site 1042876008950 phosphorylation site [posttranslational modification] 1042876008951 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876008952 ATP binding site [chemical binding]; other site 1042876008953 Mg2+ binding site [ion binding]; other site 1042876008954 G-X-G motif; other site 1042876008955 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1042876008956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876008957 active site 1042876008958 phosphorylation site [posttranslational modification] 1042876008959 intermolecular recognition site; other site 1042876008960 dimerization interface [polypeptide binding]; other site 1042876008961 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 1042876008962 DNA binding site [nucleotide binding] 1042876008963 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1042876008964 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 1042876008965 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876008966 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042876008967 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876008968 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1042876008969 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1042876008970 GTP binding site; other site 1042876008971 acyl-CoA synthetase; Provisional; Region: PRK12583 1042876008972 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876008973 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042876008974 acyl-activating enzyme (AAE) consensus motif; other site 1042876008975 putative AMP binding site [chemical binding]; other site 1042876008976 putative active site [active] 1042876008977 putative CoA binding site [chemical binding]; other site 1042876008978 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 1042876008979 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 1042876008980 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 1042876008981 FeS/SAM binding site; other site 1042876008982 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042876008983 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 1042876008984 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 1042876008985 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 1042876008986 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 1042876008987 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876008988 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876008989 NAD(P) binding site [chemical binding]; other site 1042876008990 catalytic residues [active] 1042876008991 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1042876008992 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1042876008993 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1042876008994 active site 1042876008995 catalytic residues [active] 1042876008996 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1042876008997 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876008998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876008999 Walker A/P-loop; other site 1042876009000 ATP binding site [chemical binding]; other site 1042876009001 Q-loop/lid; other site 1042876009002 ABC transporter signature motif; other site 1042876009003 Walker B; other site 1042876009004 D-loop; other site 1042876009005 H-loop/switch region; other site 1042876009006 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1042876009007 GAF domain; Region: GAF; pfam01590 1042876009008 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 1042876009009 putative active site [active] 1042876009010 heme pocket [chemical binding]; other site 1042876009011 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876009012 ATP binding site [chemical binding]; other site 1042876009013 Walker A motif; other site 1042876009014 Walker B motif; other site 1042876009015 arginine finger; other site 1042876009016 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876009017 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 1042876009018 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; pfam10614 1042876009019 curli assembly protein CsgE; Provisional; Region: PRK10386 1042876009020 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1042876009021 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1042876009022 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042876009023 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1042876009024 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1042876009025 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 1042876009026 TPR motif; other site 1042876009027 binding surface 1042876009028 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1042876009029 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876009030 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042876009031 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042876009032 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1042876009033 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1042876009034 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 1042876009035 Walker A motif; other site 1042876009036 ATP binding site [chemical binding]; other site 1042876009037 Walker B motif; other site 1042876009038 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009039 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009040 active site 1042876009041 phosphorylation site [posttranslational modification] 1042876009042 intermolecular recognition site; other site 1042876009043 dimerization interface [polypeptide binding]; other site 1042876009044 SurA N-terminal domain; Region: SurA_N_3; cl07813 1042876009045 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876009046 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042876009047 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1042876009048 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1042876009049 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 1042876009050 Cu(I) binding site [ion binding]; other site 1042876009051 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1042876009052 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 1042876009053 Cu(I) binding site [ion binding]; other site 1042876009054 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1042876009055 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 1042876009056 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876009057 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876009058 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876009059 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1042876009060 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1042876009061 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1042876009062 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1042876009063 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1042876009064 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1042876009065 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1042876009066 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1042876009067 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1042876009068 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1042876009069 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 1042876009070 substrate binding site [chemical binding]; other site 1042876009071 oxyanion hole (OAH) forming residues; other site 1042876009072 trimer interface [polypeptide binding]; other site 1042876009073 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1042876009074 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876009075 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876009076 active site 1042876009077 transcriptional regulator; Provisional; Region: PRK10632 1042876009078 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009079 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 1042876009080 putative effector binding pocket; other site 1042876009081 dimerization interface [polypeptide binding]; other site 1042876009082 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876009083 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 1042876009084 Family of unknown function (DUF633); Region: DUF633; pfam04816 1042876009085 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 1042876009086 homotrimer interaction site [polypeptide binding]; other site 1042876009087 putative active site [active] 1042876009088 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1042876009089 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 1042876009090 Peptidase family U32; Region: Peptidase_U32; pfam01136 1042876009091 Collagenase; Region: DUF3656; pfam12392 1042876009092 amidase; Validated; Region: PRK06565 1042876009093 Amidase; Region: Amidase; cl11426 1042876009094 Amidase; Region: Amidase; cl11426 1042876009095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1042876009096 YheO-like PAS domain; Region: PAS_6; pfam08348 1042876009097 HTH domain; Region: HTH_22; pfam13309 1042876009098 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 1042876009099 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876009100 catalytic residue [active] 1042876009101 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1042876009102 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1042876009103 dimer interface [polypeptide binding]; other site 1042876009104 active site 1042876009105 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876009106 catalytic residues [active] 1042876009107 substrate binding site [chemical binding]; other site 1042876009108 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1042876009109 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1042876009110 NAD(P) binding pocket [chemical binding]; other site 1042876009111 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1042876009112 potential catalytic triad [active] 1042876009113 conserved cys residue [active] 1042876009114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009116 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 1042876009117 substrate binding pocket [chemical binding]; other site 1042876009118 dimerization interface [polypeptide binding]; other site 1042876009119 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1042876009120 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1042876009121 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1042876009122 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1042876009123 malate:quinone oxidoreductase; Validated; Region: PRK05257 1042876009124 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1042876009125 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1042876009126 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 1042876009127 FeS/SAM binding site; other site 1042876009128 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1042876009129 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1042876009130 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1042876009131 Lumazine binding domain; Region: Lum_binding; pfam00677 1042876009132 Lumazine binding domain; Region: Lum_binding; pfam00677 1042876009133 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1042876009134 proline/glycine betaine transporter; Provisional; Region: PRK10642 1042876009135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876009136 putative substrate translocation pore; other site 1042876009137 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1042876009138 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; cd00384 1042876009139 dimer interface [polypeptide binding]; other site 1042876009140 active site 1042876009141 Schiff base residues; other site 1042876009142 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1042876009143 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 1042876009144 ATP binding site [chemical binding]; other site 1042876009145 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876009146 Spore germination protein; Region: Spore_permease; cl17796 1042876009147 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1042876009148 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876009149 carbon starvation induced protein; Validated; Region: PRK02963 1042876009150 substrate binding pocket [chemical binding]; other site 1042876009151 active site 1042876009152 iron coordination sites [ion binding]; other site 1042876009153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009154 DNA-binding site [nucleotide binding]; DNA binding site 1042876009155 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876009156 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876009157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009158 active site 1042876009159 phosphorylation site [posttranslational modification] 1042876009160 intermolecular recognition site; other site 1042876009161 dimerization interface [polypeptide binding]; other site 1042876009162 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 1042876009163 DNA binding site [nucleotide binding] 1042876009164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876009165 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 1042876009166 dimerization interface [polypeptide binding]; other site 1042876009167 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 1042876009168 dimer interface [polypeptide binding]; other site 1042876009169 phosphorylation site [posttranslational modification] 1042876009170 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009171 ATP binding site [chemical binding]; other site 1042876009172 Mg2+ binding site [ion binding]; other site 1042876009173 G-X-G motif; other site 1042876009174 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1042876009175 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042876009176 active site 1042876009177 HIGH motif; other site 1042876009178 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1042876009179 KMSKS motif; other site 1042876009180 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1042876009181 tRNA binding surface [nucleotide binding]; other site 1042876009182 anticodon binding site; other site 1042876009183 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1042876009184 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042876009185 active site 1042876009186 HIGH motif; other site 1042876009187 nucleotide binding site [chemical binding]; other site 1042876009188 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1042876009189 KMSKS motif; other site 1042876009190 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1042876009191 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 1042876009192 substrate binding site [chemical binding]; other site 1042876009193 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042876009194 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1042876009195 putative active site [active] 1042876009196 putative metal binding site [ion binding]; other site 1042876009197 Penicillin amidase; Region: Penicil_amidase; pfam01804 1042876009198 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 1042876009199 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 1042876009200 active site 1042876009201 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 1042876009202 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 1042876009203 Mor transcription activator family; Region: Mor; cl02360 1042876009204 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1042876009205 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 1042876009206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1042876009207 Family of unknown function (DUF490); Region: DUF490; pfam04357 1042876009208 Family of unknown function (DUF490); Region: DUF490; pfam04357 1042876009209 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1042876009210 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876009211 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042876009212 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1042876009213 Coenzyme A binding pocket [chemical binding]; other site 1042876009214 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 1042876009215 putative catalytic site [active] 1042876009216 putative phosphate binding site [ion binding]; other site 1042876009217 active site 1042876009218 metal binding site A [ion binding]; metal-binding site 1042876009219 DNA binding site [nucleotide binding] 1042876009220 putative AP binding site [nucleotide binding]; other site 1042876009221 putative metal binding site B [ion binding]; other site 1042876009222 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876009223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876009224 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1042876009225 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 1042876009226 substrate binding pocket [chemical binding]; other site 1042876009227 membrane-bound complex binding site; other site 1042876009228 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 1042876009229 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 1042876009230 active site 1042876009231 non-prolyl cis peptide bond; other site 1042876009232 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1042876009233 hypothetical protein; Provisional; Region: PRK11171 1042876009234 Cupin domain; Region: Cupin_2; pfam07883 1042876009235 Cupin domain; Region: Cupin_2; pfam07883 1042876009236 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1042876009237 putative lipid binding site [chemical binding]; other site 1042876009238 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009240 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 1042876009241 dimerization interface [polypeptide binding]; other site 1042876009242 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042876009243 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042876009244 Ankyrin repeat; Region: Ank; pfam00023 1042876009245 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042876009246 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 1042876009247 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1042876009248 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1042876009249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876009250 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042876009251 Cupin domain; Region: Cupin_2; cl17218 1042876009252 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876009253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876009254 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1042876009255 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042876009256 DNA binding residues [nucleotide binding] 1042876009257 putative dimer interface [polypeptide binding]; other site 1042876009258 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1042876009259 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1042876009260 active site 1042876009261 catalytic residues [active] 1042876009262 metal binding site [ion binding]; metal-binding site 1042876009263 MgtC family; Region: MgtC; pfam02308 1042876009264 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1042876009265 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1042876009266 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042876009267 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1042876009268 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 1042876009269 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009270 DNA-binding site [nucleotide binding]; DNA binding site 1042876009271 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 1042876009272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876009273 homodimer interface [polypeptide binding]; other site 1042876009274 catalytic residue [active] 1042876009275 PAS fold; Region: PAS_4; pfam08448 1042876009276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876009277 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009278 ATP binding site [chemical binding]; other site 1042876009279 Mg2+ binding site [ion binding]; other site 1042876009280 G-X-G motif; other site 1042876009281 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876009282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009283 active site 1042876009284 phosphorylation site [posttranslational modification] 1042876009285 intermolecular recognition site; other site 1042876009286 dimerization interface [polypeptide binding]; other site 1042876009287 PAS fold; Region: PAS_4; pfam08448 1042876009288 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 1042876009289 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876009290 dimer interface [polypeptide binding]; other site 1042876009291 phosphorylation site [posttranslational modification] 1042876009292 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009293 ATP binding site [chemical binding]; other site 1042876009294 Mg2+ binding site [ion binding]; other site 1042876009295 G-X-G motif; other site 1042876009296 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1042876009297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009298 active site 1042876009299 phosphorylation site [posttranslational modification] 1042876009300 intermolecular recognition site; other site 1042876009301 dimerization interface [polypeptide binding]; other site 1042876009302 short chain dehydrogenase; Provisional; Region: PRK06123 1042876009303 classical (c) SDRs; Region: SDR_c; cd05233 1042876009304 NAD(P) binding site [chemical binding]; other site 1042876009305 active site 1042876009306 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1042876009307 ApbE family; Region: ApbE; pfam02424 1042876009308 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1042876009309 SLBB domain; Region: SLBB; pfam10531 1042876009310 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 1042876009311 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1042876009312 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042876009313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876009314 putative substrate translocation pore; other site 1042876009315 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876009316 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1042876009317 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876009318 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876009319 MarR family; Region: MarR_2; cl17246 1042876009320 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042876009321 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1042876009322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009323 active site 1042876009324 phosphorylation site [posttranslational modification] 1042876009325 intermolecular recognition site; other site 1042876009326 dimerization interface [polypeptide binding]; other site 1042876009327 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 1042876009328 DNA binding residues [nucleotide binding] 1042876009329 dimerization interface [polypeptide binding]; other site 1042876009330 PAS domain S-box; Region: sensory_box; TIGR00229 1042876009331 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 1042876009332 putative active site [active] 1042876009333 heme pocket [chemical binding]; other site 1042876009334 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 1042876009335 dimer interface [polypeptide binding]; other site 1042876009336 phosphorylation site [posttranslational modification] 1042876009337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009338 ATP binding site [chemical binding]; other site 1042876009339 G-X-G motif; other site 1042876009340 acyl-CoA synthetase; Validated; Region: PRK08162 1042876009341 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 1042876009342 acyl-activating enzyme (AAE) consensus motif; other site 1042876009343 putative active site [active] 1042876009344 AMP binding site [chemical binding]; other site 1042876009345 putative CoA binding site [chemical binding]; other site 1042876009346 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042876009347 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1042876009348 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876009349 active site 1042876009350 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042876009351 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876009352 FecR protein; Region: FecR; pfam04773 1042876009353 Predicted permease [General function prediction only]; Region: COG2056 1042876009354 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1042876009355 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 1042876009356 dimerization interface [polypeptide binding]; other site 1042876009357 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876009358 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876009359 dimer interface [polypeptide binding]; other site 1042876009360 putative CheW interface [polypeptide binding]; other site 1042876009361 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1042876009362 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1042876009363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876009364 dimer interface [polypeptide binding]; other site 1042876009365 conserved gate region; other site 1042876009366 ABC-ATPase subunit interface; other site 1042876009367 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009369 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 1042876009370 putative dimerization interface [polypeptide binding]; other site 1042876009371 Membrane transport protein; Region: Mem_trans; cl09117 1042876009372 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1042876009373 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 1042876009374 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1042876009375 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 1042876009376 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876009377 conserved cys residue [active] 1042876009378 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876009379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876009380 LysE type translocator; Region: LysE; cl00565 1042876009381 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1042876009382 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 1042876009383 putative substrate translocation pore; other site 1042876009384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009386 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 1042876009387 putative effector binding pocket; other site 1042876009388 dimerization interface [polypeptide binding]; other site 1042876009389 Cupin domain; Region: Cupin_2; cl17218 1042876009390 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1042876009391 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1042876009392 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1042876009393 Trp docking motif [polypeptide binding]; other site 1042876009394 putative active site [active] 1042876009395 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 1042876009396 acetylornithine deacetylase; Provisional; Region: PRK07522 1042876009397 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1042876009398 metal binding site [ion binding]; metal-binding site 1042876009399 putative dimer interface [polypeptide binding]; other site 1042876009400 Uncharacterized conserved protein [Function unknown]; Region: COG3342 1042876009401 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1042876009402 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 1042876009403 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876009404 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 1042876009405 homotrimer interaction site [polypeptide binding]; other site 1042876009406 putative active site [active] 1042876009407 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876009408 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876009409 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 1042876009410 N-terminal plug; other site 1042876009411 ligand-binding site [chemical binding]; other site 1042876009412 fec operon regulator FecR; Reviewed; Region: PRK09774 1042876009413 FecR protein; Region: FecR; pfam04773 1042876009414 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1042876009415 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876009416 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1042876009417 DNA binding residues [nucleotide binding] 1042876009418 phosphoglucomutase; Validated; Region: PRK07564 1042876009419 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1042876009420 active site 1042876009421 substrate binding site [chemical binding]; other site 1042876009422 metal binding site [ion binding]; metal-binding site 1042876009423 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1042876009424 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1042876009425 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1042876009426 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1042876009427 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1042876009428 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876009429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876009430 metal binding site [ion binding]; metal-binding site 1042876009431 active site 1042876009432 I-site; other site 1042876009433 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 1042876009434 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876009435 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1042876009436 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876009437 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1042876009438 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876009439 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876009440 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 1042876009441 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876009442 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 1042876009443 dimer interface [polypeptide binding]; other site 1042876009444 catalytic triad [active] 1042876009445 peroxidatic and resolving cysteines [active] 1042876009446 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1042876009447 serine transporter; Region: stp; TIGR00814 1042876009448 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1042876009449 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 1042876009450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876009451 homodimer interface [polypeptide binding]; other site 1042876009452 catalytic residue [active] 1042876009453 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1042876009454 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1042876009455 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042876009456 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1042876009457 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 1042876009458 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876009459 substrate binding pocket [chemical binding]; other site 1042876009460 membrane-bound complex binding site; other site 1042876009461 hinge residues; other site 1042876009462 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876009463 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876009464 dimer interface [polypeptide binding]; other site 1042876009465 conserved gate region; other site 1042876009466 putative PBP binding loops; other site 1042876009467 ABC-ATPase subunit interface; other site 1042876009468 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876009469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1042876009470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876009471 dimer interface [polypeptide binding]; other site 1042876009472 putative PBP binding loops; other site 1042876009473 ABC-ATPase subunit interface; other site 1042876009474 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876009475 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876009476 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876009477 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876009478 Walker A/P-loop; other site 1042876009479 ATP binding site [chemical binding]; other site 1042876009480 Q-loop/lid; other site 1042876009481 ABC transporter signature motif; other site 1042876009482 Walker B; other site 1042876009483 D-loop; other site 1042876009484 H-loop/switch region; other site 1042876009485 Peptidase C26; Region: Peptidase_C26; pfam07722 1042876009486 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1042876009487 catalytic triad [active] 1042876009488 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042876009489 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1042876009490 putative active site [active] 1042876009491 catalytic residue [active] 1042876009492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876009493 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876009494 putative substrate translocation pore; other site 1042876009495 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1042876009496 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1042876009497 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1042876009498 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042876009499 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042876009500 dimer interface [polypeptide binding]; other site 1042876009501 NADP binding site [chemical binding]; other site 1042876009502 catalytic residues [active] 1042876009503 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876009504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009505 DNA-binding site [nucleotide binding]; DNA binding site 1042876009506 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876009507 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1042876009508 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876009509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876009510 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876009511 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1042876009512 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1042876009513 NADP binding site [chemical binding]; other site 1042876009514 dimer interface [polypeptide binding]; other site 1042876009515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009517 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 1042876009518 putative substrate binding pocket [chemical binding]; other site 1042876009519 putative dimerization interface [polypeptide binding]; other site 1042876009520 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1042876009521 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 1042876009522 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 1042876009523 N-terminal plug; other site 1042876009524 ligand-binding site [chemical binding]; other site 1042876009525 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876009526 YcaO domain protein; Region: TIGR03549 1042876009527 OsmC-like protein; Region: OsmC; pfam02566 1042876009528 YcaO-like family; Region: YcaO; pfam02624 1042876009529 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042876009530 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 1042876009531 catalytic loop [active] 1042876009532 iron binding site [ion binding]; other site 1042876009533 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042876009534 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876009535 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042876009536 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042876009537 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876009538 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876009539 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876009540 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876009541 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876009542 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1042876009543 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042876009544 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042876009545 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 1042876009546 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876009547 substrate binding pocket [chemical binding]; other site 1042876009548 membrane-bound complex binding site; other site 1042876009549 hinge residues; other site 1042876009550 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876009551 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1042876009552 BCCT family transporter; Region: BCCT; pfam02028 1042876009553 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1042876009554 active site 1042876009555 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1042876009556 Bacterial SH3 domain; Region: SH3_3; pfam08239 1042876009557 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009559 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 1042876009560 putative effector binding pocket; other site 1042876009561 dimerization interface [polypeptide binding]; other site 1042876009562 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1042876009563 classical (c) SDRs; Region: SDR_c; cd05233 1042876009564 NAD(P) binding site [chemical binding]; other site 1042876009565 active site 1042876009566 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 1042876009567 hexamer interface [polypeptide binding]; other site 1042876009568 active site 2 [active] 1042876009569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009571 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 1042876009572 dimerization interface [polypeptide binding]; other site 1042876009573 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1042876009574 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1042876009575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876009576 Coenzyme A binding pocket [chemical binding]; other site 1042876009577 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1042876009578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876009579 dimer interface [polypeptide binding]; other site 1042876009580 conserved gate region; other site 1042876009581 putative PBP binding loops; other site 1042876009582 ABC-ATPase subunit interface; other site 1042876009583 NMT1-like family; Region: NMT1_2; pfam13379 1042876009584 NMT1/THI5 like; Region: NMT1; pfam09084 1042876009585 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1042876009586 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1042876009587 Walker A/P-loop; other site 1042876009588 ATP binding site [chemical binding]; other site 1042876009589 Q-loop/lid; other site 1042876009590 ABC transporter signature motif; other site 1042876009591 Walker B; other site 1042876009592 D-loop; other site 1042876009593 H-loop/switch region; other site 1042876009594 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876009595 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876009596 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042876009597 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042876009598 Cupin; Region: Cupin_6; pfam12852 1042876009599 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876009600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876009601 Predicted transcriptional regulator [Transcription]; Region: COG1959 1042876009602 Transcriptional regulator; Region: Rrf2; pfam02082 1042876009603 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1042876009604 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876009605 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876009606 Na binding site [ion binding]; other site 1042876009607 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042876009608 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1042876009609 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1042876009610 Amino acid synthesis; Region: AA_synth; pfam06684 1042876009611 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042876009612 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042876009613 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876009614 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 1042876009615 NAD(P) binding site [chemical binding]; other site 1042876009616 catalytic residues [active] 1042876009617 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 1042876009618 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1042876009619 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876009620 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009621 DNA-binding site [nucleotide binding]; DNA binding site 1042876009622 FCD domain; Region: FCD; pfam07729 1042876009623 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 1042876009624 nudix motif; other site 1042876009625 PAS fold; Region: PAS_4; pfam08448 1042876009626 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042876009627 GAF domain; Region: GAF; pfam01590 1042876009628 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 1042876009629 dimer interface [polypeptide binding]; other site 1042876009630 phosphorylation site [posttranslational modification] 1042876009631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009632 ATP binding site [chemical binding]; other site 1042876009633 Mg2+ binding site [ion binding]; other site 1042876009634 G-X-G motif; other site 1042876009635 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876009636 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876009637 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876009638 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876009639 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876009640 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876009641 Na binding site [ion binding]; other site 1042876009642 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1042876009643 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 1042876009644 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 1042876009645 active site 1042876009646 FMN binding site [chemical binding]; other site 1042876009647 substrate binding site [chemical binding]; other site 1042876009648 3Fe-4S cluster binding site [ion binding]; other site 1042876009649 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 1042876009650 domain_subunit interface; other site 1042876009651 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 1042876009652 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 1042876009653 putative active site [active] 1042876009654 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 1042876009655 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876009656 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042876009657 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 1042876009658 non-specific DNA binding site [nucleotide binding]; other site 1042876009659 salt bridge; other site 1042876009660 sequence-specific DNA binding site [nucleotide binding]; other site 1042876009661 Cupin domain; Region: Cupin_2; pfam07883 1042876009662 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 1042876009663 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 1042876009664 catalytic triad [active] 1042876009665 metal binding site [ion binding]; metal-binding site 1042876009666 conserved cis-peptide bond; other site 1042876009667 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1042876009668 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 1042876009669 active site 1042876009670 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876009671 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876009672 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876009673 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 1042876009674 Ligand Binding Site [chemical binding]; other site 1042876009675 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 1042876009676 putative substrate binding site [chemical binding]; other site 1042876009677 putative active site [active] 1042876009678 putative cosubstrate binding site; other site 1042876009679 catalytic site [active] 1042876009680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009681 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042876009682 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 1042876009683 putative dimerization interface [polypeptide binding]; other site 1042876009684 Predicted membrane protein [Function unknown]; Region: COG2855 1042876009685 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1042876009686 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1042876009687 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876009688 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876009689 metal binding site [ion binding]; metal-binding site 1042876009690 active site 1042876009691 I-site; other site 1042876009692 EamA-like transporter family; Region: EamA; pfam00892 1042876009693 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876009694 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876009695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876009696 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1042876009697 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1042876009698 domain interface [polypeptide binding]; other site 1042876009699 putative active site [active] 1042876009700 catalytic site [active] 1042876009701 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1042876009702 domain interface [polypeptide binding]; other site 1042876009703 putative active site [active] 1042876009704 catalytic site [active] 1042876009705 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1042876009706 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1042876009707 dimer interface [polypeptide binding]; other site 1042876009708 active site 1042876009709 heme binding site [chemical binding]; other site 1042876009710 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1042876009711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009713 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 1042876009714 putative substrate binding pocket [chemical binding]; other site 1042876009715 putative dimerization interface [polypeptide binding]; other site 1042876009716 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876009717 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876009718 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 1042876009719 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876009720 active site 1042876009721 catalytic tetrad [active] 1042876009722 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 1042876009723 PAS domain; Region: PAS_9; pfam13426 1042876009724 putative active site [active] 1042876009725 heme pocket [chemical binding]; other site 1042876009726 PAS fold; Region: PAS_4; pfam08448 1042876009727 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 1042876009728 putative active site [active] 1042876009729 heme pocket [chemical binding]; other site 1042876009730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876009731 metal binding site [ion binding]; metal-binding site 1042876009732 active site 1042876009733 I-site; other site 1042876009734 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 1042876009735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876009736 Coenzyme A binding pocket [chemical binding]; other site 1042876009737 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1042876009738 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 1042876009739 dimer interface [polypeptide binding]; other site 1042876009740 active site 1042876009741 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 1042876009742 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1042876009743 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 1042876009744 octamer interface [polypeptide binding]; other site 1042876009745 active site 1042876009746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876009747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876009748 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 1042876009749 dimerizarion interface [polypeptide binding]; other site 1042876009750 CrgA pocket; other site 1042876009751 substrate binding pocket [chemical binding]; other site 1042876009752 D-serine dehydratase; Provisional; Region: PRK02991 1042876009753 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1042876009754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876009755 catalytic residue [active] 1042876009756 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876009757 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 1042876009758 DNA binding residues [nucleotide binding] 1042876009759 dimerization interface [polypeptide binding]; other site 1042876009760 hypothetical protein; Provisional; Region: PRK07036 1042876009761 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 1042876009762 inhibitor-cofactor binding pocket; inhibition site 1042876009763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876009764 catalytic residue [active] 1042876009765 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876009766 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876009767 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1042876009768 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876009769 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1042876009770 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876009771 NAD binding site [chemical binding]; other site 1042876009772 catalytic residues [active] 1042876009773 aspartate aminotransferase; Provisional; Region: PRK05764 1042876009774 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 1042876009775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876009776 homodimer interface [polypeptide binding]; other site 1042876009777 catalytic residue [active] 1042876009778 alanine racemase; Reviewed; Region: PRK13340 1042876009779 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 1042876009780 active site 1042876009781 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876009782 dimer interface [polypeptide binding]; other site 1042876009783 substrate binding site [chemical binding]; other site 1042876009784 catalytic residues [active] 1042876009785 hypothetical protein; Provisional; Region: PRK07524 1042876009786 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876009787 PYR/PP interface [polypeptide binding]; other site 1042876009788 dimer interface [polypeptide binding]; other site 1042876009789 TPP binding site [chemical binding]; other site 1042876009790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876009791 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 1042876009792 TPP-binding site [chemical binding]; other site 1042876009793 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1042876009794 CoA binding domain; Region: CoA_binding_2; pfam13380 1042876009795 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1042876009796 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1042876009797 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876009798 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876009799 active site 1042876009800 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042876009801 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 1042876009802 substrate binding site [chemical binding]; other site 1042876009803 oxyanion hole (OAH) forming residues; other site 1042876009804 trimer interface [polypeptide binding]; other site 1042876009805 S-methylmethionine transporter; Provisional; Region: PRK11387 1042876009806 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876009807 HAMP domain; Region: HAMP; pfam00672 1042876009808 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 1042876009809 dimer interface [polypeptide binding]; other site 1042876009810 phosphorylation site [posttranslational modification] 1042876009811 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009812 ATP binding site [chemical binding]; other site 1042876009813 Mg2+ binding site [ion binding]; other site 1042876009814 G-X-G motif; other site 1042876009815 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009816 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009817 active site 1042876009818 phosphorylation site [posttranslational modification] 1042876009819 intermolecular recognition site; other site 1042876009820 dimerization interface [polypeptide binding]; other site 1042876009821 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876009822 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 1042876009823 substrate binding pocket [chemical binding]; other site 1042876009824 membrane-bound complex binding site; other site 1042876009825 hinge residues; other site 1042876009826 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1042876009827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009828 active site 1042876009829 phosphorylation site [posttranslational modification] 1042876009830 intermolecular recognition site; other site 1042876009831 dimerization interface [polypeptide binding]; other site 1042876009832 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 1042876009833 DNA binding site [nucleotide binding] 1042876009834 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1042876009835 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876009836 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1042876009837 enoyl-CoA hydratase; Provisional; Region: PRK06688 1042876009838 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 1042876009839 substrate binding site [chemical binding]; other site 1042876009840 oxyanion hole (OAH) forming residues; other site 1042876009841 trimer interface [polypeptide binding]; other site 1042876009842 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 1042876009843 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1042876009844 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1042876009845 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042876009846 Walker A/P-loop; other site 1042876009847 ATP binding site [chemical binding]; other site 1042876009848 Q-loop/lid; other site 1042876009849 ABC transporter signature motif; other site 1042876009850 Walker B; other site 1042876009851 D-loop; other site 1042876009852 H-loop/switch region; other site 1042876009853 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042876009854 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876009855 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876009856 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876009857 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1042876009858 RHS protein; Region: RHS; pfam03527 1042876009859 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1042876009860 Cytotoxic; Region: Cytotoxic; pfam09000 1042876009861 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1042876009862 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042876009863 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042876009864 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876009865 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 1042876009866 putative C-terminal domain interface [polypeptide binding]; other site 1042876009867 putative GSH binding site (G-site) [chemical binding]; other site 1042876009868 putative dimer interface [polypeptide binding]; other site 1042876009869 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1042876009870 N-terminal domain interface [polypeptide binding]; other site 1042876009871 conserverd hypothetical protein; Region: TIGR02448 1042876009872 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1042876009873 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009874 DNA-binding site [nucleotide binding]; DNA binding site 1042876009875 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876009876 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1042876009877 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876009878 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1042876009879 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876009880 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1042876009881 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 1042876009882 Cysteine-rich domain; Region: CCG; pfam02754 1042876009883 Cysteine-rich domain; Region: CCG; pfam02754 1042876009884 Domain of unknown function (DUF336); Region: DUF336; cl01249 1042876009885 malate synthase G; Provisional; Region: PRK02999 1042876009886 active site 1042876009887 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 1042876009888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876009889 DNA-binding site [nucleotide binding]; DNA binding site 1042876009890 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 1042876009891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876009892 homodimer interface [polypeptide binding]; other site 1042876009893 catalytic residue [active] 1042876009894 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1042876009895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876009896 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 1042876009897 nucleoside/Zn binding site; other site 1042876009898 dimer interface [polypeptide binding]; other site 1042876009899 catalytic motif [active] 1042876009900 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042876009901 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042876009902 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876009903 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876009904 SurA N-terminal domain; Region: SurA_N; pfam09312 1042876009905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876009906 beta-ketothiolase; Provisional; Region: PRK09051 1042876009907 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 1042876009908 dimer interface [polypeptide binding]; other site 1042876009909 active site 1042876009910 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 1042876009911 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1042876009912 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1042876009913 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876009914 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876009915 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009916 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009917 active site 1042876009918 phosphorylation site [posttranslational modification] 1042876009919 intermolecular recognition site; other site 1042876009920 dimerization interface [polypeptide binding]; other site 1042876009921 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009922 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009923 active site 1042876009924 phosphorylation site [posttranslational modification] 1042876009925 intermolecular recognition site; other site 1042876009926 dimerization interface [polypeptide binding]; other site 1042876009927 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876009928 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 1042876009929 dimer interface [polypeptide binding]; other site 1042876009930 phosphorylation site [posttranslational modification] 1042876009931 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009932 ATP binding site [chemical binding]; other site 1042876009933 Mg2+ binding site [ion binding]; other site 1042876009934 G-X-G motif; other site 1042876009935 CheB methylesterase; Region: CheB_methylest; pfam01339 1042876009936 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1042876009937 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1042876009938 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1042876009939 CHASE3 domain; Region: CHASE3; pfam05227 1042876009940 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042876009941 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1042876009942 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 1042876009943 dimer interface [polypeptide binding]; other site 1042876009944 phosphorylation site [posttranslational modification] 1042876009945 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876009946 ATP binding site [chemical binding]; other site 1042876009947 Mg2+ binding site [ion binding]; other site 1042876009948 G-X-G motif; other site 1042876009949 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009951 active site 1042876009952 phosphorylation site [posttranslational modification] 1042876009953 intermolecular recognition site; other site 1042876009954 dimerization interface [polypeptide binding]; other site 1042876009955 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009957 active site 1042876009958 phosphorylation site [posttranslational modification] 1042876009959 intermolecular recognition site; other site 1042876009960 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009961 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009962 active site 1042876009963 phosphorylation site [posttranslational modification] 1042876009964 intermolecular recognition site; other site 1042876009965 dimerization interface [polypeptide binding]; other site 1042876009966 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876009967 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876009968 active site 1042876009969 phosphorylation site [posttranslational modification] 1042876009970 intermolecular recognition site; other site 1042876009971 dimerization interface [polypeptide binding]; other site 1042876009972 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 1042876009973 active site 1042876009974 SAM binding site [chemical binding]; other site 1042876009975 homodimer interface [polypeptide binding]; other site 1042876009976 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876009977 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1042876009978 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876009979 dimer interface [polypeptide binding]; other site 1042876009980 active site 1042876009981 metal binding site [ion binding]; metal-binding site 1042876009982 glutathione binding site [chemical binding]; other site 1042876009983 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1042876009984 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1042876009985 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1042876009986 shikimate binding site; other site 1042876009987 NAD(P) binding site [chemical binding]; other site 1042876009988 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1042876009989 catalytic residue [active] 1042876009990 Predicted transcriptional regulator [Transcription]; Region: COG2932 1042876009991 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 1042876009992 Catalytic site [active] 1042876009993 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 1042876009994 Alginate lyase; Region: Alginate_lyase2; pfam08787 1042876009995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876009996 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 1042876009997 dimer interface [polypeptide binding]; other site 1042876009998 phosphorylation site [posttranslational modification] 1042876009999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876010000 Mg2+ binding site [ion binding]; other site 1042876010001 G-X-G motif; other site 1042876010002 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1042876010003 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1042876010004 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 1042876010005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876010006 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042876010007 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1042876010008 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042876010009 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042876010010 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 1042876010011 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1042876010012 intersubunit interface [polypeptide binding]; other site 1042876010013 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1042876010014 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1042876010015 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1042876010016 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 1042876010017 ABC-ATPase subunit interface; other site 1042876010018 dimer interface [polypeptide binding]; other site 1042876010019 putative PBP binding regions; other site 1042876010020 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1042876010021 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 1042876010022 intersubunit interface [polypeptide binding]; other site 1042876010023 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1042876010024 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 1042876010025 catalytic triad [active] 1042876010026 dimer interface [polypeptide binding]; other site 1042876010027 conserved cis-peptide bond; other site 1042876010028 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1042876010029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1042876010030 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1042876010031 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1042876010032 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1042876010033 putative active site [active] 1042876010034 putative substrate binding site [chemical binding]; other site 1042876010035 putative cosubstrate binding site; other site 1042876010036 catalytic site [active] 1042876010037 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 1042876010038 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1042876010039 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1042876010040 homodimer interface [polypeptide binding]; other site 1042876010041 NADP binding site [chemical binding]; other site 1042876010042 substrate binding site [chemical binding]; other site 1042876010043 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1042876010044 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876010045 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 1042876010046 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1042876010047 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1042876010048 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1042876010049 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042876010050 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 1042876010051 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876010052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010053 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 1042876010054 putative effector binding pocket; other site 1042876010055 dimerization interface [polypeptide binding]; other site 1042876010056 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1042876010057 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042876010058 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876010059 Pirin-related protein [General function prediction only]; Region: COG1741 1042876010060 Pirin; Region: Pirin; pfam02678 1042876010061 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 1042876010062 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 1042876010063 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1042876010064 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1042876010065 dimerization interface [polypeptide binding]; other site 1042876010066 active site 1042876010067 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1042876010068 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876010069 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010070 dimer interface [polypeptide binding]; other site 1042876010071 conserved gate region; other site 1042876010072 putative PBP binding loops; other site 1042876010073 ABC-ATPase subunit interface; other site 1042876010074 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876010075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010076 dimer interface [polypeptide binding]; other site 1042876010077 conserved gate region; other site 1042876010078 putative PBP binding loops; other site 1042876010079 ABC-ATPase subunit interface; other site 1042876010080 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876010081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876010082 Walker A/P-loop; other site 1042876010083 ATP binding site [chemical binding]; other site 1042876010084 Q-loop/lid; other site 1042876010085 ABC transporter signature motif; other site 1042876010086 Walker B; other site 1042876010087 D-loop; other site 1042876010088 H-loop/switch region; other site 1042876010089 TOBE domain; Region: TOBE_2; pfam08402 1042876010090 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1042876010091 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876010092 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876010093 ligand binding site [chemical binding]; other site 1042876010094 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1042876010095 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876010096 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1042876010097 FAD binding site [chemical binding]; other site 1042876010098 substrate binding site [chemical binding]; other site 1042876010099 catalytic base [active] 1042876010100 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1042876010101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010102 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 1042876010103 substrate binding pocket [chemical binding]; other site 1042876010104 dimerization interface [polypeptide binding]; other site 1042876010105 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 1042876010106 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1042876010107 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876010108 catalytic residue [active] 1042876010109 RES domain; Region: RES; pfam08808 1042876010110 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1042876010111 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1042876010112 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1042876010113 FMN binding site [chemical binding]; other site 1042876010114 dimer interface [polypeptide binding]; other site 1042876010115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876010116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010117 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 1042876010118 putative effector binding pocket; other site 1042876010119 dimerization interface [polypeptide binding]; other site 1042876010120 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876010121 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876010122 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876010123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876010124 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1042876010125 putative arabinose transporter; Provisional; Region: PRK03545 1042876010126 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876010127 putative substrate translocation pore; other site 1042876010128 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1042876010129 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1042876010130 putative NAD(P) binding site [chemical binding]; other site 1042876010131 putative substrate binding site [chemical binding]; other site 1042876010132 catalytic Zn binding site [ion binding]; other site 1042876010133 structural Zn binding site [ion binding]; other site 1042876010134 dimer interface [polypeptide binding]; other site 1042876010135 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1042876010136 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876010137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876010138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876010139 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1042876010140 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1042876010141 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1042876010142 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1042876010143 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042876010144 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1042876010145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876010146 Coenzyme A binding pocket [chemical binding]; other site 1042876010147 serine/threonine transporter SstT; Provisional; Region: PRK13628 1042876010148 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876010149 Protein of unknown function, DUF480; Region: DUF480; pfam04337 1042876010150 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1042876010151 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 1042876010152 catalytic residue [active] 1042876010153 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 1042876010154 catalytic residues [active] 1042876010155 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876010156 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876010157 peroxiredoxin; Region: AhpC; TIGR03137 1042876010158 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 1042876010159 dimer interface [polypeptide binding]; other site 1042876010160 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042876010161 catalytic triad [active] 1042876010162 peroxidatic and resolving cysteines [active] 1042876010163 glutathione reductase; Validated; Region: PRK06116 1042876010164 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876010165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876010166 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876010167 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1042876010168 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1042876010169 active site 1042876010170 tetramer interface; other site 1042876010171 Cytochrome c [Energy production and conversion]; Region: COG3258 1042876010172 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876010173 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1042876010174 Cytochrome c; Region: Cytochrom_C; cl11414 1042876010175 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1042876010176 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1042876010177 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 1042876010178 FMN binding site [chemical binding]; other site 1042876010179 substrate binding site [chemical binding]; other site 1042876010180 putative catalytic residue [active] 1042876010181 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876010182 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 1042876010183 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042876010184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010185 dimer interface [polypeptide binding]; other site 1042876010186 conserved gate region; other site 1042876010187 putative PBP binding loops; other site 1042876010188 ABC-ATPase subunit interface; other site 1042876010189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876010190 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1042876010191 Walker A/P-loop; other site 1042876010192 ATP binding site [chemical binding]; other site 1042876010193 Q-loop/lid; other site 1042876010194 ABC transporter signature motif; other site 1042876010195 Walker B; other site 1042876010196 D-loop; other site 1042876010197 H-loop/switch region; other site 1042876010198 TOBE domain; Region: TOBE; cl01440 1042876010199 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1042876010200 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 1042876010201 active site 1042876010202 DNA binding site [nucleotide binding] 1042876010203 Int/Topo IB signature motif; other site 1042876010204 catalytic residues [active] 1042876010205 carbon storage regulator; Provisional; Region: PRK01712 1042876010206 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876010207 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876010208 active site 1042876010209 phosphorylation site [posttranslational modification] 1042876010210 intermolecular recognition site; other site 1042876010211 dimerization interface [polypeptide binding]; other site 1042876010212 circadian clock protein KaiC; Reviewed; Region: PRK09302 1042876010213 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 1042876010214 Walker A motif; other site 1042876010215 ATP binding site [chemical binding]; other site 1042876010216 Walker B motif; other site 1042876010217 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 1042876010218 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 1042876010219 Walker A motif; other site 1042876010220 Walker A motif; other site 1042876010221 ATP binding site [chemical binding]; other site 1042876010222 Walker B motif; other site 1042876010223 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 1042876010224 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1042876010225 putative active site [active] 1042876010226 heme pocket [chemical binding]; other site 1042876010227 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 1042876010228 dimer interface [polypeptide binding]; other site 1042876010229 phosphorylation site [posttranslational modification] 1042876010230 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876010231 ATP binding site [chemical binding]; other site 1042876010232 Mg2+ binding site [ion binding]; other site 1042876010233 G-X-G motif; other site 1042876010234 Predicted membrane protein [Function unknown]; Region: COG2259 1042876010235 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1042876010236 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1042876010237 NAD binding site [chemical binding]; other site 1042876010238 substrate binding site [chemical binding]; other site 1042876010239 catalytic Zn binding site [ion binding]; other site 1042876010240 tetramer interface [polypeptide binding]; other site 1042876010241 structural Zn binding site [ion binding]; other site 1042876010242 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 1042876010243 active site 1042876010244 catalytic residues [active] 1042876010245 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876010246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010247 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 1042876010248 dimerization interface [polypeptide binding]; other site 1042876010249 substrate binding pocket [chemical binding]; other site 1042876010250 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1042876010251 oxidoreductase; Provisional; Region: PRK12743 1042876010252 putative NAD(P) binding site [chemical binding]; other site 1042876010253 putative active site [active] 1042876010254 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1042876010255 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1042876010256 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 1042876010257 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876010258 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 1042876010259 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 1042876010260 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 1042876010261 active site 1042876010262 DNA binding site [nucleotide binding] 1042876010263 Int/Topo IB signature motif; other site 1042876010264 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1042876010265 putative inner membrane peptidase; Provisional; Region: PRK11778 1042876010266 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1042876010267 tandem repeat interface [polypeptide binding]; other site 1042876010268 oligomer interface [polypeptide binding]; other site 1042876010269 active site residues [active] 1042876010270 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 1042876010271 catalytic core [active] 1042876010272 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1042876010273 Phosphotransferase enzyme family; Region: APH; pfam01636 1042876010274 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 1042876010275 putative active site [active] 1042876010276 putative substrate binding site [chemical binding]; other site 1042876010277 ATP binding site [chemical binding]; other site 1042876010278 classical (c) SDRs; Region: SDR_c; cd05233 1042876010279 active site 1042876010280 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876010281 S-adenosylmethionine binding site [chemical binding]; other site 1042876010282 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 1042876010283 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 1042876010284 transmembrane helices; other site 1042876010285 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1042876010286 TrkA-C domain; Region: TrkA_C; pfam02080 1042876010287 TrkA-C domain; Region: TrkA_C; pfam02080 1042876010288 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 1042876010289 transmembrane helices; other site 1042876010290 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876010291 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876010292 metal binding site [ion binding]; metal-binding site 1042876010293 active site 1042876010294 I-site; other site 1042876010295 hypothetical protein; Provisional; Region: PRK10621 1042876010296 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876010297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876010298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010299 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 1042876010300 putative effector binding pocket; other site 1042876010301 dimerization interface [polypeptide binding]; other site 1042876010302 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876010303 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 1042876010304 catalytic triad [active] 1042876010305 conserved cis-peptide bond; other site 1042876010306 SIR2 superfamily 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; cl00195 1042876010307 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1042876010308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042876010309 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876010310 S-adenosylmethionine binding site [chemical binding]; other site 1042876010311 UPF0489 domain; Region: UPF0489; pfam12640 1042876010312 radical SAM/SPASM domain, FxsB family; Region: SAM_SPASM_FxsB; TIGR04269 1042876010313 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 1042876010314 FeS/SAM binding site; other site 1042876010315 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1042876010316 HEXXH motif domain; Region: mod_HExxH; TIGR04267 1042876010317 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 1042876010318 dimerization interface [polypeptide binding]; other site 1042876010319 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876010320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876010321 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876010322 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876010323 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876010324 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876010325 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1042876010326 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1042876010327 putative active site [active] 1042876010328 putative metal-binding site [ion binding]; other site 1042876010329 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 1042876010330 Part of AAA domain; Region: AAA_19; pfam13245 1042876010331 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1042876010332 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876010333 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042876010334 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876010335 putative active site [active] 1042876010336 putative NTP binding site [chemical binding]; other site 1042876010337 putative nucleic acid binding site [nucleotide binding]; other site 1042876010338 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042876010339 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876010340 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876010341 putative amidase; Provisional; Region: PRK06169 1042876010342 Amidase; Region: Amidase; pfam01425 1042876010343 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042876010344 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 1042876010345 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042876010346 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 1042876010347 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876010348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876010349 NAD(P) binding site [chemical binding]; other site 1042876010350 active site 1042876010351 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876010352 putative substrate translocation pore; other site 1042876010353 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876010354 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 1042876010355 glyoxylate carboligase; Provisional; Region: PRK11269 1042876010356 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876010357 TPP binding site [chemical binding]; other site 1042876010358 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876010359 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 1042876010360 TPP-binding site [chemical binding]; other site 1042876010361 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1042876010362 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1042876010363 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876010364 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1042876010365 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876010366 DNA-binding site [nucleotide binding]; DNA binding site 1042876010367 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876010368 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1042876010369 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876010370 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1042876010371 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1042876010372 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 1042876010373 Cysteine-rich domain; Region: CCG; pfam02754 1042876010374 Cysteine-rich domain; Region: CCG; pfam02754 1042876010375 Domain of unknown function (DUF336); Region: DUF336; cl01249 1042876010376 malate synthase G; Provisional; Region: PRK02999 1042876010377 active site 1042876010378 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1042876010379 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876010380 putative transposase OrfB; Reviewed; Region: PHA02517 1042876010381 HTH-like domain; Region: HTH_21; pfam13276 1042876010382 Integrase core domain; Region: rve; pfam00665 1042876010383 Integrase core domain; Region: rve_2; pfam13333 1042876010384 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876010385 Transposase; Region: HTH_Tnp_1; pfam01527 1042876010386 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876010387 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_family; cd02803 1042876010388 active site 1042876010389 FMN binding site [chemical binding]; other site 1042876010390 substrate binding site [chemical binding]; other site 1042876010391 putative catalytic residue [active] 1042876010392 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 1042876010393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876010394 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1042876010395 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042876010396 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876010397 classical (c) SDRs; Region: SDR_c; cd05233 1042876010398 NAD(P) binding site [chemical binding]; other site 1042876010399 active site 1042876010400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876010401 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042876010402 NAD(P) binding site [chemical binding]; other site 1042876010403 active site 1042876010404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876010405 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1042876010406 active site 1042876010407 tetramer interface [polypeptide binding]; other site 1042876010408 hypothetical protein; Provisional; Region: PRK06102 1042876010409 Amidase; Region: Amidase; cl11426 1042876010410 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876010411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876010412 DNA-binding site [nucleotide binding]; DNA binding site 1042876010413 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876010414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876010415 DNA-binding site [nucleotide binding]; DNA binding site 1042876010416 FCD domain; Region: FCD; pfam07729 1042876010417 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042876010418 Q-loop/lid; other site 1042876010419 ABC transporter signature motif; other site 1042876010420 Walker B; other site 1042876010421 D-loop; other site 1042876010422 H-loop/switch region; other site 1042876010423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876010424 ABC transporter signature motif; other site 1042876010425 Walker B; other site 1042876010426 D-loop; other site 1042876010427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876010428 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876010429 Integrase core domain; Region: rve; pfam00665 1042876010430 transposase/IS protein; Provisional; Region: PRK09183 1042876010431 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876010432 Walker A motif; other site 1042876010433 ATP binding site [chemical binding]; other site 1042876010434 Walker B motif; other site 1042876010435 arginine finger; other site 1042876010436 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042876010437 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1042876010438 active site 1042876010439 catalytic residues [active] 1042876010440 DNA binding site [nucleotide binding] 1042876010441 Int/Topo IB signature motif; other site 1042876010442 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1042876010443 YccA-like proteins; Region: YccA_like; cd10433 1042876010444 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1042876010445 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1042876010446 sulfur relay protein TusC; Validated; Region: PRK00211 1042876010447 DsrH like protein; Region: DsrH; cl17347 1042876010448 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1042876010449 hypothetical protein; Validated; Region: PRK09071 1042876010450 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1042876010451 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1042876010452 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1042876010453 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1042876010454 putative dimer interface [polypeptide binding]; other site 1042876010455 N-terminal domain interface [polypeptide binding]; other site 1042876010456 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876010457 siroheme synthase; Provisional; Region: cysG; PRK10637 1042876010458 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1042876010459 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1042876010460 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1042876010461 active site 1042876010462 SAM binding site [chemical binding]; other site 1042876010463 homodimer interface [polypeptide binding]; other site 1042876010464 seryl-tRNA synthetase; Provisional; Region: PRK05431 1042876010465 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1042876010466 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 1042876010467 dimer interface [polypeptide binding]; other site 1042876010468 active site 1042876010469 motif 1; other site 1042876010470 motif 2; other site 1042876010471 motif 3; other site 1042876010472 camphor resistance protein CrcB; Provisional; Region: PRK14234 1042876010473 recombination factor protein RarA; Reviewed; Region: PRK13342 1042876010474 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876010475 Walker A motif; other site 1042876010476 ATP binding site [chemical binding]; other site 1042876010477 Walker B motif; other site 1042876010478 arginine finger; other site 1042876010479 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1042876010480 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1042876010481 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1042876010482 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1042876010483 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1042876010484 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1042876010485 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1042876010486 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1042876010487 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1042876010488 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1042876010489 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1042876010490 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 1042876010491 rRNA binding site [nucleotide binding]; other site 1042876010492 predicted 30S ribosome binding site; other site 1042876010493 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1042876010494 Clp amino terminal domain; Region: Clp_N; pfam02861 1042876010495 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876010496 Walker A motif; other site 1042876010497 ATP binding site [chemical binding]; other site 1042876010498 Walker B motif; other site 1042876010499 arginine finger; other site 1042876010500 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876010501 Walker A motif; other site 1042876010502 ATP binding site [chemical binding]; other site 1042876010503 Walker B motif; other site 1042876010504 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1042876010505 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1042876010506 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 1042876010507 DNA-binding site [nucleotide binding]; DNA binding site 1042876010508 RNA-binding motif; other site 1042876010509 isocitrate dehydrogenase; Validated; Region: PRK07362 1042876010510 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1042876010511 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1042876010512 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1042876010513 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 1042876010514 nudix motif; other site 1042876010515 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1042876010516 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 1042876010517 putative lysogenization regulator; Reviewed; Region: PRK00218 1042876010518 adenylosuccinate lyase; Provisional; Region: PRK09285 1042876010519 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1042876010520 tetramer interface [polypeptide binding]; other site 1042876010521 active site 1042876010522 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1042876010523 Cupin domain; Region: Cupin_2; cl17218 1042876010524 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042876010525 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876010526 Coenzyme A binding pocket [chemical binding]; other site 1042876010527 DNA topoisomerase III; Provisional; Region: PRK07726 1042876010528 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 1042876010529 active site 1042876010530 putative interdomain interaction site [polypeptide binding]; other site 1042876010531 putative metal-binding site [ion binding]; other site 1042876010532 putative nucleotide binding site [chemical binding]; other site 1042876010533 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 1042876010534 domain I; other site 1042876010535 DNA binding groove [nucleotide binding] 1042876010536 phosphate binding site [ion binding]; other site 1042876010537 domain II; other site 1042876010538 domain III; other site 1042876010539 nucleotide binding site [chemical binding]; other site 1042876010540 catalytic site [active] 1042876010541 domain IV; other site 1042876010542 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876010543 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876010544 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876010545 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876010546 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876010547 hypothetical protein; Provisional; Region: PRK10621 1042876010548 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876010549 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1042876010550 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1042876010551 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1042876010552 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 1042876010553 putative NADH binding site [chemical binding]; other site 1042876010554 putative active site [active] 1042876010555 nudix motif; other site 1042876010556 putative metal binding site [ion binding]; other site 1042876010557 enoyl-CoA hydratase; Provisional; Region: PRK06142 1042876010558 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 1042876010559 substrate binding site [chemical binding]; other site 1042876010560 oxyanion hole (OAH) forming residues; other site 1042876010561 trimer interface [polypeptide binding]; other site 1042876010562 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1042876010563 RibD C-terminal domain; Region: RibD_C; cl17279 1042876010564 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1042876010565 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1042876010566 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1042876010567 allantoate amidohydrolase; Reviewed; Region: PRK12893 1042876010568 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1042876010569 active site 1042876010570 metal binding site [ion binding]; metal-binding site 1042876010571 dimer interface [polypeptide binding]; other site 1042876010572 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 1042876010573 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876010574 Na binding site [ion binding]; other site 1042876010575 putative substrate binding site [chemical binding]; other site 1042876010576 phenylhydantoinase; Validated; Region: PRK08323 1042876010577 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 1042876010578 tetramer interface [polypeptide binding]; other site 1042876010579 active site 1042876010580 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1042876010581 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 1042876010582 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876010583 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1042876010584 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 1042876010585 homodimer interface [polypeptide binding]; other site 1042876010586 active site 1042876010587 FMN binding site [chemical binding]; other site 1042876010588 substrate binding site [chemical binding]; other site 1042876010589 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 1042876010590 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1042876010591 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876010592 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1042876010593 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876010594 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 1042876010595 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 1042876010596 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1042876010597 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 1042876010598 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042876010599 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042876010600 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 1042876010601 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876010602 PAAR motif; Region: PAAR_motif; pfam05488 1042876010603 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 1042876010604 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1042876010605 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 1042876010606 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 1042876010607 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1042876010608 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1042876010609 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1042876010610 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1042876010611 glycogen synthase; Provisional; Region: glgA; PRK00654 1042876010612 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 1042876010613 ADP-binding pocket [chemical binding]; other site 1042876010614 homodimer interface [polypeptide binding]; other site 1042876010615 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 1042876010616 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1042876010617 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1042876010618 catalytic site [active] 1042876010619 active site 1042876010620 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1042876010621 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1042876010622 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1042876010623 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1042876010624 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1042876010625 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1042876010626 active site 1042876010627 catalytic site [active] 1042876010628 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1042876010629 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1042876010630 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 1042876010631 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1042876010632 active site 1042876010633 catalytic site [active] 1042876010634 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1042876010635 putative catalytic site [active] 1042876010636 putative metal binding site [ion binding]; other site 1042876010637 putative phosphate binding site [ion binding]; other site 1042876010638 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1042876010639 glycogen branching enzyme; Provisional; Region: PRK05402 1042876010640 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1042876010641 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1042876010642 active site 1042876010643 catalytic site [active] 1042876010644 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1042876010645 trehalose synthase; Region: treS_nterm; TIGR02456 1042876010646 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1042876010647 active site 1042876010648 catalytic site [active] 1042876010649 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1042876010650 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1042876010651 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1042876010652 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1042876010653 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1042876010654 active site 1042876010655 homodimer interface [polypeptide binding]; other site 1042876010656 catalytic site [active] 1042876010657 acceptor binding site [chemical binding]; other site 1042876010658 AMP-binding domain protein; Validated; Region: PRK08315 1042876010659 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1042876010660 acyl-activating enzyme (AAE) consensus motif; other site 1042876010661 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 1042876010662 acyl-activating enzyme (AAE) consensus motif; other site 1042876010663 putative AMP binding site [chemical binding]; other site 1042876010664 putative active site [active] 1042876010665 putative CoA binding site [chemical binding]; other site 1042876010666 isovaleryl-CoA dehydrogenase; Region: PLN02519 1042876010667 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1042876010668 substrate binding site [chemical binding]; other site 1042876010669 FAD binding site [chemical binding]; other site 1042876010670 catalytic base [active] 1042876010671 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1042876010672 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1042876010673 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1042876010674 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1042876010675 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 1042876010676 substrate binding site [chemical binding]; other site 1042876010677 oxyanion hole (OAH) forming residues; other site 1042876010678 trimer interface [polypeptide binding]; other site 1042876010679 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1042876010680 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042876010681 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042876010682 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042876010683 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 1042876010684 carboxyltransferase (CT) interaction site; other site 1042876010685 biotinylation site [posttranslational modification]; other site 1042876010686 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1042876010687 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 1042876010688 non-specific DNA binding site [nucleotide binding]; other site 1042876010689 salt bridge; other site 1042876010690 sequence-specific DNA binding site [nucleotide binding]; other site 1042876010691 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 1042876010692 Catalytic site [active] 1042876010693 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 1042876010694 non-specific DNA binding site [nucleotide binding]; other site 1042876010695 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1042876010696 salt bridge; other site 1042876010697 sequence-specific DNA binding site [nucleotide binding]; other site 1042876010698 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 1042876010699 Catalytic site [active] 1042876010700 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1042876010701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876010702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876010703 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876010704 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010705 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 1042876010706 dimerization interface [polypeptide binding]; other site 1042876010707 substrate binding pocket [chemical binding]; other site 1042876010708 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1042876010709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876010710 NAD(P) binding site [chemical binding]; other site 1042876010711 active site 1042876010712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876010713 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876010714 putative substrate translocation pore; other site 1042876010715 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 1042876010716 TPP-binding site [chemical binding]; other site 1042876010717 dimer interface [polypeptide binding]; other site 1042876010718 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 1042876010719 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 1042876010720 PYR/PP interface [polypeptide binding]; other site 1042876010721 dimer interface [polypeptide binding]; other site 1042876010722 TPP binding site [chemical binding]; other site 1042876010723 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876010724 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876010725 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876010726 Walker A/P-loop; other site 1042876010727 ATP binding site [chemical binding]; other site 1042876010728 Q-loop/lid; other site 1042876010729 ABC transporter signature motif; other site 1042876010730 Walker B; other site 1042876010731 D-loop; other site 1042876010732 H-loop/switch region; other site 1042876010733 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876010734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010735 dimer interface [polypeptide binding]; other site 1042876010736 conserved gate region; other site 1042876010737 putative PBP binding loops; other site 1042876010738 ABC-ATPase subunit interface; other site 1042876010739 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876010740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010741 dimer interface [polypeptide binding]; other site 1042876010742 conserved gate region; other site 1042876010743 putative PBP binding loops; other site 1042876010744 ABC-ATPase subunit interface; other site 1042876010745 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876010746 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 1042876010747 substrate binding pocket [chemical binding]; other site 1042876010748 membrane-bound complex binding site; other site 1042876010749 hinge residues; other site 1042876010750 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876010751 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876010752 DNA-binding site [nucleotide binding]; DNA binding site 1042876010753 FCD domain; Region: FCD; pfam07729 1042876010754 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1042876010755 heme-binding site [chemical binding]; other site 1042876010756 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 1042876010757 PAS fold; Region: PAS_3; pfam08447 1042876010758 putative active site [active] 1042876010759 heme pocket [chemical binding]; other site 1042876010760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876010761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876010762 metal binding site [ion binding]; metal-binding site 1042876010763 active site 1042876010764 I-site; other site 1042876010765 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 1042876010766 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 1042876010767 PAS domain; Region: PAS_9; pfam13426 1042876010768 putative active site [active] 1042876010769 heme pocket [chemical binding]; other site 1042876010770 RHS Repeat; Region: RHS_repeat; cl11982 1042876010771 RHS Repeat; Region: RHS_repeat; cl11982 1042876010772 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1042876010773 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1042876010774 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1042876010775 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1042876010776 GIY-YIG motif/motif A; other site 1042876010777 active site 1042876010778 catalytic site [active] 1042876010779 putative DNA binding site [nucleotide binding]; other site 1042876010780 metal binding site [ion binding]; metal-binding site 1042876010781 UvrB/uvrC motif; Region: UVR; pfam02151 1042876010782 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1042876010783 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 1042876010784 DNA binding site [nucleotide binding] 1042876010785 response regulator; Provisional; Region: PRK09483 1042876010786 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876010787 active site 1042876010788 phosphorylation site [posttranslational modification] 1042876010789 intermolecular recognition site; other site 1042876010790 dimerization interface [polypeptide binding]; other site 1042876010791 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 1042876010792 DNA binding residues [nucleotide binding] 1042876010793 dimerization interface [polypeptide binding]; other site 1042876010794 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 1042876010795 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 1042876010796 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876010797 Coenzyme A binding pocket [chemical binding]; other site 1042876010798 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1042876010799 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042876010800 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042876010801 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876010802 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 1042876010803 C-terminal domain interface [polypeptide binding]; other site 1042876010804 GSH binding site (G-site) [chemical binding]; other site 1042876010805 dimer interface [polypeptide binding]; other site 1042876010806 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1042876010807 dimer interface [polypeptide binding]; other site 1042876010808 N-terminal domain interface [polypeptide binding]; other site 1042876010809 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 1042876010810 CoenzymeA binding site [chemical binding]; other site 1042876010811 subunit interaction site [polypeptide binding]; other site 1042876010812 PHB binding site; other site 1042876010813 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876010814 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876010815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010816 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 1042876010817 dimerization interface [polypeptide binding]; other site 1042876010818 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1042876010819 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 1042876010820 inhibitor-cofactor binding pocket; inhibition site 1042876010821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876010822 catalytic residue [active] 1042876010823 elongation factor G; Reviewed; Region: PRK00007 1042876010824 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1042876010825 G1 box; other site 1042876010826 putative GEF interaction site [polypeptide binding]; other site 1042876010827 GTP/Mg2+ binding site [chemical binding]; other site 1042876010828 Switch I region; other site 1042876010829 G2 box; other site 1042876010830 G3 box; other site 1042876010831 Switch II region; other site 1042876010832 G4 box; other site 1042876010833 G5 box; other site 1042876010834 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 1042876010835 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 1042876010836 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 1042876010837 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042876010838 isocitrate lyase; Provisional; Region: PRK15063 1042876010839 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 1042876010840 tetramer interface [polypeptide binding]; other site 1042876010841 active site 1042876010842 Mg2+/Mn2+ binding site [ion binding]; other site 1042876010843 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876010844 YhhN-like protein; Region: YhhN; pfam07947 1042876010845 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1042876010846 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1042876010847 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1042876010848 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1042876010849 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1042876010850 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1042876010851 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 1042876010852 putative dimer interface [polypeptide binding]; other site 1042876010853 [2Fe-2S] cluster binding site [ion binding]; other site 1042876010854 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1042876010855 SLBB domain; Region: SLBB; pfam10531 1042876010856 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1042876010857 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1042876010858 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 1042876010859 catalytic loop [active] 1042876010860 iron binding site [ion binding]; other site 1042876010861 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1042876010862 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 1042876010863 [4Fe-4S] binding site [ion binding]; other site 1042876010864 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 1042876010865 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1042876010866 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1042876010867 4Fe-4S binding domain; Region: Fer4; pfam00037 1042876010868 4Fe-4S binding domain; Region: Fer4; pfam00037 1042876010869 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1042876010870 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1042876010871 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1042876010872 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1042876010873 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1042876010874 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042876010875 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1042876010876 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042876010877 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1042876010878 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1042876010879 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1042876010880 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1042876010881 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 1042876010882 dimerization interface [polypeptide binding]; other site 1042876010883 DNA binding residues [nucleotide binding] 1042876010884 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042876010885 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 1042876010886 Predicted flavoprotein [General function prediction only]; Region: COG0431 1042876010887 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876010888 arginine decarboxylase; Provisional; Region: PRK15029 1042876010889 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1042876010890 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 1042876010891 homodimer interface [polypeptide binding]; other site 1042876010892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876010893 catalytic residue [active] 1042876010894 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1042876010895 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 1042876010896 active site 1042876010897 catalytic site [active] 1042876010898 substrate binding site [chemical binding]; other site 1042876010899 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1042876010900 RNA/DNA hybrid binding site [nucleotide binding]; other site 1042876010901 active site 1042876010902 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042876010903 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876010904 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1042876010905 MltD lipid attachment motif; Region: MLTD_N; pfam06474 1042876010906 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1042876010907 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 1042876010908 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876010909 catalytic residue [active] 1042876010910 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876010911 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876010912 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1042876010913 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 1042876010914 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1042876010915 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 1042876010916 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1042876010917 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010918 dimer interface [polypeptide binding]; other site 1042876010919 conserved gate region; other site 1042876010920 putative PBP binding loops; other site 1042876010921 ABC-ATPase subunit interface; other site 1042876010922 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1042876010923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876010924 dimer interface [polypeptide binding]; other site 1042876010925 conserved gate region; other site 1042876010926 putative PBP binding loops; other site 1042876010927 ABC-ATPase subunit interface; other site 1042876010928 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1042876010929 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042876010930 Walker A/P-loop; other site 1042876010931 ATP binding site [chemical binding]; other site 1042876010932 Q-loop/lid; other site 1042876010933 ABC transporter signature motif; other site 1042876010934 Walker B; other site 1042876010935 D-loop; other site 1042876010936 H-loop/switch region; other site 1042876010937 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042876010938 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1042876010939 Walker A/P-loop; other site 1042876010940 ATP binding site [chemical binding]; other site 1042876010941 Q-loop/lid; other site 1042876010942 ABC transporter signature motif; other site 1042876010943 Walker B; other site 1042876010944 D-loop; other site 1042876010945 H-loop/switch region; other site 1042876010946 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1042876010947 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876010948 hypothetical protein; Provisional; Region: PRK06149 1042876010949 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 1042876010950 active site 1042876010951 ATP binding site [chemical binding]; other site 1042876010952 substrate binding site [chemical binding]; other site 1042876010953 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 1042876010954 inhibitor-cofactor binding pocket; inhibition site 1042876010955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876010956 catalytic residue [active] 1042876010957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876010958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876010959 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 1042876010960 dimerization interface [polypeptide binding]; other site 1042876010961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876010962 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876010963 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876010964 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1042876010965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876010966 active site 1042876010967 phosphorylation site [posttranslational modification] 1042876010968 intermolecular recognition site; other site 1042876010969 dimerization interface [polypeptide binding]; other site 1042876010970 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 1042876010971 DNA binding site [nucleotide binding] 1042876010972 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1042876010973 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 1042876010974 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 1042876010975 Ligand Binding Site [chemical binding]; other site 1042876010976 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1042876010977 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 1042876010978 dimer interface [polypeptide binding]; other site 1042876010979 phosphorylation site [posttranslational modification] 1042876010980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876010981 ATP binding site [chemical binding]; other site 1042876010982 Mg2+ binding site [ion binding]; other site 1042876010983 G-X-G motif; other site 1042876010984 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1042876010985 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1042876010986 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042876010987 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 1042876010988 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042876010989 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1042876010990 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1042876010991 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042876010992 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876010993 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876010994 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 1042876010995 catalytic core [active] 1042876010996 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1042876010997 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1042876010998 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1042876010999 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1042876011000 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1042876011001 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 1042876011002 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 1042876011003 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 1042876011004 dimerization interface [polypeptide binding]; other site 1042876011005 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 1042876011006 dimer interface [polypeptide binding]; other site 1042876011007 phosphorylation site [posttranslational modification] 1042876011008 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011009 ATP binding site [chemical binding]; other site 1042876011010 Mg2+ binding site [ion binding]; other site 1042876011011 G-X-G motif; other site 1042876011012 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876011013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011014 active site 1042876011015 phosphorylation site [posttranslational modification] 1042876011016 intermolecular recognition site; other site 1042876011017 dimerization interface [polypeptide binding]; other site 1042876011018 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 1042876011019 active site 1 [active] 1042876011020 dimer interface [polypeptide binding]; other site 1042876011021 active site 2 [active] 1042876011022 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1042876011023 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 1042876011024 dimer interface [polypeptide binding]; other site 1042876011025 active site 1042876011026 Amidohydrolase; Region: Amidohydro_2; pfam04909 1042876011027 Pirin-related protein [General function prediction only]; Region: COG1741 1042876011028 Pirin; Region: Pirin; pfam02678 1042876011029 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1042876011030 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042876011031 heat shock protein 90; Provisional; Region: PRK05218 1042876011032 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011033 ATP binding site [chemical binding]; other site 1042876011034 Mg2+ binding site [ion binding]; other site 1042876011035 G-X-G motif; other site 1042876011036 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 1042876011037 CoenzymeA binding site [chemical binding]; other site 1042876011038 subunit interaction site [polypeptide binding]; other site 1042876011039 PHB binding site; other site 1042876011040 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 1042876011041 CoenzymeA binding site [chemical binding]; other site 1042876011042 subunit interaction site [polypeptide binding]; other site 1042876011043 PHB binding site; other site 1042876011044 Predicted membrane protein [Function unknown]; Region: COG3821 1042876011045 putative transposase OrfB; Reviewed; Region: PHA02517 1042876011046 HTH-like domain; Region: HTH_21; pfam13276 1042876011047 Integrase core domain; Region: rve; pfam00665 1042876011048 Integrase core domain; Region: rve_2; pfam13333 1042876011049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876011050 Transposase; Region: HTH_Tnp_1; cl17663 1042876011051 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1042876011052 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1042876011053 CoA binding domain; Region: CoA_binding; pfam02629 1042876011054 CoA-ligase; Region: Ligase_CoA; pfam00549 1042876011055 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1042876011056 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1042876011057 CoA-ligase; Region: Ligase_CoA; pfam00549 1042876011058 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1042876011059 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1042876011060 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876011061 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876011062 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1042876011063 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 1042876011064 E3 interaction surface; other site 1042876011065 lipoyl attachment site [posttranslational modification]; other site 1042876011066 e3 binding domain; Region: E3_binding; pfam02817 1042876011067 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042876011068 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1042876011069 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 1042876011070 TPP-binding site [chemical binding]; other site 1042876011071 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1042876011072 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1042876011073 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042876011074 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1042876011075 L-aspartate oxidase; Provisional; Region: PRK06175 1042876011076 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042876011077 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 1042876011078 SdhC subunit interface [polypeptide binding]; other site 1042876011079 proximal heme binding site [chemical binding]; other site 1042876011080 cardiolipin binding site; other site 1042876011081 Iron-sulfur protein interface; other site 1042876011082 proximal quinone binding site [chemical binding]; other site 1042876011083 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 1042876011084 SdhD (CybS) interface [polypeptide binding]; other site 1042876011085 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 1042876011086 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1042876011087 dimer interface [polypeptide binding]; other site 1042876011088 active site 1042876011089 citrylCoA binding site [chemical binding]; other site 1042876011090 NADH binding [chemical binding]; other site 1042876011091 cationic pore residues; other site 1042876011092 oxalacetate/citrate binding site [chemical binding]; other site 1042876011093 coenzyme A binding site [chemical binding]; other site 1042876011094 catalytic triad [active] 1042876011095 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1042876011096 putative lipid binding site [chemical binding]; other site 1042876011097 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 1042876011098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876011099 DNA-binding site [nucleotide binding]; DNA binding site 1042876011100 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 1042876011101 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876011102 homodimer interface [polypeptide binding]; other site 1042876011103 catalytic residue [active] 1042876011104 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876011105 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876011106 ligand binding site [chemical binding]; other site 1042876011107 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1042876011108 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 1042876011109 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876011110 substrate binding pocket [chemical binding]; other site 1042876011111 membrane-bound complex binding site; other site 1042876011112 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1042876011113 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 1042876011114 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1042876011115 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 1042876011116 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1042876011117 Ligand binding site [chemical binding]; other site 1042876011118 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1042876011119 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876011120 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1042876011121 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876011122 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1042876011123 RNA polymerase sigma factor; Reviewed; Region: PRK12527 1042876011124 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876011125 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 1042876011126 DNA binding residues [nucleotide binding] 1042876011127 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1042876011128 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876011129 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876011130 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1042876011131 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1042876011132 Walker A/P-loop; other site 1042876011133 ATP binding site [chemical binding]; other site 1042876011134 Q-loop/lid; other site 1042876011135 ABC transporter signature motif; other site 1042876011136 Walker B; other site 1042876011137 D-loop; other site 1042876011138 H-loop/switch region; other site 1042876011139 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1042876011140 FtsX-like permease family; Region: FtsX; pfam02687 1042876011141 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876011142 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 1042876011143 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1042876011144 active site 1042876011145 dimer interface [polypeptide binding]; other site 1042876011146 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1042876011147 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 1042876011148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1042876011149 catalytic residue [active] 1042876011150 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1042876011151 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1042876011152 substrate binding pocket [chemical binding]; other site 1042876011153 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1042876011154 Cupin-like domain; Region: Cupin_8; pfam13621 1042876011155 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 1042876011156 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 1042876011157 inhibitor-cofactor binding pocket; inhibition site 1042876011158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876011159 catalytic residue [active] 1042876011160 sensor protein QseC; Provisional; Region: PRK10337 1042876011161 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 1042876011162 dimer interface [polypeptide binding]; other site 1042876011163 phosphorylation site [posttranslational modification] 1042876011164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011165 ATP binding site [chemical binding]; other site 1042876011166 G-X-G motif; other site 1042876011167 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876011168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011169 active site 1042876011170 phosphorylation site [posttranslational modification] 1042876011171 intermolecular recognition site; other site 1042876011172 dimerization interface [polypeptide binding]; other site 1042876011173 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 1042876011174 DNA binding site [nucleotide binding] 1042876011175 GAD-like domain; Region: GAD-like; pfam08887 1042876011176 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1042876011177 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1042876011178 GAD-like domain; Region: GAD-like; pfam08887 1042876011179 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 1042876011180 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1042876011181 Ligand binding site; other site 1042876011182 metal-binding site 1042876011183 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1042876011184 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042876011185 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042876011186 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876011187 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1042876011188 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876011189 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042876011190 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 1042876011191 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042876011192 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042876011193 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876011194 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876011195 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1042876011196 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1042876011197 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 1042876011198 DsbD alpha interface [polypeptide binding]; other site 1042876011199 catalytic residues [active] 1042876011200 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1042876011201 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 1042876011202 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876011203 catalytic residues [active] 1042876011204 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1042876011205 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 1042876011206 dimerization domain [polypeptide binding]; other site 1042876011207 dimer interface [polypeptide binding]; other site 1042876011208 catalytic residues [active] 1042876011209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876011210 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876011211 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876011212 peptide synthase; Validated; Region: PRK05691 1042876011213 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1042876011214 acyl-activating enzyme (AAE) consensus motif; other site 1042876011215 active site 1042876011216 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876011217 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1042876011218 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876011219 acyl-activating enzyme (AAE) consensus motif; other site 1042876011220 AMP binding site [chemical binding]; other site 1042876011221 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876011222 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1042876011223 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876011224 acyl-activating enzyme (AAE) consensus motif; other site 1042876011225 AMP binding site [chemical binding]; other site 1042876011226 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876011227 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1042876011228 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876011229 acyl-activating enzyme (AAE) consensus motif; other site 1042876011230 AMP binding site [chemical binding]; other site 1042876011231 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876011232 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 1042876011233 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876011234 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 1042876011235 DNA binding residues [nucleotide binding] 1042876011236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1042876011237 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1042876011238 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042876011239 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 1042876011240 substrate binding pocket [chemical binding]; other site 1042876011241 membrane-bound complex binding site; other site 1042876011242 hinge residues; other site 1042876011243 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1042876011244 active site 1042876011245 catalytic site [active] 1042876011246 substrate binding site [chemical binding]; other site 1042876011247 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1042876011248 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1042876011249 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 1042876011250 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1042876011251 Low-spin heme binding site [chemical binding]; other site 1042876011252 Putative water exit pathway; other site 1042876011253 Binuclear center (active site) [active] 1042876011254 Putative proton exit pathway; other site 1042876011255 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1042876011256 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1042876011257 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 1042876011258 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1042876011259 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876011260 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876011261 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 1042876011262 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1042876011263 Putative water exit pathway; other site 1042876011264 Binuclear center (active site) [active] 1042876011265 Putative proton exit pathway; other site 1042876011266 Low-spin heme binding site [chemical binding]; other site 1042876011267 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1042876011268 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1042876011269 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1042876011270 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1042876011271 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876011272 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876011273 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1042876011274 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1042876011275 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1042876011276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1042876011277 FixH; Region: FixH; pfam05751 1042876011278 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1042876011279 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042876011280 Heavy-metal-associated domain; Region: HMA; pfam00403 1042876011281 metal-binding site [ion binding] 1042876011282 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042876011283 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042876011284 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1042876011285 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1042876011286 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1042876011287 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 1042876011288 FeS/SAM binding site; other site 1042876011289 HemN C-terminal domain; Region: HemN_C; pfam06969 1042876011290 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1042876011291 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 1042876011292 ligand binding site [chemical binding]; other site 1042876011293 flexible hinge region; other site 1042876011294 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 1042876011295 putative switch regulator; other site 1042876011296 non-specific DNA interactions [nucleotide binding]; other site 1042876011297 DNA binding site [nucleotide binding] 1042876011298 sequence specific DNA binding site [nucleotide binding]; other site 1042876011299 putative cAMP binding site [chemical binding]; other site 1042876011300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876011301 active site 1042876011302 recombination protein RecR; Reviewed; Region: recR; PRK00076 1042876011303 RecR protein; Region: RecR; pfam02132 1042876011304 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 1042876011305 putative active site [active] 1042876011306 putative metal-binding site [ion binding]; other site 1042876011307 tetramer interface [polypeptide binding]; other site 1042876011308 hypothetical protein; Validated; Region: PRK00153 1042876011309 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1042876011310 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876011311 Walker A motif; other site 1042876011312 ATP binding site [chemical binding]; other site 1042876011313 Walker B motif; other site 1042876011314 arginine finger; other site 1042876011315 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1042876011316 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876011317 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 1042876011318 substrate binding pocket [chemical binding]; other site 1042876011319 membrane-bound complex binding site; other site 1042876011320 hinge residues; other site 1042876011321 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1042876011322 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1042876011323 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1042876011324 DNA binding residues [nucleotide binding] 1042876011325 putative dimer interface [polypeptide binding]; other site 1042876011326 putative metal binding residues [ion binding]; other site 1042876011327 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876011328 Transposase; Region: HTH_Tnp_1; pfam01527 1042876011329 putative transposase OrfB; Reviewed; Region: PHA02517 1042876011330 HTH-like domain; Region: HTH_21; pfam13276 1042876011331 Integrase core domain; Region: rve; pfam00665 1042876011332 Integrase core domain; Region: rve_2; pfam13333 1042876011333 Predicted transcriptional regulator [Transcription]; Region: COG2378 1042876011334 HTH domain; Region: HTH_11; pfam08279 1042876011335 WYL domain; Region: WYL; pfam13280 1042876011336 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876011337 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876011338 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876011339 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 1042876011340 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 1042876011341 active site 1042876011342 Int/Topo IB signature motif; other site 1042876011343 DNA binding site [nucleotide binding] 1042876011344 transposase/IS protein; Provisional; Region: PRK09183 1042876011345 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876011346 Walker A motif; other site 1042876011347 ATP binding site [chemical binding]; other site 1042876011348 Walker B motif; other site 1042876011349 arginine finger; other site 1042876011350 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1042876011351 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1042876011352 catalytic residues [active] 1042876011353 catalytic nucleophile [active] 1042876011354 Presynaptic Site I dimer interface [polypeptide binding]; other site 1042876011355 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1042876011356 Synaptic Flat tetramer interface [polypeptide binding]; other site 1042876011357 Synaptic Site I dimer interface [polypeptide binding]; other site 1042876011358 DNA binding site [nucleotide binding] 1042876011359 Uncharacterized conserved protein [Function unknown]; Region: COG4748 1042876011360 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1042876011361 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876011362 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876011363 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876011364 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1042876011365 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 1042876011366 nucleotide binding pocket [chemical binding]; other site 1042876011367 K-X-D-G motif; other site 1042876011368 catalytic site [active] 1042876011369 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1042876011370 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1042876011371 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1042876011372 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 1042876011373 Dimer interface [polypeptide binding]; other site 1042876011374 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1042876011375 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1042876011376 FtsZ protein binding site [polypeptide binding]; other site 1042876011377 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042876011378 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042876011379 Walker A/P-loop; other site 1042876011380 ATP binding site [chemical binding]; other site 1042876011381 Q-loop/lid; other site 1042876011382 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1042876011383 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1042876011384 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1042876011385 ABC transporter signature motif; other site 1042876011386 Walker B; other site 1042876011387 D-loop; other site 1042876011388 H-loop/switch region; other site 1042876011389 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876011390 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876011391 DNA-binding site [nucleotide binding]; DNA binding site 1042876011392 FCD domain; Region: FCD; pfam07729 1042876011393 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1042876011394 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 1042876011395 catalytic loop [active] 1042876011396 iron binding site [ion binding]; other site 1042876011397 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042876011398 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1042876011399 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1042876011400 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042876011401 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876011402 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1042876011403 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1042876011404 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1042876011405 guanine deaminase; Provisional; Region: PRK09228 1042876011406 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 1042876011407 active site 1042876011408 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 1042876011409 amphipathic channel; other site 1042876011410 Asn-Pro-Ala signature motifs; other site 1042876011411 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876011412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876011413 DNA-binding site [nucleotide binding]; DNA binding site 1042876011414 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876011415 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1042876011416 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1042876011417 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 1042876011418 active site 1042876011419 homotetramer interface [polypeptide binding]; other site 1042876011420 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1042876011421 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1042876011422 active site 1042876011423 catalytic site [active] 1042876011424 tetramer interface [polypeptide binding]; other site 1042876011425 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1042876011426 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1042876011427 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1042876011428 Predicted membrane protein [Function unknown]; Region: COG3748 1042876011429 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1042876011430 Cytochrome c; Region: Cytochrom_C; pfam00034 1042876011431 xanthine permease; Region: pbuX; TIGR03173 1042876011432 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1042876011433 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1042876011434 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1042876011435 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1042876011436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876011437 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1042876011438 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1042876011439 glyoxylate carboligase; Provisional; Region: PRK11269 1042876011440 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876011441 PYR/PP interface [polypeptide binding]; other site 1042876011442 dimer interface [polypeptide binding]; other site 1042876011443 TPP binding site [chemical binding]; other site 1042876011444 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876011445 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 1042876011446 TPP-binding site [chemical binding]; other site 1042876011447 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1042876011448 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1042876011449 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876011450 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1042876011451 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1042876011452 MOFRL family; Region: MOFRL; pfam05161 1042876011453 pyruvate kinase; Provisional; Region: PRK06247 1042876011454 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 1042876011455 domain interfaces; other site 1042876011456 active site 1042876011457 Urea transporter; Region: UT; pfam03253 1042876011458 Ion transport protein; Region: Ion_trans; pfam00520 1042876011459 Ion channel; Region: Ion_trans_2; pfam07885 1042876011460 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 1042876011461 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1042876011462 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876011463 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1042876011464 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876011465 S-adenosylmethionine binding site [chemical binding]; other site 1042876011466 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876011467 EamA-like transporter family; Region: EamA; pfam00892 1042876011468 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876011469 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; cl17220 1042876011470 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876011471 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 1042876011472 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876011473 Na binding site [ion binding]; other site 1042876011474 putative substrate binding site [chemical binding]; other site 1042876011475 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042876011476 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1042876011477 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1042876011478 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1042876011479 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1042876011480 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1042876011481 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1042876011482 NAD binding site [chemical binding]; other site 1042876011483 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1042876011484 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1042876011485 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 1042876011486 binding surface 1042876011487 TPR motif; other site 1042876011488 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1042876011489 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 1042876011490 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876011491 catalytic residues [active] 1042876011492 central insert; other site 1042876011493 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1042876011494 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1042876011495 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1042876011496 heme exporter protein CcmC; Region: ccmC; TIGR01191 1042876011497 heme exporter protein CcmB; Region: ccmB; TIGR01190 1042876011498 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1042876011499 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1042876011500 Walker A/P-loop; other site 1042876011501 ATP binding site [chemical binding]; other site 1042876011502 Q-loop/lid; other site 1042876011503 ABC transporter signature motif; other site 1042876011504 Walker B; other site 1042876011505 D-loop; other site 1042876011506 H-loop/switch region; other site 1042876011507 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1042876011508 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1042876011509 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042876011510 conserved cys residue [active] 1042876011511 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876011512 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011513 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042876011514 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1042876011515 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1042876011516 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 1042876011517 homodimer interface [polypeptide binding]; other site 1042876011518 substrate-cofactor binding pocket; other site 1042876011519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876011520 catalytic residue [active] 1042876011521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876011522 putative substrate translocation pore; other site 1042876011523 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876011524 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1042876011525 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042876011526 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876011527 Coenzyme A binding pocket [chemical binding]; other site 1042876011528 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1042876011529 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1042876011530 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1042876011531 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 1042876011532 putative CheA interaction surface; other site 1042876011533 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 1042876011534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042876011535 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 1042876011536 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 1042876011537 Magnesium ion binding site [ion binding]; other site 1042876011538 flagellar motor protein MotD; Reviewed; Region: PRK09038 1042876011539 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1042876011540 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876011541 ligand binding site [chemical binding]; other site 1042876011542 flagellar motor protein; Reviewed; Region: motC; PRK09109 1042876011543 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1042876011544 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1042876011545 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011546 active site 1042876011547 phosphorylation site [posttranslational modification] 1042876011548 intermolecular recognition site; other site 1042876011549 dimerization interface [polypeptide binding]; other site 1042876011550 CheB methylesterase; Region: CheB_methylest; pfam01339 1042876011551 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 1042876011552 putative binding surface; other site 1042876011553 active site 1042876011554 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1042876011555 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1042876011556 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011557 ATP binding site [chemical binding]; other site 1042876011558 Mg2+ binding site [ion binding]; other site 1042876011559 G-X-G motif; other site 1042876011560 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 1042876011561 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1042876011562 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1042876011563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011564 active site 1042876011565 phosphorylation site [posttranslational modification] 1042876011566 intermolecular recognition site; other site 1042876011567 dimerization interface [polypeptide binding]; other site 1042876011568 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1042876011569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876011570 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1042876011571 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 1042876011572 DNA binding residues [nucleotide binding] 1042876011573 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1042876011574 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 1042876011575 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 1042876011576 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 1042876011577 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1042876011578 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 1042876011579 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1042876011580 FHIPEP family; Region: FHIPEP; pfam00771 1042876011581 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1042876011582 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1042876011583 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1042876011584 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1042876011585 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1042876011586 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1042876011587 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1042876011588 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1042876011589 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1042876011590 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1042876011591 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1042876011592 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1042876011593 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 1042876011594 putative binding surface; other site 1042876011595 active site 1042876011596 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876011597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011598 active site 1042876011599 phosphorylation site [posttranslational modification] 1042876011600 intermolecular recognition site; other site 1042876011601 dimerization interface [polypeptide binding]; other site 1042876011602 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1042876011603 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1042876011604 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 1042876011605 anti sigma factor interaction site; other site 1042876011606 regulatory phosphorylation site [posttranslational modification]; other site 1042876011607 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1042876011608 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1042876011609 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1042876011610 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 1042876011611 Walker A motif/ATP binding site; other site 1042876011612 Walker B motif; other site 1042876011613 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1042876011614 Flagellar assembly protein FliH; Region: FliH; pfam02108 1042876011615 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1042876011616 MgtE intracellular N domain; Region: MgtE_N; cl15244 1042876011617 FliG C-terminal domain; Region: FliG_C; pfam01706 1042876011618 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1042876011619 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1042876011620 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1042876011621 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1042876011622 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876011623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011624 active site 1042876011625 phosphorylation site [posttranslational modification] 1042876011626 intermolecular recognition site; other site 1042876011627 dimerization interface [polypeptide binding]; other site 1042876011628 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876011629 Walker A motif; other site 1042876011630 ATP binding site [chemical binding]; other site 1042876011631 Walker B motif; other site 1042876011632 arginine finger; other site 1042876011633 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1042876011634 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042876011635 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 1042876011636 putative active site [active] 1042876011637 heme pocket [chemical binding]; other site 1042876011638 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 1042876011639 dimer interface [polypeptide binding]; other site 1042876011640 phosphorylation site [posttranslational modification] 1042876011641 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011642 ATP binding site [chemical binding]; other site 1042876011643 Mg2+ binding site [ion binding]; other site 1042876011644 G-X-G motif; other site 1042876011645 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876011646 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1042876011647 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876011648 Walker A motif; other site 1042876011649 ATP binding site [chemical binding]; other site 1042876011650 Walker B motif; other site 1042876011651 arginine finger; other site 1042876011652 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876011653 flagellar protein FliS; Validated; Region: fliS; PRK05685 1042876011654 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1042876011655 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1042876011656 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1042876011657 FlaG protein; Region: FlaG; pfam03646 1042876011658 flagellin; Reviewed; Region: PRK08869 1042876011659 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1042876011660 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1042876011661 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876011662 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876011663 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876011664 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 1042876011665 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1042876011666 dimer interface [polypeptide binding]; other site 1042876011667 active site 1042876011668 CoA binding pocket [chemical binding]; other site 1042876011669 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 1042876011670 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1042876011671 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1042876011672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042876011673 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1042876011674 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1042876011675 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1042876011676 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1042876011677 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1042876011678 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1042876011679 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1042876011680 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1042876011681 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042876011682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042876011683 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1042876011684 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042876011685 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1042876011686 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1042876011687 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042876011688 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1042876011689 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042876011690 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1042876011691 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1042876011692 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1042876011693 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1042876011694 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1042876011695 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1042876011696 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1042876011697 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1042876011698 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1042876011699 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1042876011700 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876011701 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042876011702 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876011703 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011704 active site 1042876011705 phosphorylation site [posttranslational modification] 1042876011706 intermolecular recognition site; other site 1042876011707 dimerization interface [polypeptide binding]; other site 1042876011708 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1042876011709 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1042876011710 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1042876011711 FlgN protein; Region: FlgN; pfam05130 1042876011712 Flagellar regulator YcgR; Region: YcgR; pfam07317 1042876011713 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1042876011714 PilZ domain; Region: PilZ; pfam07238 1042876011715 putative transposase OrfB; Reviewed; Region: PHA02517 1042876011716 HTH-like domain; Region: HTH_21; pfam13276 1042876011717 Integrase core domain; Region: rve; pfam00665 1042876011718 Integrase core domain; Region: rve_3; pfam13683 1042876011719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876011720 Transposase; Region: HTH_Tnp_1; pfam01527 1042876011721 putative MFS family transporter protein; Provisional; Region: PRK03633 1042876011722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876011723 putative substrate translocation pore; other site 1042876011724 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876011725 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042876011726 putative DNA binding site [nucleotide binding]; other site 1042876011727 putative Zn2+ binding site [ion binding]; other site 1042876011728 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876011729 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1042876011730 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1042876011731 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 1042876011732 tetramer interface [polypeptide binding]; other site 1042876011733 TPP-binding site [chemical binding]; other site 1042876011734 heterodimer interface [polypeptide binding]; other site 1042876011735 phosphorylation loop region [posttranslational modification] 1042876011736 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1042876011737 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 1042876011738 alpha subunit interface [polypeptide binding]; other site 1042876011739 TPP binding site [chemical binding]; other site 1042876011740 heterodimer interface [polypeptide binding]; other site 1042876011741 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876011742 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1042876011743 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 1042876011744 E3 interaction surface; other site 1042876011745 lipoyl attachment site [posttranslational modification]; other site 1042876011746 e3 binding domain; Region: E3_binding; pfam02817 1042876011747 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1042876011748 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1042876011749 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876011750 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876011751 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 1042876011752 PAS fold; Region: PAS_3; pfam08447 1042876011753 putative active site [active] 1042876011754 heme pocket [chemical binding]; other site 1042876011755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876011756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876011757 metal binding site [ion binding]; metal-binding site 1042876011758 active site 1042876011759 I-site; other site 1042876011760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876011761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876011762 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 1042876011763 dimerization interface [polypeptide binding]; other site 1042876011764 AzlC protein; Region: AzlC; pfam03591 1042876011765 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1042876011766 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042876011767 Arc-like DNA binding domain; Region: Arc; pfam03869 1042876011768 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1042876011769 MgtE intracellular N domain; Region: MgtE_N; smart00924 1042876011770 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 1042876011771 Divalent cation transporter; Region: MgtE; cl00786 1042876011772 carbon storage regulator; Provisional; Region: PRK01712 1042876011773 aspartate kinase; Reviewed; Region: PRK06635 1042876011774 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 1042876011775 putative nucleotide binding site [chemical binding]; other site 1042876011776 putative catalytic residues [active] 1042876011777 putative Mg ion binding site [ion binding]; other site 1042876011778 putative aspartate binding site [chemical binding]; other site 1042876011779 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 1042876011780 putative allosteric regulatory site; other site 1042876011781 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 1042876011782 putative allosteric regulatory residue; other site 1042876011783 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1042876011784 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 1042876011785 motif 1; other site 1042876011786 active site 1042876011787 motif 2; other site 1042876011788 motif 3; other site 1042876011789 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1042876011790 DHHA1 domain; Region: DHHA1; pfam02272 1042876011791 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1042876011792 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1042876011793 putative active site [active] 1042876011794 Zn binding site [ion binding]; other site 1042876011795 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 1042876011796 succinylarginine dihydrolase; Provisional; Region: PRK13281 1042876011797 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1042876011798 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1042876011799 NAD(P) binding site [chemical binding]; other site 1042876011800 catalytic residues [active] 1042876011801 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1042876011802 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1042876011803 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1042876011804 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 1042876011805 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1042876011806 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 1042876011807 inhibitor-cofactor binding pocket; inhibition site 1042876011808 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876011809 catalytic residue [active] 1042876011810 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876011811 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1042876011812 conserved cys residue [active] 1042876011813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011815 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1042876011816 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876011817 Walker A/P-loop; other site 1042876011818 ATP binding site [chemical binding]; other site 1042876011819 Q-loop/lid; other site 1042876011820 ABC transporter signature motif; other site 1042876011821 Walker B; other site 1042876011822 D-loop; other site 1042876011823 H-loop/switch region; other site 1042876011824 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876011825 dimer interface [polypeptide binding]; other site 1042876011826 conserved gate region; other site 1042876011827 putative PBP binding loops; other site 1042876011828 ABC-ATPase subunit interface; other site 1042876011829 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876011830 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876011831 dimer interface [polypeptide binding]; other site 1042876011832 conserved gate region; other site 1042876011833 putative PBP binding loops; other site 1042876011834 ABC-ATPase subunit interface; other site 1042876011835 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1042876011836 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 1042876011837 substrate binding pocket [chemical binding]; other site 1042876011838 membrane-bound complex binding site; other site 1042876011839 hinge residues; other site 1042876011840 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042876011841 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1042876011842 active site 1042876011843 CoA binding site [chemical binding]; other site 1042876011844 acyl-activating enzyme (AAE) consensus motif; other site 1042876011845 AMP binding site [chemical binding]; other site 1042876011846 acetate binding site [chemical binding]; other site 1042876011847 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876011848 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1042876011849 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1042876011850 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 1042876011851 putative active site [active] 1042876011852 heme pocket [chemical binding]; other site 1042876011853 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876011854 Walker A motif; other site 1042876011855 ATP binding site [chemical binding]; other site 1042876011856 Walker B motif; other site 1042876011857 arginine finger; other site 1042876011858 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 1042876011859 cofactor binding site; other site 1042876011860 metal binding site [ion binding]; metal-binding site 1042876011861 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 1042876011862 aromatic arch; other site 1042876011863 DCoH dimer interaction site [polypeptide binding]; other site 1042876011864 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1042876011865 DCoH tetramer interaction site [polypeptide binding]; other site 1042876011866 substrate binding site [chemical binding]; other site 1042876011867 major facilitator superfamily transporter; Provisional; Region: PRK05122 1042876011868 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876011869 putative substrate translocation pore; other site 1042876011870 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042876011871 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876011872 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042876011873 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876011874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876011875 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 1042876011876 dimerization interface [polypeptide binding]; other site 1042876011877 aromatic amino acid transporter; Provisional; Region: PRK10238 1042876011878 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1042876011879 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1042876011880 putative active site [active] 1042876011881 putative NTP binding site [chemical binding]; other site 1042876011882 putative nucleic acid binding site [nucleotide binding]; other site 1042876011883 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1042876011884 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042876011885 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 1042876011886 RNA binding surface [nucleotide binding]; other site 1042876011887 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1042876011888 probable active site [active] 1042876011889 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1042876011890 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1042876011891 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1042876011892 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1042876011893 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1042876011894 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1042876011895 intracellular septation protein A; Reviewed; Region: PRK00259 1042876011896 YciI-like protein; Reviewed; Region: PRK11370 1042876011897 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876011898 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876011899 active site 1042876011900 phosphorylation site [posttranslational modification] 1042876011901 intermolecular recognition site; other site 1042876011902 dimerization interface [polypeptide binding]; other site 1042876011903 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 1042876011904 DNA binding site [nucleotide binding] 1042876011905 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1042876011906 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876011907 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042876011908 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876011909 ATP binding site [chemical binding]; other site 1042876011910 Mg2+ binding site [ion binding]; other site 1042876011911 G-X-G motif; other site 1042876011912 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 1042876011913 putative FMN binding site [chemical binding]; other site 1042876011914 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1042876011915 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1042876011916 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876011917 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876011918 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011919 Protein of unknown function (DUF962); Region: DUF962; cl01879 1042876011920 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1042876011921 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1042876011922 putative active site [active] 1042876011923 putative metal binding site [ion binding]; other site 1042876011924 Cupin domain; Region: Cupin_2; pfam07883 1042876011925 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011926 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876011927 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876011928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876011929 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876011930 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876011931 EamA-like transporter family; Region: EamA; pfam00892 1042876011932 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1042876011933 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1042876011934 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1042876011935 active site 1042876011936 nucleophile elbow; other site 1042876011937 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1042876011938 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1042876011939 Surface antigen; Region: Bac_surface_Ag; pfam01103 1042876011940 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1042876011941 MarR family; Region: MarR_2; pfam12802 1042876011942 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1042876011943 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 1042876011944 ATP binding site [chemical binding]; other site 1042876011945 putative Mg++ binding site [ion binding]; other site 1042876011946 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 1042876011947 nucleotide binding region [chemical binding]; other site 1042876011948 ATP-binding site [chemical binding]; other site 1042876011949 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1042876011950 HRDC domain; Region: HRDC; pfam00570 1042876011951 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1042876011952 yecA family protein; Region: ygfB_yecA; TIGR02292 1042876011953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1042876011954 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042876011955 DTW domain; Region: DTW; cl01221 1042876011956 PAS domain; Region: PAS_9; pfam13426 1042876011957 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 1042876011958 putative active site [active] 1042876011959 heme pocket [chemical binding]; other site 1042876011960 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1042876011961 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876011962 dimer interface [polypeptide binding]; other site 1042876011963 putative CheW interface [polypeptide binding]; other site 1042876011964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876011965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876011966 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 1042876011967 dimerization interface [polypeptide binding]; other site 1042876011968 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1042876011969 agmatinase; Region: agmatinase; TIGR01230 1042876011970 oligomer interface [polypeptide binding]; other site 1042876011971 putative active site [active] 1042876011972 Mn binding site [ion binding]; other site 1042876011973 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 1042876011974 Na binding site [ion binding]; other site 1042876011975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876011976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876011977 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 1042876011978 putative dimerization interface [polypeptide binding]; other site 1042876011979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876011980 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876011981 EamA-like transporter family; Region: EamA; pfam00892 1042876011982 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1042876011983 helicase 45; Provisional; Region: PTZ00424 1042876011984 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 1042876011985 ATP binding site [chemical binding]; other site 1042876011986 Mg++ binding site [ion binding]; other site 1042876011987 motif III; other site 1042876011988 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 1042876011989 nucleotide binding region [chemical binding]; other site 1042876011990 ATP-binding site [chemical binding]; other site 1042876011991 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042876011992 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876011993 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876011994 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1042876011995 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1042876011996 azoreductase; Reviewed; Region: PRK00170 1042876011997 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876011998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876011999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012000 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1042876012001 dimerization interface [polypeptide binding]; other site 1042876012002 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042876012003 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876012004 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042876012005 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1042876012006 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 1042876012007 substrate binding site [chemical binding]; other site 1042876012008 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1042876012009 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876012010 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1042876012011 Walker A/P-loop; other site 1042876012012 ATP binding site [chemical binding]; other site 1042876012013 Q-loop/lid; other site 1042876012014 ABC transporter signature motif; other site 1042876012015 Walker B; other site 1042876012016 D-loop; other site 1042876012017 H-loop/switch region; other site 1042876012018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1042876012019 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1042876012020 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1042876012021 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 1042876012022 dimer interface [polypeptide binding]; other site 1042876012023 active site 1042876012024 CoA binding pocket [chemical binding]; other site 1042876012025 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 1042876012026 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 1042876012027 ATP binding site [chemical binding]; other site 1042876012028 putative Mg++ binding site [ion binding]; other site 1042876012029 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 1042876012030 nucleotide binding region [chemical binding]; other site 1042876012031 ATP-binding site [chemical binding]; other site 1042876012032 Helicase associated domain (HA2); Region: HA2; pfam04408 1042876012033 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1042876012034 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1042876012035 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876012036 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876012037 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876012038 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876012039 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1042876012040 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1042876012041 acyl-activating enzyme (AAE) consensus motif; other site 1042876012042 putative AMP binding site [chemical binding]; other site 1042876012043 putative active site [active] 1042876012044 putative CoA binding site [chemical binding]; other site 1042876012045 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1042876012046 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1042876012047 acyl-activating enzyme (AAE) consensus motif; other site 1042876012048 putative AMP binding site [chemical binding]; other site 1042876012049 putative active site [active] 1042876012050 putative CoA binding site [chemical binding]; other site 1042876012051 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042876012052 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876012053 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876012054 (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 1042876012055 dimer interaction site [polypeptide binding]; other site 1042876012056 substrate-binding tunnel; other site 1042876012057 active site 1042876012058 catalytic site [active] 1042876012059 substrate binding site [chemical binding]; other site 1042876012060 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1042876012061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876012062 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1042876012063 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 1042876012064 putative hydrophobic ligand binding site [chemical binding]; other site 1042876012065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 1042876012066 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1042876012067 SnoaL-like domain; Region: SnoaL_3; pfam13474 1042876012068 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876012069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876012070 Coenzyme A binding pocket [chemical binding]; other site 1042876012071 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 1042876012072 active site 1042876012073 catalytic residues [active] 1042876012074 metal binding site [ion binding]; metal-binding site 1042876012075 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1042876012076 CsbD-like; Region: CsbD; pfam05532 1042876012077 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1042876012078 S1 domain; Region: S1_2; pfam13509 1042876012079 S1 domain; Region: S1_2; pfam13509 1042876012080 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1042876012081 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1042876012082 EamA-like transporter family; Region: EamA; pfam00892 1042876012083 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 1042876012084 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1042876012085 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1042876012086 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1042876012087 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 1042876012088 N-terminal plug; other site 1042876012089 ligand-binding site [chemical binding]; other site 1042876012090 Condensation domain; Region: Condensation; pfam00668 1042876012091 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012092 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1042876012093 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876012094 acyl-activating enzyme (AAE) consensus motif; other site 1042876012095 AMP binding site [chemical binding]; other site 1042876012096 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876012097 Condensation domain; Region: Condensation; pfam00668 1042876012098 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012099 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1042876012100 Condensation domain; Region: Condensation; pfam00668 1042876012101 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012102 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876012103 acyl-activating enzyme (AAE) consensus motif; other site 1042876012104 AMP binding site [chemical binding]; other site 1042876012105 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876012106 Condensation domain; Region: Condensation; pfam00668 1042876012107 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012108 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1042876012109 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1042876012110 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876012111 acyl-activating enzyme (AAE) consensus motif; other site 1042876012112 AMP binding site [chemical binding]; other site 1042876012113 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876012114 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876012115 Condensation domain; Region: Condensation; pfam00668 1042876012116 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012117 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1042876012118 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876012119 acyl-activating enzyme (AAE) consensus motif; other site 1042876012120 AMP binding site [chemical binding]; other site 1042876012121 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1042876012122 Condensation domain; Region: Condensation; pfam00668 1042876012123 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1042876012124 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1042876012125 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1042876012126 acyl-activating enzyme (AAE) consensus motif; other site 1042876012127 AMP binding site [chemical binding]; other site 1042876012128 PAAR motif; Region: PAAR_motif; pfam05488 1042876012129 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876012130 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 1042876012131 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1042876012132 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 1042876012133 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876012134 hypothetical protein; Region: PHA02096 1042876012135 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1042876012136 Walker A/P-loop; other site 1042876012137 ATP binding site [chemical binding]; other site 1042876012138 Q-loop/lid; other site 1042876012139 ABC transporter signature motif; other site 1042876012140 Walker B; other site 1042876012141 D-loop; other site 1042876012142 H-loop/switch region; other site 1042876012143 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 1042876012144 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1042876012145 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 1042876012146 dimer interface [polypeptide binding]; other site 1042876012147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876012148 catalytic residue [active] 1042876012149 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042876012150 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876012151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012152 Walker A motif; other site 1042876012153 ATP binding site [chemical binding]; other site 1042876012154 Walker B motif; other site 1042876012155 arginine finger; other site 1042876012156 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1042876012157 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1042876012158 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1042876012159 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1042876012160 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1042876012161 putative active site [active] 1042876012162 benzoate transport; Region: 2A0115; TIGR00895 1042876012163 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876012164 putative substrate translocation pore; other site 1042876012165 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876012166 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012167 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 1042876012168 dimerization interface [polypeptide binding]; other site 1042876012169 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1042876012170 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1042876012171 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 1042876012172 putative active site [active] 1042876012173 putative dimer interface [polypeptide binding]; other site 1042876012174 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1042876012175 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876012176 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 1042876012177 active site 1042876012178 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1042876012179 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1042876012180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876012181 Transposase; Region: HTH_Tnp_1; cl17663 1042876012182 putative transposase OrfB; Reviewed; Region: PHA02517 1042876012183 HTH-like domain; Region: HTH_21; pfam13276 1042876012184 Integrase core domain; Region: rve; pfam00665 1042876012185 Integrase core domain; Region: rve_2; pfam13333 1042876012186 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1042876012187 hypothetical protein; Provisional; Region: PRK05170 1042876012188 Nitroreductase-like family 2. 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_2; cd02138 1042876012189 putative FMN binding site [chemical binding]; other site 1042876012190 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 1042876012191 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1042876012192 NAD binding site [chemical binding]; other site 1042876012193 ligand binding site [chemical binding]; other site 1042876012194 catalytic site [active] 1042876012195 YcgL domain; Region: YcgL; pfam05166 1042876012196 ribonuclease D; Region: rnd; TIGR01388 1042876012197 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1042876012198 catalytic site [active] 1042876012199 putative active site [active] 1042876012200 putative substrate binding site [chemical binding]; other site 1042876012201 HRDC domain; Region: HRDC; pfam00570 1042876012202 putative metal dependent hydrolase; Provisional; Region: PRK11598 1042876012203 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1042876012204 Sulfatase; Region: Sulfatase; pfam00884 1042876012205 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 1042876012206 putative substrate binding pocket [chemical binding]; other site 1042876012207 trimer interface [polypeptide binding]; other site 1042876012208 Protein of unknown function (DUF465); Region: DUF465; pfam04325 1042876012209 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1042876012210 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 1042876012211 homodimer interface [polypeptide binding]; other site 1042876012212 substrate-cofactor binding pocket; other site 1042876012213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876012214 catalytic residue [active] 1042876012215 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876012216 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 1042876012217 putative DNA binding site [nucleotide binding]; other site 1042876012218 putative Zn2+ binding site [ion binding]; other site 1042876012219 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876012220 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1042876012221 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 1042876012222 putative molybdopterin cofactor binding site [chemical binding]; other site 1042876012223 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 1042876012224 putative molybdopterin cofactor binding site; other site 1042876012225 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1042876012226 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 1042876012227 FeS/SAM binding site; other site 1042876012228 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042876012229 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 1042876012230 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 1042876012231 MPT binding site; other site 1042876012232 trimer interface [polypeptide binding]; other site 1042876012233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876012234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012235 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 1042876012236 dimerization interface [polypeptide binding]; other site 1042876012237 PAS fold; Region: PAS_4; pfam08448 1042876012238 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876012239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876012240 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042876012241 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 1042876012242 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1042876012243 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1042876012244 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1042876012245 inhibitor site; inhibition site 1042876012246 active site 1042876012247 dimer interface [polypeptide binding]; other site 1042876012248 catalytic residue [active] 1042876012249 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042876012250 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 1042876012251 dimer interface [polypeptide binding]; other site 1042876012252 NADP binding site [chemical binding]; other site 1042876012253 catalytic residues [active] 1042876012254 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1042876012255 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876012256 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876012257 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876012258 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 1042876012259 active site 1042876012260 FMN binding site [chemical binding]; other site 1042876012261 substrate binding site [chemical binding]; other site 1042876012262 homotetramer interface [polypeptide binding]; other site 1042876012263 catalytic residue [active] 1042876012264 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 1042876012265 dimerization interface [polypeptide binding]; other site 1042876012266 putative DNA binding site [nucleotide binding]; other site 1042876012267 putative Zn2+ binding site [ion binding]; other site 1042876012268 Predicted transcriptional regulator [Transcription]; Region: COG2345 1042876012269 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 1042876012270 putative DNA binding site [nucleotide binding]; other site 1042876012271 putative Zn2+ binding site [ion binding]; other site 1042876012272 malate:quinone oxidoreductase; Validated; Region: PRK05257 1042876012273 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1042876012274 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1042876012275 Proline racemase; Region: Pro_racemase; pfam05544 1042876012276 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 1042876012277 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1042876012278 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1042876012279 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1042876012280 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1042876012281 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1042876012282 ATP binding site [chemical binding]; other site 1042876012283 active site 1042876012284 substrate binding site [chemical binding]; other site 1042876012285 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1042876012286 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1042876012287 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1042876012288 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1042876012289 dimer interface [polypeptide binding]; other site 1042876012290 active site 1042876012291 catalytic residue [active] 1042876012292 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1042876012293 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1042876012294 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1042876012295 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1042876012296 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 1042876012297 catalytic triad [active] 1042876012298 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1042876012299 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1042876012300 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 1042876012301 CPxP motif; other site 1042876012302 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1042876012303 Peptidase family M48; Region: Peptidase_M48; cl12018 1042876012304 quinolinate synthetase; Provisional; Region: PRK09375 1042876012305 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1042876012306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1042876012307 Amino acid permease; Region: AA_permease_2; pfam13520 1042876012308 Cache domain; Region: Cache_1; pfam02743 1042876012309 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 1042876012310 dimerization interface [polypeptide binding]; other site 1042876012311 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876012312 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876012313 dimer interface [polypeptide binding]; other site 1042876012314 putative CheW interface [polypeptide binding]; other site 1042876012315 Cation efflux family; Region: Cation_efflux; cl00316 1042876012316 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 1042876012317 Ligand Binding Site [chemical binding]; other site 1042876012318 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1042876012319 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1042876012320 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 1042876012321 binding surface 1042876012322 TPR motif; other site 1042876012323 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876012324 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876012325 ligand binding site [chemical binding]; other site 1042876012326 translocation protein TolB; Provisional; Region: tolB; PRK00178 1042876012327 TolB amino-terminal domain; Region: TolB_N; pfam04052 1042876012328 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042876012329 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042876012330 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1042876012331 TolA protein; Region: tolA_full; TIGR02794 1042876012332 TolA protein; Region: tolA_full; TIGR02794 1042876012333 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1042876012334 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042876012335 TolR protein; Region: tolR; TIGR02801 1042876012336 TolQ protein; Region: tolQ; TIGR02796 1042876012337 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 1042876012338 active site 1042876012339 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1042876012340 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012341 Walker A motif; other site 1042876012342 ATP binding site [chemical binding]; other site 1042876012343 Walker B motif; other site 1042876012344 arginine finger; other site 1042876012345 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1042876012346 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1042876012347 RuvA N terminal domain; Region: RuvA_N; pfam01330 1042876012348 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1042876012349 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 1042876012350 active site 1042876012351 putative DNA-binding cleft [nucleotide binding]; other site 1042876012352 dimer interface [polypeptide binding]; other site 1042876012353 hypothetical protein; Validated; Region: PRK00110 1042876012354 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1042876012355 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 1042876012356 dimer interface [polypeptide binding]; other site 1042876012357 anticodon binding site; other site 1042876012358 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 1042876012359 homodimer interface [polypeptide binding]; other site 1042876012360 motif 1; other site 1042876012361 active site 1042876012362 motif 2; other site 1042876012363 GAD domain; Region: GAD; pfam02938 1042876012364 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 1042876012365 active site 1042876012366 motif 3; other site 1042876012367 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 1042876012368 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1042876012369 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1042876012370 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1042876012371 dimerization interface [polypeptide binding]; other site 1042876012372 DPS ferroxidase diiron center [ion binding]; other site 1042876012373 ion pore; other site 1042876012374 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 1042876012375 DNA-binding site [nucleotide binding]; DNA binding site 1042876012376 RNA-binding motif; other site 1042876012377 hypothetical protein; Provisional; Region: PRK00295 1042876012378 HIT domain; Region: HIT; pfam01230 1042876012379 nucleotide binding site/active site [active] 1042876012380 HIT family signature motif; other site 1042876012381 catalytic residue [active] 1042876012382 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876012383 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1042876012384 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 1042876012385 dimer interface [polypeptide binding]; other site 1042876012386 motif 1; other site 1042876012387 active site 1042876012388 motif 2; other site 1042876012389 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 1042876012390 putative deacylase active site [active] 1042876012391 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 1042876012392 active site 1042876012393 motif 3; other site 1042876012394 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 1042876012395 anticodon binding site; other site 1042876012396 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1042876012397 active site 1042876012398 DNA polymerase IV; Validated; Region: PRK02406 1042876012399 DNA binding site [nucleotide binding] 1042876012400 Predicted integral membrane protein [Function unknown]; Region: COG0392 1042876012401 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1042876012402 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1042876012403 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1042876012404 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1042876012405 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1042876012406 potassium uptake protein; Region: kup; TIGR00794 1042876012407 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1042876012408 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1042876012409 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 1042876012410 FeS/SAM binding site; other site 1042876012411 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1042876012412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876012413 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1042876012414 Coenzyme A binding pocket [chemical binding]; other site 1042876012415 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1042876012416 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 1042876012417 RNA binding surface [nucleotide binding]; other site 1042876012418 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 1042876012419 active site 1042876012420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1042876012421 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1042876012422 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1042876012423 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1042876012424 homodimer interaction site [polypeptide binding]; other site 1042876012425 cofactor binding site; other site 1042876012426 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1042876012427 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876012428 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 1042876012429 dimer interface [polypeptide binding]; other site 1042876012430 phosphorylation site [posttranslational modification] 1042876012431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876012432 ATP binding site [chemical binding]; other site 1042876012433 G-X-G motif; other site 1042876012434 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1042876012435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876012436 active site 1042876012437 phosphorylation site [posttranslational modification] 1042876012438 intermolecular recognition site; other site 1042876012439 dimerization interface [polypeptide binding]; other site 1042876012440 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 1042876012441 DNA binding site [nucleotide binding] 1042876012442 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1042876012443 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1042876012444 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876012445 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1042876012446 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1042876012447 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 1042876012448 dimerization interface [polypeptide binding]; other site 1042876012449 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 1042876012450 dimer interface [polypeptide binding]; other site 1042876012451 phosphorylation site [posttranslational modification] 1042876012452 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876012453 ATP binding site [chemical binding]; other site 1042876012454 Mg2+ binding site [ion binding]; other site 1042876012455 G-X-G motif; other site 1042876012456 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876012457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876012458 active site 1042876012459 phosphorylation site [posttranslational modification] 1042876012460 intermolecular recognition site; other site 1042876012461 dimerization interface [polypeptide binding]; other site 1042876012462 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 1042876012463 DNA binding site [nucleotide binding] 1042876012464 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1042876012465 ATP cone domain; Region: ATP-cone; pfam03477 1042876012466 ATP cone domain; Region: ATP-cone; pfam03477 1042876012467 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1042876012468 active site 1042876012469 dimer interface [polypeptide binding]; other site 1042876012470 catalytic residues [active] 1042876012471 effector binding site; other site 1042876012472 R2 peptide binding site; other site 1042876012473 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1042876012474 dimer interface [polypeptide binding]; other site 1042876012475 putative radical transfer pathway; other site 1042876012476 diiron center [ion binding]; other site 1042876012477 tyrosyl radical; other site 1042876012478 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1042876012479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876012480 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876012481 Integrase core domain; Region: rve; pfam00665 1042876012482 transposase/IS protein; Provisional; Region: PRK09183 1042876012483 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012484 Walker A motif; other site 1042876012485 ATP binding site [chemical binding]; other site 1042876012486 Walker B motif; other site 1042876012487 arginine finger; other site 1042876012488 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1042876012489 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 1042876012490 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 1042876012491 homotrimer interaction site [polypeptide binding]; other site 1042876012492 putative active site [active] 1042876012493 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876012494 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1042876012495 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1042876012496 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1042876012497 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1042876012498 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1042876012499 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 1042876012500 binding surface 1042876012501 TPR motif; other site 1042876012502 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1042876012503 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1042876012504 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 1042876012505 catalytic residues [active] 1042876012506 central insert; other site 1042876012507 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1042876012508 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1042876012509 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1042876012510 heme exporter protein CcmC; Region: ccmC; TIGR01191 1042876012511 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876012512 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; cl00220 1042876012513 catalytic triad [active] 1042876012514 conserved cis-peptide bond; other site 1042876012515 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876012516 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1042876012517 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 1042876012518 hypothetical protein; Provisional; Region: PRK07236 1042876012519 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1042876012520 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 1042876012521 dimerization interface [polypeptide binding]; other site 1042876012522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876012523 dimer interface [polypeptide binding]; other site 1042876012524 putative CheW interface [polypeptide binding]; other site 1042876012525 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 1042876012526 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 1042876012527 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1042876012528 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876012529 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876012530 Transposase; Region: HTH_Tnp_1; pfam01527 1042876012531 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876012532 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876012533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876012534 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876012535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876012536 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876012537 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876012538 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1042876012539 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876012540 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1042876012541 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876012542 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876012543 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1042876012544 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1042876012545 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1042876012546 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1042876012547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1042876012548 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876012549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876012550 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876012551 putative substrate translocation pore; other site 1042876012552 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1042876012553 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1042876012554 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1042876012555 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 1042876012556 putative hydrophobic ligand binding site [chemical binding]; other site 1042876012557 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1042876012558 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1042876012559 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1042876012560 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1042876012561 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1042876012562 NAD binding site [chemical binding]; other site 1042876012563 catalytic residues [active] 1042876012564 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1042876012565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876012566 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876012567 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1042876012568 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876012569 Transcriptional regulator; Region: Rrf2; cl17282 1042876012570 DRTGG domain; Region: DRTGG; pfam07085 1042876012571 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1042876012572 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1042876012573 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1042876012574 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1042876012575 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1042876012576 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876012577 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876012578 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876012579 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876012580 Integrase core domain; Region: rve; pfam00665 1042876012581 transposase/IS protein; Provisional; Region: PRK09183 1042876012582 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012583 Walker A motif; other site 1042876012584 ATP binding site [chemical binding]; other site 1042876012585 Walker B motif; other site 1042876012586 arginine finger; other site 1042876012587 BRO family, N-terminal domain; Region: Bro-N; smart01040 1042876012588 transcriptional regulator; Provisional; Region: PRK10632 1042876012589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012590 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 1042876012591 putative effector binding pocket; other site 1042876012592 putative dimerization interface [polypeptide binding]; other site 1042876012593 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042876012594 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1042876012595 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1042876012596 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 1042876012597 FAD binding pocket [chemical binding]; other site 1042876012598 FAD binding motif [chemical binding]; other site 1042876012599 phosphate binding motif [ion binding]; other site 1042876012600 beta-alpha-beta structure motif; other site 1042876012601 NAD binding pocket [chemical binding]; other site 1042876012602 Heme binding pocket [chemical binding]; other site 1042876012603 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 1042876012604 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1042876012605 catalytic loop [active] 1042876012606 iron binding site [ion binding]; other site 1042876012607 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876012608 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 1042876012609 putative C-terminal domain interface [polypeptide binding]; other site 1042876012610 putative GSH binding site (G-site) [chemical binding]; other site 1042876012611 putative dimer interface [polypeptide binding]; other site 1042876012612 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1042876012613 putative N-terminal domain interface [polypeptide binding]; other site 1042876012614 putative dimer interface [polypeptide binding]; other site 1042876012615 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876012616 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 1042876012617 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1042876012618 active site 1042876012619 homodimer interface [polypeptide binding]; other site 1042876012620 homotetramer interface [polypeptide binding]; other site 1042876012621 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042876012622 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_2; cd07580 1042876012623 putative active site [active] 1042876012624 catalytic triad [active] 1042876012625 putative dimer interface [polypeptide binding]; other site 1042876012626 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 1042876012627 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876012628 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 1042876012629 TPP-binding site [chemical binding]; other site 1042876012630 dimer interface [polypeptide binding]; other site 1042876012631 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1042876012632 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1042876012633 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1042876012634 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 1042876012635 MASE2 domain; Region: MASE2; pfam05230 1042876012636 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876012637 metal binding site [ion binding]; metal-binding site 1042876012638 active site 1042876012639 I-site; other site 1042876012640 CHASE4 domain; Region: CHASE4; pfam05228 1042876012641 PAS domain S-box; Region: sensory_box; TIGR00229 1042876012642 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 1042876012643 putative active site [active] 1042876012644 heme pocket [chemical binding]; other site 1042876012645 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876012646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876012647 metal binding site [ion binding]; metal-binding site 1042876012648 active site 1042876012649 I-site; other site 1042876012650 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 1042876012651 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 1042876012652 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876012653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012654 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 1042876012655 putative effector binding pocket; other site 1042876012656 putative dimerization interface [polypeptide binding]; other site 1042876012657 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876012658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876012659 NAD(P) binding site [chemical binding]; other site 1042876012660 active site 1042876012661 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1042876012662 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876012663 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876012664 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042876012665 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042876012666 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042876012667 ATP-dependent helicase HepA; Validated; Region: PRK04914 1042876012668 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 1042876012669 ATP binding site [chemical binding]; other site 1042876012670 putative Mg++ binding site [ion binding]; other site 1042876012671 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 1042876012672 nucleotide binding region [chemical binding]; other site 1042876012673 ATP-binding site [chemical binding]; other site 1042876012674 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1042876012675 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1042876012676 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1042876012677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876012678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876012679 metal binding site [ion binding]; metal-binding site 1042876012680 active site 1042876012681 I-site; other site 1042876012682 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 1042876012683 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042876012684 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876012685 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1042876012686 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042876012687 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 1042876012688 dimerization interface [polypeptide binding]; other site 1042876012689 ligand binding site [chemical binding]; other site 1042876012690 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042876012691 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 1042876012692 TM-ABC transporter signature motif; other site 1042876012693 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1042876012694 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1042876012695 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 1042876012696 TM-ABC transporter signature motif; other site 1042876012697 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1042876012698 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042876012699 Walker A/P-loop; other site 1042876012700 ATP binding site [chemical binding]; other site 1042876012701 Q-loop/lid; other site 1042876012702 ABC transporter signature motif; other site 1042876012703 Walker B; other site 1042876012704 D-loop; other site 1042876012705 H-loop/switch region; other site 1042876012706 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042876012707 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042876012708 Walker A/P-loop; other site 1042876012709 ATP binding site [chemical binding]; other site 1042876012710 Q-loop/lid; other site 1042876012711 ABC transporter signature motif; other site 1042876012712 Walker B; other site 1042876012713 D-loop; other site 1042876012714 H-loop/switch region; other site 1042876012715 Predicted membrane protein [Function unknown]; Region: COG3650 1042876012716 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1042876012717 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876012718 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1042876012719 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1042876012720 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1042876012721 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1042876012722 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1042876012723 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876012724 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876012725 ligand binding site [chemical binding]; other site 1042876012726 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042876012727 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042876012728 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1042876012729 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1042876012730 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1042876012731 Predicted integral membrane protein [Function unknown]; Region: COG5615 1042876012732 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1042876012733 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876012734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876012735 ligand binding site [chemical binding]; other site 1042876012736 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876012737 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876012738 ligand binding site [chemical binding]; other site 1042876012739 hypothetical protein; Provisional; Region: PRK00183 1042876012740 SEC-C motif; Region: SEC-C; pfam02810 1042876012741 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 1042876012742 SEC-C motif; Region: SEC-C; pfam02810 1042876012743 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 1042876012744 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876012745 DNA-binding site [nucleotide binding]; DNA binding site 1042876012746 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 1042876012747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876012748 homodimer interface [polypeptide binding]; other site 1042876012749 catalytic residue [active] 1042876012750 Penicillin amidase; Region: Penicil_amidase; pfam01804 1042876012751 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 1042876012752 active site 1042876012753 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1042876012754 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1042876012755 ATP-dependent DNA ligase; Validated; Region: PRK09247 1042876012756 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1042876012757 active site 1042876012758 DNA binding site [nucleotide binding] 1042876012759 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1042876012760 DNA binding site [nucleotide binding] 1042876012761 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1042876012762 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1042876012763 active site 1042876012764 Zn binding site [ion binding]; other site 1042876012765 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1042876012766 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 1042876012767 ATP binding site [chemical binding]; other site 1042876012768 putative Mg++ binding site [ion binding]; other site 1042876012769 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 1042876012770 nucleotide binding region [chemical binding]; other site 1042876012771 ATP-binding site [chemical binding]; other site 1042876012772 DEAD/H associated; Region: DEAD_assoc; pfam08494 1042876012773 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1042876012774 putative active site [active] 1042876012775 putative metal binding site [ion binding]; other site 1042876012776 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1042876012777 trimer interface [polypeptide binding]; other site 1042876012778 active site 1042876012779 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 1042876012780 DNA-binding site [nucleotide binding]; DNA binding site 1042876012781 RNA-binding motif; other site 1042876012782 antiporter inner membrane protein; Provisional; Region: PRK11670 1042876012783 Domain of unknown function DUF59; Region: DUF59; pfam01883 1042876012784 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 1042876012785 Walker A motif; other site 1042876012786 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1042876012787 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1042876012788 active site 1042876012789 HIGH motif; other site 1042876012790 KMSKS motif; other site 1042876012791 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1042876012792 tRNA binding surface [nucleotide binding]; other site 1042876012793 anticodon binding site; other site 1042876012794 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 1042876012795 dimer interface [polypeptide binding]; other site 1042876012796 putative tRNA-binding site [nucleotide binding]; other site 1042876012797 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 1042876012798 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1042876012799 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 1042876012800 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1042876012801 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1042876012802 minor groove reading motif; other site 1042876012803 helix-hairpin-helix signature motif; other site 1042876012804 substrate binding pocket [chemical binding]; other site 1042876012805 active site 1042876012806 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1042876012807 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1042876012808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876012809 active site 1042876012810 phosphorylation site [posttranslational modification] 1042876012811 intermolecular recognition site; other site 1042876012812 dimerization interface [polypeptide binding]; other site 1042876012813 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 1042876012814 DNA binding residues [nucleotide binding] 1042876012815 dimerization interface [polypeptide binding]; other site 1042876012816 argininosuccinate synthase; Provisional; Region: PRK13820 1042876012817 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 1042876012818 ANP binding site [chemical binding]; other site 1042876012819 Substrate Binding Site II [chemical binding]; other site 1042876012820 Substrate Binding Site I [chemical binding]; other site 1042876012821 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1042876012822 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876012823 ligand binding site [chemical binding]; other site 1042876012824 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 1042876012825 active site 1042876012826 substrate binding pocket [chemical binding]; other site 1042876012827 dimer interface [polypeptide binding]; other site 1042876012828 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1042876012829 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1042876012830 dimer interface [polypeptide binding]; other site 1042876012831 catalytic site [active] 1042876012832 putative active site [active] 1042876012833 putative substrate binding site [chemical binding]; other site 1042876012834 peroxidase; Provisional; Region: PRK15000 1042876012835 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 1042876012836 dimer interface [polypeptide binding]; other site 1042876012837 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1042876012838 catalytic triad [active] 1042876012839 peroxidatic and resolving cysteines [active] 1042876012840 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1042876012841 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1042876012842 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1042876012843 heme binding site [chemical binding]; other site 1042876012844 ferroxidase pore; other site 1042876012845 ferroxidase diiron center [ion binding]; other site 1042876012846 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 1042876012847 putative GSH binding site [chemical binding]; other site 1042876012848 catalytic residues [active] 1042876012849 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1042876012850 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 1042876012851 putative [Fe4-S4] binding site [ion binding]; other site 1042876012852 putative molybdopterin cofactor binding site [chemical binding]; other site 1042876012853 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 1042876012854 putative molybdopterin cofactor binding site; other site 1042876012855 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1042876012856 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042876012857 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042876012858 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1042876012859 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1042876012860 Walker A/P-loop; other site 1042876012861 ATP binding site [chemical binding]; other site 1042876012862 Q-loop/lid; other site 1042876012863 ABC transporter signature motif; other site 1042876012864 Walker B; other site 1042876012865 D-loop; other site 1042876012866 H-loop/switch region; other site 1042876012867 TOBE domain; Region: TOBE_2; pfam08402 1042876012868 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 1042876012869 putative deacylase active site [active] 1042876012870 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 1042876012871 amphipathic channel; other site 1042876012872 Asn-Pro-Ala signature motifs; other site 1042876012873 glycerol kinase; Provisional; Region: glpK; PRK00047 1042876012874 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1042876012875 N- and C-terminal domain interface [polypeptide binding]; other site 1042876012876 active site 1042876012877 MgATP binding site [chemical binding]; other site 1042876012878 catalytic site [active] 1042876012879 metal binding site [ion binding]; metal-binding site 1042876012880 glycerol binding site [chemical binding]; other site 1042876012881 homotetramer interface [polypeptide binding]; other site 1042876012882 homodimer interface [polypeptide binding]; other site 1042876012883 protein IIAGlc interface [polypeptide binding]; other site 1042876012884 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1042876012885 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1042876012886 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1042876012887 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1042876012888 Leucine rich repeat; Region: LRR_8; pfam13855 1042876012889 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1042876012890 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 1042876012891 substrate binding pocket [chemical binding]; other site 1042876012892 membrane-bound complex binding site; other site 1042876012893 hinge residues; other site 1042876012894 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876012895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876012896 dimer interface [polypeptide binding]; other site 1042876012897 conserved gate region; other site 1042876012898 putative PBP binding loops; other site 1042876012899 ABC-ATPase subunit interface; other site 1042876012900 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876012901 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876012902 dimer interface [polypeptide binding]; other site 1042876012903 conserved gate region; other site 1042876012904 putative PBP binding loops; other site 1042876012905 ABC-ATPase subunit interface; other site 1042876012906 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876012907 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876012908 Walker A/P-loop; other site 1042876012909 ATP binding site [chemical binding]; other site 1042876012910 Q-loop/lid; other site 1042876012911 ABC transporter signature motif; other site 1042876012912 Walker B; other site 1042876012913 D-loop; other site 1042876012914 H-loop/switch region; other site 1042876012915 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1042876012916 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 1042876012917 dimer interface [polypeptide binding]; other site 1042876012918 phosphorylation site [posttranslational modification] 1042876012919 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876012920 Mg2+ binding site [ion binding]; other site 1042876012921 G-X-G motif; other site 1042876012922 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876012923 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876012924 active site 1042876012925 phosphorylation site [posttranslational modification] 1042876012926 intermolecular recognition site; other site 1042876012927 dimerization interface [polypeptide binding]; other site 1042876012928 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012929 Walker A motif; other site 1042876012930 ATP binding site [chemical binding]; other site 1042876012931 Walker B motif; other site 1042876012932 arginine finger; other site 1042876012933 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876012934 GlpM protein; Region: GlpM; pfam06942 1042876012935 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042876012936 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042876012937 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1042876012938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876012939 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 1042876012940 putative dimerization interface [polypeptide binding]; other site 1042876012941 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 1042876012942 nudix motif; other site 1042876012943 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 1042876012944 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 1042876012945 ATP binding site [chemical binding]; other site 1042876012946 putative Mg++ binding site [ion binding]; other site 1042876012947 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 1042876012948 nucleotide binding region [chemical binding]; other site 1042876012949 ATP-binding site [chemical binding]; other site 1042876012950 DEAD/H associated; Region: DEAD_assoc; pfam08494 1042876012951 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1042876012952 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 1042876012953 active site 1042876012954 FMN binding site [chemical binding]; other site 1042876012955 substrate binding site [chemical binding]; other site 1042876012956 3Fe-4S cluster binding site [ion binding]; other site 1042876012957 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1042876012958 Spore germination protein; Region: Spore_permease; cl17796 1042876012959 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1042876012960 Transglycosylase; Region: Transgly; pfam00912 1042876012961 Predicted transcriptional regulators [Transcription]; Region: COG1695 1042876012962 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1042876012963 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1042876012964 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 1042876012965 FAD binding pocket [chemical binding]; other site 1042876012966 FAD binding motif [chemical binding]; other site 1042876012967 phosphate binding motif [ion binding]; other site 1042876012968 NAD binding pocket [chemical binding]; other site 1042876012969 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1042876012970 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1042876012971 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 1042876012972 N-terminal plug; other site 1042876012973 ligand-binding site [chemical binding]; other site 1042876012974 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 1042876012975 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1042876012976 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1042876012977 Trp docking motif [polypeptide binding]; other site 1042876012978 putative active site [active] 1042876012979 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1042876012980 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876012981 Walker A motif; other site 1042876012982 ATP binding site [chemical binding]; other site 1042876012983 Walker B motif; other site 1042876012984 arginine finger; other site 1042876012985 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1042876012986 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1042876012987 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876012988 S-adenosylmethionine binding site [chemical binding]; other site 1042876012989 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042876012990 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876012991 S-adenosylmethionine binding site [chemical binding]; other site 1042876012992 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876012993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876012994 active site 1042876012995 phosphorylation site [posttranslational modification] 1042876012996 intermolecular recognition site; other site 1042876012997 dimerization interface [polypeptide binding]; other site 1042876012998 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 1042876012999 DNA binding site [nucleotide binding] 1042876013000 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876013001 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 1042876013002 dimerization interface [polypeptide binding]; other site 1042876013003 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 1042876013004 dimer interface [polypeptide binding]; other site 1042876013005 phosphorylation site [posttranslational modification] 1042876013006 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876013007 ATP binding site [chemical binding]; other site 1042876013008 Mg2+ binding site [ion binding]; other site 1042876013009 G-X-G motif; other site 1042876013010 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 1042876013011 active site 1042876013012 hydrophilic channel; other site 1042876013013 dimerization interface [polypeptide binding]; other site 1042876013014 catalytic residues [active] 1042876013015 active site lid [active] 1042876013016 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1042876013017 Recombination protein O N terminal; Region: RecO_N; pfam11967 1042876013018 Recombination protein O C terminal; Region: RecO_C; pfam02565 1042876013019 GTPase Era; Reviewed; Region: era; PRK00089 1042876013020 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1042876013021 G1 box; other site 1042876013022 GTP/Mg2+ binding site [chemical binding]; other site 1042876013023 Switch I region; other site 1042876013024 G2 box; other site 1042876013025 Switch II region; other site 1042876013026 G3 box; other site 1042876013027 G4 box; other site 1042876013028 G5 box; other site 1042876013029 KH domain; Region: KH_2; pfam07650 1042876013030 ribonuclease III; Reviewed; Region: rnc; PRK00102 1042876013031 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 1042876013032 dimerization interface [polypeptide binding]; other site 1042876013033 active site 1042876013034 metal binding site [ion binding]; metal-binding site 1042876013035 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 1042876013036 dsRNA binding site [nucleotide binding]; other site 1042876013037 signal peptidase I; Provisional; Region: PRK10861 1042876013038 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 1042876013039 Catalytic site [active] 1042876013040 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 1042876013041 GTP-binding protein LepA; Provisional; Region: PRK05433 1042876013042 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1042876013043 G1 box; other site 1042876013044 putative GEF interaction site [polypeptide binding]; other site 1042876013045 GTP/Mg2+ binding site [chemical binding]; other site 1042876013046 Switch I region; other site 1042876013047 G2 box; other site 1042876013048 G3 box; other site 1042876013049 Switch II region; other site 1042876013050 G4 box; other site 1042876013051 G5 box; other site 1042876013052 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 1042876013053 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 1042876013054 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1042876013055 delta-60 repeat domain; Region: delta_60_rpt; TIGR02608 1042876013056 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1042876013057 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042876013058 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 1042876013059 protein binding site [polypeptide binding]; other site 1042876013060 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 1042876013061 protein binding site [polypeptide binding]; other site 1042876013062 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1042876013063 MucB/RseB family; Region: MucB_RseB; pfam03888 1042876013064 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1042876013065 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1042876013066 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1042876013067 L-aspartate oxidase; Provisional; Region: PRK09077 1042876013068 L-aspartate oxidase; Provisional; Region: PRK06175 1042876013069 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1042876013070 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1042876013071 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1042876013072 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1042876013073 HDOD domain; Region: HDOD; pfam08668 1042876013074 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1042876013075 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 1042876013076 dimerization interface [polypeptide binding]; other site 1042876013077 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 1042876013078 dimer interface [polypeptide binding]; other site 1042876013079 phosphorylation site [posttranslational modification] 1042876013080 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876013081 ATP binding site [chemical binding]; other site 1042876013082 Mg2+ binding site [ion binding]; other site 1042876013083 G-X-G motif; other site 1042876013084 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1042876013085 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876013086 active site 1042876013087 phosphorylation site [posttranslational modification] 1042876013088 intermolecular recognition site; other site 1042876013089 dimerization interface [polypeptide binding]; other site 1042876013090 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 1042876013091 DNA binding site [nucleotide binding] 1042876013092 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876013093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1042876013094 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1042876013095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1042876013096 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1042876013097 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1042876013098 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1042876013099 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1042876013100 ligand binding site [chemical binding]; other site 1042876013101 active site 1042876013102 UGI interface [polypeptide binding]; other site 1042876013103 catalytic site [active] 1042876013104 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1042876013105 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 1042876013106 substrate binding site [chemical binding]; other site 1042876013107 oxyanion hole (OAH) forming residues; other site 1042876013108 trimer interface [polypeptide binding]; other site 1042876013109 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1042876013110 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1042876013111 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 1042876013112 RNA binding surface [nucleotide binding]; other site 1042876013113 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1042876013114 active site 1042876013115 uracil binding [chemical binding]; other site 1042876013116 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876013117 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1042876013118 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1042876013119 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1042876013120 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 1042876013121 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042876013122 MULE transposase domain; Region: MULE; pfam10551 1042876013123 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042876013124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876013125 S-adenosylmethionine binding site [chemical binding]; other site 1042876013126 Repair protein; Region: Repair_PSII; cl01535 1042876013127 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1042876013128 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1042876013129 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1042876013130 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1042876013131 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 1042876013132 dimer interface [polypeptide binding]; other site 1042876013133 phosphorylation site [posttranslational modification] 1042876013134 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876013135 ATP binding site [chemical binding]; other site 1042876013136 Mg2+ binding site [ion binding]; other site 1042876013137 G-X-G motif; other site 1042876013138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876013139 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876013140 active site 1042876013141 phosphorylation site [posttranslational modification] 1042876013142 intermolecular recognition site; other site 1042876013143 dimerization interface [polypeptide binding]; other site 1042876013144 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876013145 Walker A motif; other site 1042876013146 ATP binding site [chemical binding]; other site 1042876013147 Walker B motif; other site 1042876013148 arginine finger; other site 1042876013149 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876013150 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1042876013151 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013152 putative substrate translocation pore; other site 1042876013153 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1042876013154 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1042876013155 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 1042876013156 Protein of unknown function (DUF3316); Region: DUF3316; pfam11777 1042876013157 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1042876013158 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1042876013159 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1042876013160 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876013161 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876013162 hypothetical protein; Provisional; Region: PRK07524 1042876013163 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876013164 PYR/PP interface [polypeptide binding]; other site 1042876013165 dimer interface [polypeptide binding]; other site 1042876013166 TPP binding site [chemical binding]; other site 1042876013167 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876013168 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 1042876013169 TPP-binding site [chemical binding]; other site 1042876013170 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876013171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013172 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 1042876013173 substrate binding pocket [chemical binding]; other site 1042876013174 dimerization interface [polypeptide binding]; other site 1042876013175 Putative NADH-flavin reductase [General function prediction only]; Region: COG2910 1042876013176 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1042876013177 NAD(P) binding site [chemical binding]; other site 1042876013178 active site 1042876013179 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1042876013180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013182 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 1042876013183 putative effector binding pocket; other site 1042876013184 dimerization interface [polypeptide binding]; other site 1042876013185 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 1042876013186 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1042876013187 tetramer interface [polypeptide binding]; other site 1042876013188 active site 1042876013189 Mg2+/Mn2+ binding site [ion binding]; other site 1042876013190 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013191 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876013192 putative substrate translocation pore; other site 1042876013193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013194 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1042876013195 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876013196 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1042876013197 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1042876013198 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876013199 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876013200 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1042876013201 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876013202 Protein export membrane protein; Region: SecD_SecF; cl14618 1042876013203 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876013204 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876013205 Predicted membrane protein [Function unknown]; Region: COG4539 1042876013206 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1042876013207 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1042876013208 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 1042876013209 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1042876013210 tetramer interface [polypeptide binding]; other site 1042876013211 active site 1042876013212 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1042876013213 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013214 putative substrate translocation pore; other site 1042876013215 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1042876013216 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 1042876013217 dimer interface [polypeptide binding]; other site 1042876013218 active site 1042876013219 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1042876013220 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1042876013221 benzoate transport; Region: 2A0115; TIGR00895 1042876013222 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013223 putative substrate translocation pore; other site 1042876013224 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013225 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1042876013226 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042876013227 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876013228 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042876013229 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1042876013230 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1042876013231 Cache domain; Region: Cache_1; pfam02743 1042876013232 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 1042876013233 dimerization interface [polypeptide binding]; other site 1042876013234 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876013235 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876013236 dimer interface [polypeptide binding]; other site 1042876013237 putative CheW interface [polypeptide binding]; other site 1042876013238 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876013239 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 1042876013240 Predicted deacetylase [General function prediction only]; Region: COG3233 1042876013241 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1042876013242 putative active site [active] 1042876013243 putative Zn binding site [ion binding]; other site 1042876013244 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1042876013245 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1042876013246 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1042876013247 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1042876013248 putative active site [active] 1042876013249 putative substrate binding site [chemical binding]; other site 1042876013250 putative cosubstrate binding site; other site 1042876013251 catalytic site [active] 1042876013252 exonuclease I; Provisional; Region: sbcB; PRK11779 1042876013253 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1042876013254 active site 1042876013255 catalytic site [active] 1042876013256 substrate binding site [chemical binding]; other site 1042876013257 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1042876013258 PilZ domain; Region: PilZ; pfam07238 1042876013259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 1042876013260 pyruvate kinase; Provisional; Region: PRK05826 1042876013261 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 1042876013262 domain interfaces; other site 1042876013263 active site 1042876013264 hypothetical protein; Provisional; Region: PRK05713 1042876013265 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 1042876013266 catalytic loop [active] 1042876013267 iron binding site [ion binding]; other site 1042876013268 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 1042876013269 FAD binding pocket [chemical binding]; other site 1042876013270 FAD binding motif [chemical binding]; other site 1042876013271 phosphate binding motif [ion binding]; other site 1042876013272 beta-alpha-beta structure motif; other site 1042876013273 NAD binding pocket [chemical binding]; other site 1042876013274 putative fumarate hydratase; Provisional; Region: PRK15392 1042876013275 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1042876013276 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1042876013277 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1042876013278 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1042876013279 putative active site [active] 1042876013280 catalytic triad [active] 1042876013281 putative dimer interface [polypeptide binding]; other site 1042876013282 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876013283 Coenzyme A binding pocket [chemical binding]; other site 1042876013284 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1042876013285 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1042876013286 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1042876013287 conserved cys residue [active] 1042876013288 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1042876013289 PLD-like domain; Region: PLDc_2; pfam13091 1042876013290 putative active site [active] 1042876013291 catalytic site [active] 1042876013292 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1042876013293 PLD-like domain; Region: PLDc_2; pfam13091 1042876013294 putative active site [active] 1042876013295 catalytic site [active] 1042876013296 YceI-like domain; Region: YceI; pfam04264 1042876013297 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1042876013298 Beta-lactamase; Region: Beta-lactamase; pfam00144 1042876013299 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876013300 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1042876013301 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876013302 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042876013303 putative acyl-acceptor binding pocket; other site 1042876013304 Protein of unknown function, DUF479; Region: DUF479; cl01203 1042876013305 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 1042876013306 dimerization interface [polypeptide binding]; other site 1042876013307 putative DNA binding site [nucleotide binding]; other site 1042876013308 putative Zn2+ binding site [ion binding]; other site 1042876013309 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1042876013310 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 1042876013311 FMN binding site [chemical binding]; other site 1042876013312 active site 1042876013313 substrate binding site [chemical binding]; other site 1042876013314 catalytic residue [active] 1042876013315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042876013316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876013317 NAD(P) binding site [chemical binding]; other site 1042876013318 active site 1042876013319 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1042876013320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013321 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 1042876013322 dimerization interface [polypeptide binding]; other site 1042876013323 Lysine efflux permease [General function prediction only]; Region: COG1279 1042876013324 superoxide dismutase; Provisional; Region: PRK10543 1042876013325 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1042876013326 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1042876013327 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1042876013328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1042876013329 DNA-binding site [nucleotide binding]; DNA binding site 1042876013330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1042876013331 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1042876013332 DNA-binding site [nucleotide binding]; DNA binding site 1042876013333 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876013334 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1042876013335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876013336 metal binding site [ion binding]; metal-binding site 1042876013337 active site 1042876013338 I-site; other site 1042876013339 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 1042876013340 Imelysin; Region: Peptidase_M75; cl09159 1042876013341 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1042876013342 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1042876013343 Imelysin; Region: Peptidase_M75; cl09159 1042876013344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 1042876013345 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876013346 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876013347 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876013348 multidrug efflux protein; Reviewed; Region: PRK09579 1042876013349 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1042876013350 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042876013351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876013352 S-adenosylmethionine binding site [chemical binding]; other site 1042876013353 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1042876013354 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1042876013355 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 1042876013356 dimer interface [polypeptide binding]; other site 1042876013357 phosphorylation site [posttranslational modification] 1042876013358 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876013359 ATP binding site [chemical binding]; other site 1042876013360 Mg2+ binding site [ion binding]; other site 1042876013361 G-X-G motif; other site 1042876013362 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876013363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876013364 active site 1042876013365 phosphorylation site [posttranslational modification] 1042876013366 intermolecular recognition site; other site 1042876013367 dimerization interface [polypeptide binding]; other site 1042876013368 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 1042876013369 DNA binding site [nucleotide binding] 1042876013370 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 1042876013371 active site 1042876013372 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1042876013373 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 1042876013374 ring oligomerisation interface [polypeptide binding]; other site 1042876013375 ATP/Mg binding site [chemical binding]; other site 1042876013376 stacking interactions; other site 1042876013377 hinge regions; other site 1042876013378 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 1042876013379 oligomerisation interface [polypeptide binding]; other site 1042876013380 mobile loop; other site 1042876013381 roof hairpin; other site 1042876013382 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1042876013383 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1042876013384 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1042876013385 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1042876013386 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1042876013387 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 1042876013388 active site 1042876013389 DNA binding site [nucleotide binding] 1042876013390 muropeptide transporter; Validated; Region: ampG; cl17669 1042876013391 muropeptide transporter; Validated; Region: ampG; cl17669 1042876013392 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1042876013393 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013394 mechanosensitive channel MscS; Provisional; Region: PRK10334 1042876013395 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876013396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1042876013397 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1042876013398 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1042876013399 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042876013400 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1042876013401 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 1042876013402 dimerization interface [polypeptide binding]; other site 1042876013403 PAS domain; Region: PAS; smart00091 1042876013404 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1042876013405 putative active site [active] 1042876013406 heme pocket [chemical binding]; other site 1042876013407 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 1042876013408 dimer interface [polypeptide binding]; other site 1042876013409 phosphorylation site [posttranslational modification] 1042876013410 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876013411 ATP binding site [chemical binding]; other site 1042876013412 Mg2+ binding site [ion binding]; other site 1042876013413 G-X-G motif; other site 1042876013414 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1042876013415 hypothetical protein; Provisional; Region: PRK08999 1042876013416 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 1042876013417 active site 1042876013418 8-oxo-dGMP binding site [chemical binding]; other site 1042876013419 nudix motif; other site 1042876013420 metal binding site [ion binding]; metal-binding site 1042876013421 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 1042876013422 thiamine phosphate binding site [chemical binding]; other site 1042876013423 active site 1042876013424 pyrophosphate binding site [ion binding]; other site 1042876013425 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 1042876013426 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1042876013427 putative C-terminal domain interface [polypeptide binding]; other site 1042876013428 putative GSH binding site (G-site) [chemical binding]; other site 1042876013429 putative dimer interface [polypeptide binding]; other site 1042876013430 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 1042876013431 putative substrate binding pocket (H-site) [chemical binding]; other site 1042876013432 putative N-terminal domain interface [polypeptide binding]; other site 1042876013433 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 1042876013434 heterotetramer interface [polypeptide binding]; other site 1042876013435 active site pocket [active] 1042876013436 cleavage site 1042876013437 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1042876013438 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1042876013439 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1042876013440 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 1042876013441 nucleotide binding region [chemical binding]; other site 1042876013442 ATP-binding site [chemical binding]; other site 1042876013443 SEC-C motif; Region: SEC-C; pfam02810 1042876013444 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1042876013445 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1042876013446 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1042876013447 cell division protein FtsZ; Validated; Region: PRK09330 1042876013448 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 1042876013449 nucleotide binding site [chemical binding]; other site 1042876013450 SulA interaction site; other site 1042876013451 cell division protein FtsA; Region: ftsA; TIGR01174 1042876013452 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1042876013453 nucleotide binding site [chemical binding]; other site 1042876013454 Cell division protein FtsA; Region: FtsA; pfam14450 1042876013455 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1042876013456 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1042876013457 Cell division protein FtsQ; Region: FtsQ; pfam03799 1042876013458 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1042876013459 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1042876013460 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042876013461 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1042876013462 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042876013463 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876013464 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042876013465 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1042876013466 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 1042876013467 active site 1042876013468 homodimer interface [polypeptide binding]; other site 1042876013469 cell division protein FtsW; Region: ftsW; TIGR02614 1042876013470 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1042876013471 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876013472 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1042876013473 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 1042876013474 Mg++ binding site [ion binding]; other site 1042876013475 putative catalytic motif [active] 1042876013476 putative substrate binding site [chemical binding]; other site 1042876013477 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042876013478 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1042876013479 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876013480 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042876013481 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1042876013482 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1042876013483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1042876013484 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1042876013485 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1042876013486 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042876013487 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042876013488 Cell division protein FtsL; Region: FtsL; pfam04999 1042876013489 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1042876013490 MraW methylase family; Region: Methyltransf_5; cl17771 1042876013491 cell division protein MraZ; Reviewed; Region: PRK00326 1042876013492 MraZ protein; Region: MraZ; pfam02381 1042876013493 MraZ protein; Region: MraZ; pfam02381 1042876013494 Predicted methyltransferases [General function prediction only]; Region: COG0313 1042876013495 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1042876013496 putative SAM binding site [chemical binding]; other site 1042876013497 putative homodimer interface [polypeptide binding]; other site 1042876013498 LppC putative lipoprotein; Region: LppC; pfam04348 1042876013499 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1042876013500 putative ligand binding site [chemical binding]; other site 1042876013501 hypothetical protein; Reviewed; Region: PRK12497 1042876013502 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 1042876013503 dimer interface [polypeptide binding]; other site 1042876013504 active site 1042876013505 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1042876013506 BON domain; Region: BON; pfam04972 1042876013507 BON domain; Region: BON; pfam04972 1042876013508 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1042876013509 Stringent starvation protein B; Region: SspB; cl01120 1042876013510 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042876013511 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1042876013512 dimer interface [polypeptide binding]; other site 1042876013513 N-terminal domain interface [polypeptide binding]; other site 1042876013514 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1042876013515 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1042876013516 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 1042876013517 Qi binding site; other site 1042876013518 intrachain domain interface; other site 1042876013519 interchain domain interface [polypeptide binding]; other site 1042876013520 heme bH binding site [chemical binding]; other site 1042876013521 heme bL binding site [chemical binding]; other site 1042876013522 Qo binding site; other site 1042876013523 interchain domain interface [polypeptide binding]; other site 1042876013524 intrachain domain interface; other site 1042876013525 Qi binding site; other site 1042876013526 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1042876013527 Qo binding site; other site 1042876013528 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 1042876013529 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1042876013530 [2Fe-2S] cluster binding site [ion binding]; other site 1042876013531 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1042876013532 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 1042876013533 23S rRNA interface [nucleotide binding]; other site 1042876013534 L3 interface [polypeptide binding]; other site 1042876013535 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 1042876013536 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876013537 active site 1042876013538 catalytic tetrad [active] 1042876013539 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876013540 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1042876013541 conserved cys residue [active] 1042876013542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876013543 Predicted ATPase [General function prediction only]; Region: COG1485 1042876013544 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1042876013545 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1042876013546 active site 1042876013547 HIGH motif; other site 1042876013548 dimer interface [polypeptide binding]; other site 1042876013549 KMSKS motif; other site 1042876013550 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042876013551 Serine hydrolase (FSH1); Region: FSH1; pfam03959 1042876013552 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1042876013553 methionine gamma-lyase; Provisional; Region: PRK07503 1042876013554 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 1042876013555 homodimer interface [polypeptide binding]; other site 1042876013556 substrate-cofactor binding pocket; other site 1042876013557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876013558 catalytic residue [active] 1042876013559 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876013560 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1042876013561 putative DNA binding site [nucleotide binding]; other site 1042876013562 putative Zn2+ binding site [ion binding]; other site 1042876013563 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876013564 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1042876013565 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1042876013566 CysD dimerization site [polypeptide binding]; other site 1042876013567 G1 box; other site 1042876013568 putative GEF interaction site [polypeptide binding]; other site 1042876013569 GTP/Mg2+ binding site [chemical binding]; other site 1042876013570 Switch I region; other site 1042876013571 G2 box; other site 1042876013572 G3 box; other site 1042876013573 Switch II region; other site 1042876013574 G4 box; other site 1042876013575 G5 box; other site 1042876013576 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 1042876013577 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 1042876013578 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 1042876013579 ligand-binding site [chemical binding]; other site 1042876013580 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1042876013581 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 1042876013582 Active Sites [active] 1042876013583 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1042876013584 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1042876013585 serine endoprotease; Provisional; Region: PRK10898 1042876013586 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1042876013587 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 1042876013588 protein binding site [polypeptide binding]; other site 1042876013589 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876013590 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876013591 Walker A/P-loop; other site 1042876013592 ATP binding site [chemical binding]; other site 1042876013593 Q-loop/lid; other site 1042876013594 ABC transporter signature motif; other site 1042876013595 Walker B; other site 1042876013596 D-loop; other site 1042876013597 H-loop/switch region; other site 1042876013598 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876013599 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876013600 dimer interface [polypeptide binding]; other site 1042876013601 conserved gate region; other site 1042876013602 putative PBP binding loops; other site 1042876013603 ABC-ATPase subunit interface; other site 1042876013604 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1042876013605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876013606 conserved gate region; other site 1042876013607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876013608 dimer interface [polypeptide binding]; other site 1042876013609 ABC-ATPase subunit interface; other site 1042876013610 putative PBP binding loops; other site 1042876013611 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 1042876013612 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1042876013613 substrate binding pocket [chemical binding]; other site 1042876013614 membrane-bound complex binding site; other site 1042876013615 hinge residues; other site 1042876013616 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1042876013617 putative hydrolase; Provisional; Region: PRK11460 1042876013618 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1042876013619 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 1042876013620 ATP binding site [chemical binding]; other site 1042876013621 Mg++ binding site [ion binding]; other site 1042876013622 motif III; other site 1042876013623 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 1042876013624 nucleotide binding region [chemical binding]; other site 1042876013625 ATP-binding site [chemical binding]; other site 1042876013626 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 1042876013627 MoaD interaction [polypeptide binding]; other site 1042876013628 active site residues [active] 1042876013629 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1042876013630 MoaE interaction surface [polypeptide binding]; other site 1042876013631 MoeB interaction surface [polypeptide binding]; other site 1042876013632 thiocarboxylated glycine; other site 1042876013633 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 1042876013634 trimer interface [polypeptide binding]; other site 1042876013635 dimer interface [polypeptide binding]; other site 1042876013636 putative active site [active] 1042876013637 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1042876013638 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1042876013639 putative active site [active] 1042876013640 PhoH-like protein; Region: PhoH; pfam02562 1042876013641 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1042876013642 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 1042876013643 NodB motif; other site 1042876013644 active site 1042876013645 catalytic site [active] 1042876013646 metal binding site [ion binding]; metal-binding site 1042876013647 hypothetical protein; Validated; Region: PRK02101 1042876013648 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1042876013649 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1042876013650 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1042876013651 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876013652 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1042876013653 PilZ domain; Region: PilZ; pfam07238 1042876013654 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876013655 Right handed beta helix region; Region: Beta_helix; pfam13229 1042876013656 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1042876013657 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 1042876013658 active site 1042876013659 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1042876013660 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 1042876013661 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1042876013662 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1042876013663 Substrate binding site; other site 1042876013664 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1042876013665 short chain dehydrogenase; Provisional; Region: PRK05693 1042876013666 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1042876013667 NADP binding site [chemical binding]; other site 1042876013668 active site 1042876013669 steroid binding site; other site 1042876013670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876013671 classical (c) SDRs; Region: SDR_c; cd05233 1042876013672 NAD(P) binding site [chemical binding]; other site 1042876013673 active site 1042876013674 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876013675 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1042876013676 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876013677 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876013678 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1042876013679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876013680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013682 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 1042876013683 putative substrate binding pocket [chemical binding]; other site 1042876013684 putative dimerization interface [polypeptide binding]; other site 1042876013685 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 1042876013686 Ligand Binding Site [chemical binding]; other site 1042876013687 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1042876013688 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876013689 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876013690 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1042876013691 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1042876013692 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042876013693 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1042876013694 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013696 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 1042876013697 putative effector binding pocket; other site 1042876013698 dimerization interface [polypeptide binding]; other site 1042876013699 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1042876013700 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1042876013701 dimerization interface [polypeptide binding]; other site 1042876013702 ligand binding site [chemical binding]; other site 1042876013703 NADP binding site [chemical binding]; other site 1042876013704 catalytic site [active] 1042876013705 EamA-like transporter family; Region: EamA; pfam00892 1042876013706 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876013707 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876013708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876013709 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1042876013710 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 1042876013711 N-terminal plug; other site 1042876013712 ligand-binding site [chemical binding]; other site 1042876013713 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1042876013714 FecR protein; Region: FecR; pfam04773 1042876013715 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 1042876013716 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876013717 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 1042876013718 DNA binding residues [nucleotide binding] 1042876013719 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1042876013720 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042876013721 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1042876013722 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042876013723 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; cl00250 1042876013724 30S subunit binding site; other site 1042876013725 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1042876013726 Predicted membrane protein [Function unknown]; Region: COG3223 1042876013727 YebG protein; Region: YebG; pfam07130 1042876013728 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1042876013729 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1042876013730 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1042876013731 NAD binding site [chemical binding]; other site 1042876013732 Phe binding site; other site 1042876013733 Uncharacterized conserved protein [Function unknown]; Region: COG2912 1042876013734 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1042876013735 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1042876013736 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042876013737 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1042876013738 dimer interface [polypeptide binding]; other site 1042876013739 N-terminal domain interface [polypeptide binding]; other site 1042876013740 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1042876013741 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1042876013742 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1042876013743 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1042876013744 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1042876013745 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1042876013746 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1042876013747 Bacterial transcriptional regulator; Region: IclR; pfam01614 1042876013748 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1042876013749 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1042876013750 NAD binding site [chemical binding]; other site 1042876013751 homodimer interface [polypeptide binding]; other site 1042876013752 active site 1042876013753 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876013754 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876013755 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876013756 LrgB-like family; Region: LrgB; pfam04172 1042876013757 LrgA family; Region: LrgA; pfam03788 1042876013758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013760 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1042876013761 putative dimerization interface [polypeptide binding]; other site 1042876013762 flavodoxin; Provisional; Region: PRK05723 1042876013763 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 1042876013764 PAS domain; Region: PAS_9; pfam13426 1042876013765 putative active site [active] 1042876013766 heme pocket [chemical binding]; other site 1042876013767 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1042876013768 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1042876013769 DNA binding residues [nucleotide binding] 1042876013770 B12 binding domain; Region: B12-binding_2; cl03653 1042876013771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1042876013772 dihydromonapterin reductase; Provisional; Region: PRK06483 1042876013773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876013774 NAD(P) binding site [chemical binding]; other site 1042876013775 active site 1042876013776 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1042876013777 HopJ type III effector protein; Region: HopJ; pfam08888 1042876013778 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1042876013779 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876013780 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1042876013781 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1042876013782 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1042876013783 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1042876013784 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 1042876013785 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1042876013786 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1042876013787 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 1042876013788 dimer interface [polypeptide binding]; other site 1042876013789 active site 1042876013790 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1042876013791 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 1042876013792 THF binding site; other site 1042876013793 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 1042876013794 substrate binding site [chemical binding]; other site 1042876013795 THF binding site; other site 1042876013796 zinc-binding site [ion binding]; other site 1042876013797 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; cl00246 1042876013798 FAD binding site [chemical binding]; other site 1042876013799 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 1042876013800 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1042876013801 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 1042876013802 P-loop, Walker A motif; other site 1042876013803 Base recognition motif; other site 1042876013804 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1042876013805 Uncharacterized small protein [Function unknown]; Region: COG2879 1042876013806 carbon starvation protein A; Provisional; Region: PRK15015 1042876013807 Carbon starvation protein CstA; Region: CstA; pfam02554 1042876013808 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1042876013809 xanthine permease; Region: pbuX; TIGR03173 1042876013810 DNA repair protein RadA; Provisional; Region: PRK11823 1042876013811 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 1042876013812 Walker A motif; other site 1042876013813 ATP binding site [chemical binding]; other site 1042876013814 Walker B motif; other site 1042876013815 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042876013816 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1042876013817 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1042876013818 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 1042876013819 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1042876013820 FAD binding pocket [chemical binding]; other site 1042876013821 FAD binding motif [chemical binding]; other site 1042876013822 phosphate binding motif [ion binding]; other site 1042876013823 beta-alpha-beta structure motif; other site 1042876013824 NAD binding pocket [chemical binding]; other site 1042876013825 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1042876013826 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 1042876013827 DNA binding residues [nucleotide binding] 1042876013828 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1042876013829 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876013830 S-adenosylmethionine binding site [chemical binding]; other site 1042876013831 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1042876013832 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1042876013833 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1042876013834 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1042876013835 H+ Antiporter protein; Region: 2A0121; TIGR00900 1042876013836 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1042876013837 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1042876013838 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876013839 S-adenosylmethionine binding site [chemical binding]; other site 1042876013840 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1042876013841 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 1042876013842 heterodimer interface [polypeptide binding]; other site 1042876013843 active site 1042876013844 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 1042876013845 heterodimer interface [polypeptide binding]; other site 1042876013846 multimer interface [polypeptide binding]; other site 1042876013847 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1042876013848 active site 1042876013849 Predicted metalloprotease [General function prediction only]; Region: COG2321 1042876013850 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1042876013851 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 1042876013852 dimerization interface [polypeptide binding]; other site 1042876013853 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876013854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876013855 dimer interface [polypeptide binding]; other site 1042876013856 putative CheW interface [polypeptide binding]; other site 1042876013857 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1042876013858 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1042876013859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013861 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 1042876013862 dimerization interface [polypeptide binding]; other site 1042876013863 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1042876013864 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1042876013865 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876013866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013868 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 1042876013869 putative dimerization interface [polypeptide binding]; other site 1042876013870 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1042876013871 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042876013872 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876013873 Putative methyltransferase; Region: Methyltransf_20; pfam12147 1042876013874 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 1042876013875 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042876013876 active site 1042876013877 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 1042876013878 active site 1042876013879 catalytic residues [active] 1042876013880 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1042876013881 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1042876013882 putative acyl-acceptor binding pocket; other site 1042876013883 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1042876013884 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1042876013885 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1042876013886 putative metal binding site [ion binding]; other site 1042876013887 putative homodimer interface [polypeptide binding]; other site 1042876013888 putative homotetramer interface [polypeptide binding]; other site 1042876013889 putative homodimer-homodimer interface [polypeptide binding]; other site 1042876013890 putative allosteric switch controlling residues; other site 1042876013891 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1042876013892 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1042876013893 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1042876013894 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876013895 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876013896 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1042876013897 Transposase domain (DUF772); Region: DUF772; pfam05598 1042876013898 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1042876013899 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1042876013900 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1042876013901 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1042876013902 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1042876013903 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1042876013904 tetrameric interface [polypeptide binding]; other site 1042876013905 NAD binding site [chemical binding]; other site 1042876013906 catalytic residues [active] 1042876013907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876013908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876013909 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 1042876013910 dimerization interface [polypeptide binding]; other site 1042876013911 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1042876013912 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876013913 ligand binding site [chemical binding]; other site 1042876013914 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1042876013915 HAMP domain; Region: HAMP; pfam00672 1042876013916 dimerization interface [polypeptide binding]; other site 1042876013917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876013918 metal binding site [ion binding]; metal-binding site 1042876013919 active site 1042876013920 I-site; other site 1042876013921 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1042876013922 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1042876013923 AAA domain; Region: AAA_30; pfam13604 1042876013924 Family description; Region: UvrD_C_2; pfam13538 1042876013925 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1042876013926 Family description; Region: UvrD_C_2; pfam13538 1042876013927 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1042876013928 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1042876013929 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1042876013930 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1042876013931 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 1042876013932 Moco binding site; other site 1042876013933 metal coordination site [ion binding]; other site 1042876013934 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1042876013935 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1042876013936 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1042876013937 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1042876013938 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1042876013939 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1042876013940 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1042876013941 putative valine binding site [chemical binding]; other site 1042876013942 dimer interface [polypeptide binding]; other site 1042876013943 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1042876013944 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1042876013945 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1042876013946 PYR/PP interface [polypeptide binding]; other site 1042876013947 dimer interface [polypeptide binding]; other site 1042876013948 TPP binding site [chemical binding]; other site 1042876013949 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1042876013950 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 1042876013951 TPP-binding site [chemical binding]; other site 1042876013952 dimer interface [polypeptide binding]; other site 1042876013953 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1042876013954 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 1042876013955 TPR motif; other site 1042876013956 binding surface 1042876013957 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1042876013958 Transglycosylase; Region: Transgly; pfam00912 1042876013959 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042876013960 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1042876013961 AAA domain; Region: AAA_33; pfam13671 1042876013962 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1042876013963 active site 1042876013964 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1042876013965 Protein of unknown function, DUF399; Region: DUF399; cl01139 1042876013966 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1042876013967 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1042876013968 Walker A/P-loop; other site 1042876013969 ATP binding site [chemical binding]; other site 1042876013970 Q-loop/lid; other site 1042876013971 ABC transporter signature motif; other site 1042876013972 Walker B; other site 1042876013973 D-loop; other site 1042876013974 H-loop/switch region; other site 1042876013975 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1042876013976 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 1042876013977 ABC-ATPase subunit interface; other site 1042876013978 dimer interface [polypeptide binding]; other site 1042876013979 putative PBP binding regions; other site 1042876013980 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 1042876013981 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1042876013982 intersubunit interface [polypeptide binding]; other site 1042876013983 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 1042876013984 iron-sulfur cluster [ion binding]; other site 1042876013985 [2Fe-2S] cluster binding site [ion binding]; other site 1042876013986 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1042876013987 hypothetical protein; Provisional; Region: PRK08960 1042876013988 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 1042876013989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876013990 homodimer interface [polypeptide binding]; other site 1042876013991 catalytic residue [active] 1042876013992 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1042876013993 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1042876013994 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1042876013995 active site 1042876013996 HIGH motif; other site 1042876013997 nucleotide binding site [chemical binding]; other site 1042876013998 KMSKS motif; other site 1042876013999 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1042876014000 Na binding site [ion binding]; other site 1042876014001 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1042876014002 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 1042876014003 putative active site [active] 1042876014004 heme pocket [chemical binding]; other site 1042876014005 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 1042876014006 dimer interface [polypeptide binding]; other site 1042876014007 phosphorylation site [posttranslational modification] 1042876014008 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876014009 ATP binding site [chemical binding]; other site 1042876014010 Mg2+ binding site [ion binding]; other site 1042876014011 G-X-G motif; other site 1042876014012 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1042876014013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876014014 active site 1042876014015 phosphorylation site [posttranslational modification] 1042876014016 intermolecular recognition site; other site 1042876014017 dimerization interface [polypeptide binding]; other site 1042876014018 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876014019 Walker A motif; other site 1042876014020 ATP binding site [chemical binding]; other site 1042876014021 Walker B motif; other site 1042876014022 arginine finger; other site 1042876014023 poly(A) polymerase; Region: pcnB; TIGR01942 1042876014024 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1042876014025 active site 1042876014026 NTP binding site [chemical binding]; other site 1042876014027 metal binding triad [ion binding]; metal-binding site 1042876014028 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1042876014029 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1042876014030 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 1042876014031 catalytic center binding site [active] 1042876014032 ATP binding site [chemical binding]; other site 1042876014033 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 1042876014034 oligomerization interface [polypeptide binding]; other site 1042876014035 active site 1042876014036 metal binding site [ion binding]; metal-binding site 1042876014037 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1042876014038 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1042876014039 active site 1042876014040 ATP-binding site [chemical binding]; other site 1042876014041 pantoate-binding site; other site 1042876014042 HXXH motif; other site 1042876014043 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876014044 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876014045 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876014046 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1042876014047 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 1042876014048 active site 1042876014049 dimer interface [polypeptide binding]; other site 1042876014050 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 1042876014051 dimer interface [polypeptide binding]; other site 1042876014052 active site 1042876014053 acetyl-CoA synthetase; Provisional; Region: PRK00174 1042876014054 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1042876014055 active site 1042876014056 CoA binding site [chemical binding]; other site 1042876014057 acyl-activating enzyme (AAE) consensus motif; other site 1042876014058 AMP binding site [chemical binding]; other site 1042876014059 acetate binding site [chemical binding]; other site 1042876014060 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1042876014061 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042876014062 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042876014063 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042876014064 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1042876014065 ligand binding site [chemical binding]; other site 1042876014066 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 1042876014067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1042876014068 active site 1042876014069 metal binding site [ion binding]; metal-binding site 1042876014070 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 1042876014071 BON domain; Region: BON; pfam04972 1042876014072 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1042876014073 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1042876014074 RNase E interface [polypeptide binding]; other site 1042876014075 trimer interface [polypeptide binding]; other site 1042876014076 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1042876014077 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1042876014078 RNase E interface [polypeptide binding]; other site 1042876014079 trimer interface [polypeptide binding]; other site 1042876014080 active site 1042876014081 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 1042876014082 putative nucleic acid binding region [nucleotide binding]; other site 1042876014083 G-X-X-G motif; other site 1042876014084 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 1042876014085 RNA binding site [nucleotide binding]; other site 1042876014086 domain interface; other site 1042876014087 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 1042876014088 16S/18S rRNA binding site [nucleotide binding]; other site 1042876014089 S13e-L30e interaction site [polypeptide binding]; other site 1042876014090 25S rRNA binding site [nucleotide binding]; other site 1042876014091 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1042876014092 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1042876014093 RNA binding site [nucleotide binding]; other site 1042876014094 active site 1042876014095 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1042876014096 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1042876014097 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1042876014098 translation initiation factor IF-2; Region: IF-2; TIGR00487 1042876014099 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1042876014100 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1042876014101 G1 box; other site 1042876014102 putative GEF interaction site [polypeptide binding]; other site 1042876014103 GTP/Mg2+ binding site [chemical binding]; other site 1042876014104 Switch I region; other site 1042876014105 G2 box; other site 1042876014106 G3 box; other site 1042876014107 Switch II region; other site 1042876014108 G4 box; other site 1042876014109 G5 box; other site 1042876014110 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 1042876014111 Translation-initiation factor 2; Region: IF-2; pfam11987 1042876014112 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 1042876014113 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1042876014114 NusA N-terminal domain; Region: NusA_N; pfam08529 1042876014115 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 1042876014116 RNA binding site [nucleotide binding]; other site 1042876014117 homodimer interface [polypeptide binding]; other site 1042876014118 NusA-like KH domain; Region: KH_5; pfam13184 1042876014119 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 1042876014120 G-X-X-G motif; other site 1042876014121 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1042876014122 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1042876014123 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1042876014124 Sm and related proteins; Region: Sm_like; cl00259 1042876014125 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1042876014126 putative oligomer interface [polypeptide binding]; other site 1042876014127 putative RNA binding site [nucleotide binding]; other site 1042876014128 triosephosphate isomerase; Provisional; Region: PRK14567 1042876014129 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 1042876014130 substrate binding site [chemical binding]; other site 1042876014131 dimer interface [polypeptide binding]; other site 1042876014132 catalytic triad [active] 1042876014133 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1042876014134 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 1042876014135 active site 1042876014136 substrate binding site [chemical binding]; other site 1042876014137 metal binding site [ion binding]; metal-binding site 1042876014138 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 1042876014139 dihydropteroate synthase; Region: DHPS; TIGR01496 1042876014140 substrate binding pocket [chemical binding]; other site 1042876014141 dimer interface [polypeptide binding]; other site 1042876014142 inhibitor binding site; inhibition site 1042876014143 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1042876014144 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876014145 Walker A motif; other site 1042876014146 ATP binding site [chemical binding]; other site 1042876014147 Walker B motif; other site 1042876014148 arginine finger; other site 1042876014149 Peptidase family M41; Region: Peptidase_M41; pfam01434 1042876014150 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1042876014151 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876014152 S-adenosylmethionine binding site [chemical binding]; other site 1042876014153 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1042876014154 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1042876014155 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1042876014156 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042876014157 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1042876014158 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042876014159 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042876014160 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1042876014161 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042876014162 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1042876014163 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 1042876014164 IMP binding site; other site 1042876014165 dimer interface [polypeptide binding]; other site 1042876014166 interdomain contacts; other site 1042876014167 partial ornithine binding site; other site 1042876014168 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1042876014169 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1042876014170 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1042876014171 catalytic site [active] 1042876014172 subunit interface [polypeptide binding]; other site 1042876014173 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1042876014174 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1042876014175 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1042876014176 chaperone protein DnaJ; Provisional; Region: PRK10767 1042876014177 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 1042876014178 HSP70 interaction site [polypeptide binding]; other site 1042876014179 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1042876014180 substrate binding site [polypeptide binding]; other site 1042876014181 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1042876014182 Zn binding sites [ion binding]; other site 1042876014183 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042876014184 dimer interface [polypeptide binding]; other site 1042876014185 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1042876014186 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1042876014187 nucleotide binding site [chemical binding]; other site 1042876014188 NEF interaction site [polypeptide binding]; other site 1042876014189 SBD interface [polypeptide binding]; other site 1042876014190 GrpE; Region: GrpE; pfam01025 1042876014191 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 1042876014192 dimer interface [polypeptide binding]; other site 1042876014193 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1042876014194 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1042876014195 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042876014196 Walker A/P-loop; other site 1042876014197 ATP binding site [chemical binding]; other site 1042876014198 Q-loop/lid; other site 1042876014199 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1042876014200 ABC transporter signature motif; other site 1042876014201 Walker B; other site 1042876014202 D-loop; other site 1042876014203 H-loop/switch region; other site 1042876014204 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1042876014205 metal binding site 2 [ion binding]; metal-binding site 1042876014206 putative DNA binding helix; other site 1042876014207 metal binding site 1 [ion binding]; metal-binding site 1042876014208 dimer interface [polypeptide binding]; other site 1042876014209 structural Zn2+ binding site [ion binding]; other site 1042876014210 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1042876014211 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1042876014212 putative coenzyme Q binding site [chemical binding]; other site 1042876014213 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 1042876014214 SmpB-tmRNA interface; other site 1042876014215 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1042876014216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876014217 DNA-binding site [nucleotide binding]; DNA binding site 1042876014218 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876014219 glycolate transporter; Provisional; Region: PRK09695 1042876014220 L-lactate permease; Region: Lactate_perm; cl00701 1042876014221 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1042876014222 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 1042876014223 active site 1042876014224 substrate binding site [chemical binding]; other site 1042876014225 FMN binding site [chemical binding]; other site 1042876014226 putative catalytic residues [active] 1042876014227 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042876014228 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876014229 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 1042876014230 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1042876014231 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1042876014232 transposase/IS protein; Provisional; Region: PRK09183 1042876014233 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876014234 Walker A motif; other site 1042876014235 ATP binding site [chemical binding]; other site 1042876014236 Walker B motif; other site 1042876014237 arginine finger; other site 1042876014238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1042876014239 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1042876014240 Integrase core domain; Region: rve; pfam00665 1042876014241 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1042876014242 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 1042876014243 active site 1042876014244 DNA binding site [nucleotide binding] 1042876014245 Int/Topo IB signature motif; other site 1042876014246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1042876014247 Transposase; Region: HTH_Tnp_1; pfam01527 1042876014248 HTH-like domain; Region: HTH_21; pfam13276 1042876014249 Integrase core domain; Region: rve; pfam00665 1042876014250 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1042876014251 Integrase core domain; Region: rve_3; pfam13683 1042876014252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876014253 putative substrate translocation pore; other site 1042876014254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876014255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876014256 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 1042876014257 dimerization interface [polypeptide binding]; other site 1042876014258 substrate binding pocket [chemical binding]; other site 1042876014259 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 1042876014260 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1042876014261 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1042876014262 active site 1042876014263 tetramer interface [polypeptide binding]; other site 1042876014264 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876014265 D-galactonate transporter; Region: 2A0114; TIGR00893 1042876014266 putative substrate translocation pore; other site 1042876014267 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1042876014268 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876014269 DNA-binding site [nucleotide binding]; DNA binding site 1042876014270 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1042876014271 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1042876014272 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876014273 putative NAD(P) binding site [chemical binding]; other site 1042876014274 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1042876014275 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 1042876014276 active site 1042876014277 motif I; other site 1042876014278 motif II; other site 1042876014279 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1042876014280 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 1042876014281 active site 1042876014282 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 1042876014283 catalytic triad [active] 1042876014284 dimer interface [polypeptide binding]; other site 1042876014285 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042876014286 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042876014287 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 1042876014288 catalytic core [active] 1042876014289 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042876014290 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1042876014291 putative active site [active] 1042876014292 Zn binding site [ion binding]; other site 1042876014293 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1042876014294 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1042876014295 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 1042876014296 ATP binding site [chemical binding]; other site 1042876014297 Mg++ binding site [ion binding]; other site 1042876014298 motif III; other site 1042876014299 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 1042876014300 nucleotide binding region [chemical binding]; other site 1042876014301 ATP-binding site [chemical binding]; other site 1042876014302 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1042876014303 EamA-like transporter family; Region: EamA; pfam00892 1042876014304 EamA-like transporter family; Region: EamA; pfam00892 1042876014305 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876014306 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 1042876014307 putative DNA binding site [nucleotide binding]; other site 1042876014308 putative Zn2+ binding site [ion binding]; other site 1042876014309 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876014310 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1042876014311 active site 1042876014312 catalytic site [active] 1042876014313 substrate binding site [chemical binding]; other site 1042876014314 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1042876014315 LabA_like proteins; Region: LabA; cd10911 1042876014316 putative metal binding site [ion binding]; other site 1042876014317 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1042876014318 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1042876014319 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 1042876014320 ATP binding site [chemical binding]; other site 1042876014321 putative Mg++ binding site [ion binding]; other site 1042876014322 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 1042876014323 nucleotide binding region [chemical binding]; other site 1042876014324 ATP-binding site [chemical binding]; other site 1042876014325 Helicase associated domain (HA2); Region: HA2; cl04503 1042876014326 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1042876014327 Cation efflux family; Region: Cation_efflux; cl00316 1042876014328 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1042876014329 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876014330 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 1042876014331 putative DNA binding site [nucleotide binding]; other site 1042876014332 putative Zn2+ binding site [ion binding]; other site 1042876014333 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876014334 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1042876014335 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1042876014336 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1042876014337 active site 1042876014338 AMP nucleosidase; Provisional; Region: PRK08292 1042876014339 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1042876014340 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1042876014341 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876014342 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1042876014343 active site 1042876014344 PAAR motif; Region: PAAR_motif; pfam05488 1042876014345 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876014346 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1042876014347 MULE transposase domain; Region: MULE; pfam10551 1042876014348 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1042876014349 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1042876014350 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 1042876014351 dimer interface [polypeptide binding]; other site 1042876014352 phosphorylation site [posttranslational modification] 1042876014353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876014354 ATP binding site [chemical binding]; other site 1042876014355 Mg2+ binding site [ion binding]; other site 1042876014356 G-X-G motif; other site 1042876014357 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 1042876014358 dimer interface [polypeptide binding]; other site 1042876014359 substrate binding site [chemical binding]; other site 1042876014360 ATP binding site [chemical binding]; other site 1042876014361 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 1042876014362 thiamine phosphate binding site [chemical binding]; other site 1042876014363 active site 1042876014364 pyrophosphate binding site [ion binding]; other site 1042876014365 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1042876014366 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 1042876014367 inhibitor-cofactor binding pocket; inhibition site 1042876014368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876014369 catalytic residue [active] 1042876014370 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1042876014371 Sel1-like repeats; Region: SEL1; smart00671 1042876014372 Sel1-like repeats; Region: SEL1; smart00671 1042876014373 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1042876014374 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1042876014375 PhoH-like protein; Region: PhoH; pfam02562 1042876014376 metal-binding heat shock protein; Provisional; Region: PRK00016 1042876014377 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1042876014378 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 1042876014379 Transporter associated domain; Region: CorC_HlyC; smart01091 1042876014380 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1042876014381 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1042876014382 putative active site [active] 1042876014383 catalytic triad [active] 1042876014384 putative dimer interface [polypeptide binding]; other site 1042876014385 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1042876014386 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 1042876014387 putative active site [active] 1042876014388 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1042876014389 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1042876014390 HIGH motif; other site 1042876014391 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1042876014392 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1042876014393 active site 1042876014394 KMSKS motif; other site 1042876014395 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1042876014396 tRNA binding surface [nucleotide binding]; other site 1042876014397 Lipopolysaccharide-assembly; Region: LptE; cl01125 1042876014398 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1042876014399 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1042876014400 Domain of unknown function; Region: DUF331; cl01149 1042876014401 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1042876014402 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 1042876014403 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876014404 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1042876014405 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1042876014406 dimer interface [polypeptide binding]; other site 1042876014407 catalytic triad [active] 1042876014408 lipoyl synthase; Provisional; Region: PRK05481 1042876014409 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 1042876014410 FeS/SAM binding site; other site 1042876014411 lipoate-protein ligase B; Provisional; Region: PRK14342 1042876014412 hypothetical protein; Provisional; Region: PRK00341 1042876014413 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1042876014414 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1042876014415 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1042876014416 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1042876014417 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1042876014418 Sporulation related domain; Region: SPOR; pfam05036 1042876014419 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1042876014420 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 1042876014421 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1042876014422 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1042876014423 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1042876014424 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1042876014425 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1042876014426 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1042876014427 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1042876014428 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1042876014429 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1042876014430 active site 1042876014431 (T/H)XGH motif; other site 1042876014432 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1042876014433 putative catalytic cysteine [active] 1042876014434 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1042876014435 active site 1042876014436 DNA binding site [nucleotide binding] 1042876014437 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1042876014438 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1042876014439 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 1042876014440 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1042876014441 active site 1042876014442 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1042876014443 LrgB-like family; Region: LrgB; pfam04172 1042876014444 LrgA family; Region: LrgA; cl00608 1042876014445 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 1042876014446 putative active site [active] 1042876014447 putative catalytic site [active] 1042876014448 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1042876014449 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1042876014450 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1042876014451 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1042876014452 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1042876014453 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 1042876014454 FMN binding site [chemical binding]; other site 1042876014455 active site 1042876014456 catalytic residues [active] 1042876014457 substrate binding site [chemical binding]; other site 1042876014458 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1042876014459 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1042876014460 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1042876014461 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 1042876014462 purine monophosphate binding site [chemical binding]; other site 1042876014463 dimer interface [polypeptide binding]; other site 1042876014464 putative catalytic residues [active] 1042876014465 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1042876014466 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1042876014467 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1042876014468 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1042876014469 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1042876014470 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1042876014471 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1042876014472 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1042876014473 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 1042876014474 dimer interface [polypeptide binding]; other site 1042876014475 phosphorylation site [posttranslational modification] 1042876014476 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876014477 ATP binding site [chemical binding]; other site 1042876014478 Mg2+ binding site [ion binding]; other site 1042876014479 G-X-G motif; other site 1042876014480 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876014481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876014482 active site 1042876014483 phosphorylation site [posttranslational modification] 1042876014484 intermolecular recognition site; other site 1042876014485 dimerization interface [polypeptide binding]; other site 1042876014486 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876014487 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876014488 active site 1042876014489 phosphorylation site [posttranslational modification] 1042876014490 intermolecular recognition site; other site 1042876014491 dimerization interface [polypeptide binding]; other site 1042876014492 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1042876014493 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1042876014494 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1042876014495 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1042876014496 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1042876014497 active site 1042876014498 SAM binding site [chemical binding]; other site 1042876014499 homodimer interface [polypeptide binding]; other site 1042876014500 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1042876014501 homodimer interface [polypeptide binding]; other site 1042876014502 active site 1042876014503 SAM binding site [chemical binding]; other site 1042876014504 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1042876014505 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1042876014506 precorrin-3B synthase; Region: CobG; TIGR02435 1042876014507 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1042876014508 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1042876014509 active site 1042876014510 putative homodimer interface [polypeptide binding]; other site 1042876014511 SAM binding site [chemical binding]; other site 1042876014512 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1042876014513 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876014514 S-adenosylmethionine binding site [chemical binding]; other site 1042876014515 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1042876014516 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1042876014517 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1042876014518 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1042876014519 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1042876014520 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 1042876014521 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876014522 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876014523 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876014524 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1042876014525 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1042876014526 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1042876014527 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 1042876014528 N-terminal plug; other site 1042876014529 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1042876014530 ligand-binding site [chemical binding]; other site 1042876014531 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1042876014532 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1042876014533 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042876014534 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1042876014535 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1042876014536 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1042876014537 Spore germination protein; Region: Spore_permease; cl17796 1042876014538 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1042876014539 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1042876014540 putative ligand binding site [chemical binding]; other site 1042876014541 HEAT repeats; Region: HEAT_2; pfam13646 1042876014542 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 1042876014543 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042876014544 TM-ABC transporter signature motif; other site 1042876014545 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1042876014546 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 1042876014547 TM-ABC transporter signature motif; other site 1042876014548 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1042876014549 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042876014550 Walker A/P-loop; other site 1042876014551 ATP binding site [chemical binding]; other site 1042876014552 Q-loop/lid; other site 1042876014553 ABC transporter signature motif; other site 1042876014554 Walker B; other site 1042876014555 D-loop; other site 1042876014556 H-loop/switch region; other site 1042876014557 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1042876014558 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042876014559 Walker A/P-loop; other site 1042876014560 ATP binding site [chemical binding]; other site 1042876014561 Q-loop/lid; other site 1042876014562 ABC transporter signature motif; other site 1042876014563 Walker B; other site 1042876014564 D-loop; other site 1042876014565 H-loop/switch region; other site 1042876014566 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1042876014567 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876014568 Coenzyme A binding pocket [chemical binding]; other site 1042876014569 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1042876014570 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1042876014571 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1042876014572 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 1042876014573 HSP70 interaction site [polypeptide binding]; other site 1042876014574 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1042876014575 substrate binding site [polypeptide binding]; other site 1042876014576 dimer interface [polypeptide binding]; other site 1042876014577 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1042876014578 putative chaperone; Provisional; Region: PRK11678 1042876014579 nucleotide binding site [chemical binding]; other site 1042876014580 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1042876014581 SBD interface [polypeptide binding]; other site 1042876014582 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1042876014583 hypothetical protein; Provisional; Region: PRK11505 1042876014584 psiF repeat; Region: PsiF_repeat; pfam07769 1042876014585 psiF repeat; Region: PsiF_repeat; pfam07769 1042876014586 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1042876014587 Helix-turn-helix domain; Region: HTH_18; pfam12833 1042876014588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876014589 EamA-like transporter family; Region: EamA; pfam00892 1042876014590 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1042876014591 EamA-like transporter family; Region: EamA; pfam00892 1042876014592 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 1042876014593 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1042876014594 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1042876014595 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1042876014596 Ferritin-like domain; Region: Ferritin; pfam00210 1042876014597 dinuclear metal binding motif [ion binding]; other site 1042876014598 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1042876014599 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1042876014600 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1042876014601 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1042876014602 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876014603 dimerization interface [polypeptide binding]; other site 1042876014604 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 1042876014605 putative active cleft [active] 1042876014606 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1042876014607 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1042876014608 putative NAD(P) binding site [chemical binding]; other site 1042876014609 homotetramer interface [polypeptide binding]; other site 1042876014610 homodimer interface [polypeptide binding]; other site 1042876014611 active site 1042876014612 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1042876014613 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1042876014614 Walker A/P-loop; other site 1042876014615 ATP binding site [chemical binding]; other site 1042876014616 Q-loop/lid; other site 1042876014617 ABC transporter signature motif; other site 1042876014618 Walker B; other site 1042876014619 D-loop; other site 1042876014620 H-loop/switch region; other site 1042876014621 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1042876014622 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1042876014623 Walker A/P-loop; other site 1042876014624 ATP binding site [chemical binding]; other site 1042876014625 Q-loop/lid; other site 1042876014626 ABC transporter signature motif; other site 1042876014627 Walker B; other site 1042876014628 D-loop; other site 1042876014629 H-loop/switch region; other site 1042876014630 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1042876014631 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1042876014632 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 1042876014633 TM-ABC transporter signature motif; other site 1042876014634 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1042876014635 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 1042876014636 TM-ABC transporter signature motif; other site 1042876014637 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1042876014638 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 1042876014639 dimerization interface [polypeptide binding]; other site 1042876014640 ligand binding site [chemical binding]; other site 1042876014641 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1042876014642 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 1042876014643 active site 1042876014644 NAD+ synthetase; Region: nadE; TIGR00552 1042876014645 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 1042876014646 homodimer interface [polypeptide binding]; other site 1042876014647 NAD binding pocket [chemical binding]; other site 1042876014648 ATP binding pocket [chemical binding]; other site 1042876014649 Mg binding site [ion binding]; other site 1042876014650 active-site loop [active] 1042876014651 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 1042876014652 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1042876014653 hypothetical protein; Provisional; Region: PRK01254 1042876014654 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1042876014655 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1042876014656 replicative DNA helicase; Provisional; Region: PRK05748 1042876014657 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1042876014658 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 1042876014659 Walker A motif; other site 1042876014660 ATP binding site [chemical binding]; other site 1042876014661 Walker B motif; other site 1042876014662 DNA binding loops [nucleotide binding] 1042876014663 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1042876014664 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1042876014665 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1042876014666 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1042876014667 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1042876014668 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1042876014669 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1042876014670 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1042876014671 ribonuclease R; Region: RNase_R; TIGR02063 1042876014672 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1042876014673 RNB domain; Region: RNB; pfam00773 1042876014674 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 1042876014675 RNA binding site [nucleotide binding]; other site 1042876014676 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876014677 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876014678 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042876014679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876014680 dimer interface [polypeptide binding]; other site 1042876014681 conserved gate region; other site 1042876014682 putative PBP binding loops; other site 1042876014683 ABC-ATPase subunit interface; other site 1042876014684 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1042876014685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876014686 dimer interface [polypeptide binding]; other site 1042876014687 conserved gate region; other site 1042876014688 putative PBP binding loops; other site 1042876014689 ABC-ATPase subunit interface; other site 1042876014690 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 1042876014691 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1042876014692 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1042876014693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876014694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876014695 dimer interface [polypeptide binding]; other site 1042876014696 putative CheW interface [polypeptide binding]; other site 1042876014697 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1042876014698 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 1042876014699 GDP-binding site [chemical binding]; other site 1042876014700 ACT binding site; other site 1042876014701 IMP binding site; other site 1042876014702 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1042876014703 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 1042876014704 dimer interface [polypeptide binding]; other site 1042876014705 motif 1; other site 1042876014706 active site 1042876014707 motif 2; other site 1042876014708 motif 3; other site 1042876014709 FtsH protease regulator HflC; Provisional; Region: PRK11029 1042876014710 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 1042876014711 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1042876014712 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 1042876014713 HflK protein; Region: hflK; TIGR01933 1042876014714 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1042876014715 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1042876014716 HflX GTPase family; Region: HflX; cd01878 1042876014717 G1 box; other site 1042876014718 GTP/Mg2+ binding site [chemical binding]; other site 1042876014719 Switch I region; other site 1042876014720 G2 box; other site 1042876014721 G3 box; other site 1042876014722 Switch II region; other site 1042876014723 G4 box; other site 1042876014724 G5 box; other site 1042876014725 bacterial Hfq-like; Region: Hfq; cd01716 1042876014726 Sm1 motif; other site 1042876014727 RNA binding site [nucleotide binding]; other site 1042876014728 hexamer interface [polypeptide binding]; other site 1042876014729 Sm2 motif; other site 1042876014730 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1042876014731 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1042876014732 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1042876014733 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876014734 ATP binding site [chemical binding]; other site 1042876014735 Mg2+ binding site [ion binding]; other site 1042876014736 G-X-G motif; other site 1042876014737 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 1042876014738 ATP binding site [chemical binding]; other site 1042876014739 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1042876014740 AMIN domain; Region: AMIN; pfam11741 1042876014741 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 1042876014742 active site 1042876014743 metal binding site [ion binding]; metal-binding site 1042876014744 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1042876014745 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1042876014746 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 1042876014747 putative ATP binding site [chemical binding]; other site 1042876014748 putative substrate binding site [chemical binding]; other site 1042876014749 epoxyqueuosine reductase; Region: TIGR00276 1042876014750 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1042876014751 Predicted membrane protein [Function unknown]; Region: COG2860 1042876014752 UPF0126 domain; Region: UPF0126; pfam03458 1042876014753 UPF0126 domain; Region: UPF0126; pfam03458 1042876014754 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1042876014755 catalytic site [active] 1042876014756 putative active site [active] 1042876014757 putative substrate binding site [chemical binding]; other site 1042876014758 dimer interface [polypeptide binding]; other site 1042876014759 GTPase RsgA; Reviewed; Region: PRK12288 1042876014760 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 1042876014761 RNA binding site [nucleotide binding]; other site 1042876014762 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1042876014763 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1042876014764 GTP/Mg2+ binding site [chemical binding]; other site 1042876014765 G4 box; other site 1042876014766 G5 box; other site 1042876014767 G1 box; other site 1042876014768 Switch I region; other site 1042876014769 G2 box; other site 1042876014770 G3 box; other site 1042876014771 Switch II region; other site 1042876014772 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1042876014773 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1042876014774 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1042876014775 ligand binding site [chemical binding]; other site 1042876014776 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1042876014777 flagellar motor protein MotA; Validated; Region: PRK09110 1042876014778 HDOD domain; Region: HDOD; pfam08668 1042876014779 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1042876014780 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 1042876014781 active site residue [active] 1042876014782 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 1042876014783 active site residue [active] 1042876014784 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1042876014785 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1042876014786 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1042876014787 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1042876014788 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1042876014789 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 1042876014790 motif II; other site 1042876014791 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1042876014792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1042876014793 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1042876014794 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1042876014795 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 1042876014796 CAP-like domain; other site 1042876014797 active site 1042876014798 primary dimer interface [polypeptide binding]; other site 1042876014799 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1042876014800 catalytic motif [active] 1042876014801 Catalytic residue [active] 1042876014802 SdiA-regulated; Region: SdiA-regulated; cd09971 1042876014803 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1042876014804 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876014805 ATP binding site [chemical binding]; other site 1042876014806 Mg2+ binding site [ion binding]; other site 1042876014807 G-X-G motif; other site 1042876014808 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 1042876014809 anchoring element; other site 1042876014810 dimer interface [polypeptide binding]; other site 1042876014811 ATP binding site [chemical binding]; other site 1042876014812 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 1042876014813 active site 1042876014814 metal binding site [ion binding]; metal-binding site 1042876014815 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1042876014816 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1042876014817 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1042876014818 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1042876014819 active site 1042876014820 metal binding site [ion binding]; metal-binding site 1042876014821 hexamer interface [polypeptide binding]; other site 1042876014822 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1042876014823 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1042876014824 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 1042876014825 dimer interface [polypeptide binding]; other site 1042876014826 ADP-ribose binding site [chemical binding]; other site 1042876014827 active site 1042876014828 nudix motif; other site 1042876014829 metal binding site [ion binding]; metal-binding site 1042876014830 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1042876014831 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1042876014832 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1042876014833 ThiC-associated domain; Region: ThiC-associated; pfam13667 1042876014834 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1042876014835 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1042876014836 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 1042876014837 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 1042876014838 calcium binding site 1 [ion binding]; other site 1042876014839 active site 1042876014840 catalytic triad [active] 1042876014841 calcium binding site 2 [ion binding]; other site 1042876014842 calcium binding site 3 [ion binding]; other site 1042876014843 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 1042876014844 catalytic residues [active] 1042876014845 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1042876014846 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 1042876014847 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1042876014848 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876014849 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876014850 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 1042876014851 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 1042876014852 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876014853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876014854 Walker A/P-loop; other site 1042876014855 ATP binding site [chemical binding]; other site 1042876014856 Q-loop/lid; other site 1042876014857 ABC transporter signature motif; other site 1042876014858 Walker B; other site 1042876014859 D-loop; other site 1042876014860 H-loop/switch region; other site 1042876014861 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1042876014862 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1042876014863 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 1042876014864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876014865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876014866 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 1042876014867 dimerization interface [polypeptide binding]; other site 1042876014868 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1042876014869 FAD dependent oxidoreductase; Region: DAO; pfam01266 1042876014870 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876014871 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 1042876014872 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1042876014873 active site 1042876014874 catalytic tetrad [active] 1042876014875 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1042876014876 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 1042876014877 putative ribose interaction site [chemical binding]; other site 1042876014878 putative ADP binding site [chemical binding]; other site 1042876014879 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1042876014880 active site 1042876014881 nucleotide binding site [chemical binding]; other site 1042876014882 HIGH motif; other site 1042876014883 KMSKS motif; other site 1042876014884 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1042876014885 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1042876014886 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1042876014887 Walker A/P-loop; other site 1042876014888 ATP binding site [chemical binding]; other site 1042876014889 Q-loop/lid; other site 1042876014890 ABC transporter signature motif; other site 1042876014891 Walker B; other site 1042876014892 D-loop; other site 1042876014893 H-loop/switch region; other site 1042876014894 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1042876014895 O-Antigen ligase; Region: Wzy_C; pfam04932 1042876014896 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1042876014897 active site 1042876014898 substrate binding site [chemical binding]; other site 1042876014899 ATP binding site [chemical binding]; other site 1042876014900 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 1042876014901 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876014902 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876014903 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 1042876014904 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 1042876014905 Mig-14; Region: Mig-14; pfam07395 1042876014906 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1042876014907 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 1042876014908 putative ADP-binding pocket [chemical binding]; other site 1042876014909 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1042876014910 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1042876014911 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1042876014912 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1042876014913 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1042876014914 Na binding site [ion binding]; other site 1042876014915 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1042876014916 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1042876014917 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1042876014918 Glutamate binding site [chemical binding]; other site 1042876014919 NAD binding site [chemical binding]; other site 1042876014920 catalytic residues [active] 1042876014921 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876014922 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1042876014923 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1042876014924 active site 1042876014925 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1042876014926 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1042876014927 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1042876014928 putative transporter; Provisional; Region: PRK10504 1042876014929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876014930 putative substrate translocation pore; other site 1042876014931 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1042876014932 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 1042876014933 ATP binding site [chemical binding]; other site 1042876014934 Mg++ binding site [ion binding]; other site 1042876014935 motif III; other site 1042876014936 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 1042876014937 nucleotide binding region [chemical binding]; other site 1042876014938 ATP-binding site [chemical binding]; other site 1042876014939 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1042876014940 putative RNA binding site [nucleotide binding]; other site 1042876014941 HI0933-like protein; Region: HI0933_like; pfam03486 1042876014942 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1042876014943 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1042876014944 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1042876014945 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1042876014946 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876014947 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 1042876014948 substrate binding pocket [chemical binding]; other site 1042876014949 membrane-bound complex binding site; other site 1042876014950 hinge residues; other site 1042876014951 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 1042876014952 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1042876014953 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1042876014954 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876014955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876014956 active site 1042876014957 phosphorylation site [posttranslational modification] 1042876014958 intermolecular recognition site; other site 1042876014959 dimerization interface [polypeptide binding]; other site 1042876014960 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 1042876014961 PAS domain; Region: PAS_9; pfam13426 1042876014962 putative active site [active] 1042876014963 heme pocket [chemical binding]; other site 1042876014964 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876014965 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876014966 metal binding site [ion binding]; metal-binding site 1042876014967 active site 1042876014968 I-site; other site 1042876014969 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 1042876014970 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 1042876014971 intersubunit interface [polypeptide binding]; other site 1042876014972 active site 1042876014973 zinc binding site [ion binding]; other site 1042876014974 Na+ binding site [ion binding]; other site 1042876014975 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1042876014976 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1042876014977 Phosphoglycerate kinase; Region: PGK; pfam00162 1042876014978 substrate binding site [chemical binding]; other site 1042876014979 hinge regions; other site 1042876014980 ADP binding site [chemical binding]; other site 1042876014981 catalytic site [active] 1042876014982 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1042876014983 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042876014984 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042876014985 transketolase; Reviewed; Region: PRK12753 1042876014986 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 1042876014987 TPP-binding site [chemical binding]; other site 1042876014988 dimer interface [polypeptide binding]; other site 1042876014989 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 1042876014990 PYR/PP interface [polypeptide binding]; other site 1042876014991 dimer interface [polypeptide binding]; other site 1042876014992 TPP binding site [chemical binding]; other site 1042876014993 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1042876014994 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 1042876014995 putative DNA binding site [nucleotide binding]; other site 1042876014996 dimerization interface [polypeptide binding]; other site 1042876014997 putative Zn2+ binding site [ion binding]; other site 1042876014998 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1042876014999 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015000 S-adenosylmethionine binding site [chemical binding]; other site 1042876015001 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1042876015002 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1042876015003 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1042876015004 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1042876015005 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1042876015006 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 1042876015007 nucleotide binding pocket [chemical binding]; other site 1042876015008 K-X-D-G motif; other site 1042876015009 catalytic site [active] 1042876015010 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1042876015011 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1042876015012 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1042876015013 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1042876015014 MltA specific insert domain; Region: MltA; smart00925 1042876015015 3D domain; Region: 3D; pfam06725 1042876015016 MAPEG family; Region: MAPEG; cl09190 1042876015017 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1042876015018 EamA-like transporter family; Region: EamA; pfam00892 1042876015019 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1042876015020 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042876015021 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 1042876015022 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1042876015023 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1042876015024 homotetramer interface [polypeptide binding]; other site 1042876015025 ligand binding site [chemical binding]; other site 1042876015026 catalytic site [active] 1042876015027 NAD binding site [chemical binding]; other site 1042876015028 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 1042876015029 FAD binding site [chemical binding]; other site 1042876015030 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876015031 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 1042876015032 substrate binding pocket [chemical binding]; other site 1042876015033 membrane-bound complex binding site; other site 1042876015034 hinge residues; other site 1042876015035 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1042876015036 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 1042876015037 ATP binding site [chemical binding]; other site 1042876015038 Mg++ binding site [ion binding]; other site 1042876015039 motif III; other site 1042876015040 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 1042876015041 nucleotide binding region [chemical binding]; other site 1042876015042 ATP-binding site [chemical binding]; other site 1042876015043 hypothetical protein; Provisional; Region: PRK03757 1042876015044 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1042876015045 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 1042876015046 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1042876015047 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 1042876015048 inhibitor-cofactor binding pocket; inhibition site 1042876015049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876015050 catalytic residue [active] 1042876015051 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1042876015052 RNA methyltransferase, RsmE family; Region: TIGR00046 1042876015053 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1042876015054 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1042876015055 CheW-like domain; Region: CheW; pfam01584 1042876015056 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 1042876015057 putative binding surface; other site 1042876015058 active site 1042876015059 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 1042876015060 putative binding surface; other site 1042876015061 active site 1042876015062 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 1042876015063 putative binding surface; other site 1042876015064 active site 1042876015065 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1042876015066 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1042876015067 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876015068 ATP binding site [chemical binding]; other site 1042876015069 Mg2+ binding site [ion binding]; other site 1042876015070 G-X-G motif; other site 1042876015071 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 1042876015072 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876015073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015074 active site 1042876015075 phosphorylation site [posttranslational modification] 1042876015076 intermolecular recognition site; other site 1042876015077 dimerization interface [polypeptide binding]; other site 1042876015078 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1042876015079 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876015080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876015081 dimer interface [polypeptide binding]; other site 1042876015082 putative CheW interface [polypeptide binding]; other site 1042876015083 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1042876015084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015085 active site 1042876015086 phosphorylation site [posttranslational modification] 1042876015087 intermolecular recognition site; other site 1042876015088 dimerization interface [polypeptide binding]; other site 1042876015089 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876015090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015091 active site 1042876015092 phosphorylation site [posttranslational modification] 1042876015093 intermolecular recognition site; other site 1042876015094 dimerization interface [polypeptide binding]; other site 1042876015095 glutathione synthetase; Provisional; Region: PRK05246 1042876015096 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1042876015097 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1042876015098 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1042876015099 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1042876015100 hypothetical protein; Validated; Region: PRK00228 1042876015101 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1042876015102 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 1042876015103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876015104 active site 1042876015105 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1042876015106 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1042876015107 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1042876015108 dihydroorotase; Validated; Region: pyrC; PRK09357 1042876015109 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 1042876015110 active site 1042876015111 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 1042876015112 active site 1042876015113 HslU subunit interaction site [polypeptide binding]; other site 1042876015114 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1042876015115 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876015116 Walker A motif; other site 1042876015117 ATP binding site [chemical binding]; other site 1042876015118 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1042876015119 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1042876015120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1042876015121 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1042876015122 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1042876015123 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 1042876015124 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1042876015125 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 1042876015126 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 1042876015127 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876015128 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876015129 Bacterial transcriptional repressor; Region: TetR; pfam13972 1042876015130 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1042876015131 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 1042876015132 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 1042876015133 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1042876015134 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015135 S-adenosylmethionine binding site [chemical binding]; other site 1042876015136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1042876015137 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1042876015138 ABC1 family; Region: ABC1; cl17513 1042876015139 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1042876015140 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1042876015141 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 1042876015142 metal binding site [ion binding]; metal-binding site 1042876015143 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 1042876015144 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1042876015145 sec-independent translocase; Provisional; Region: tatB; PRK00404 1042876015146 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1042876015147 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1042876015148 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1042876015149 RNA methyltransferase, RsmE family; Region: TIGR00046 1042876015150 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 1042876015151 dimerization interface [polypeptide binding]; other site 1042876015152 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876015153 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876015154 dimer interface [polypeptide binding]; other site 1042876015155 putative CheW interface [polypeptide binding]; other site 1042876015156 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 1042876015157 dimerization interface [polypeptide binding]; other site 1042876015158 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1042876015159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1042876015160 dimer interface [polypeptide binding]; other site 1042876015161 putative CheW interface [polypeptide binding]; other site 1042876015162 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1042876015163 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1042876015164 Walker A/P-loop; other site 1042876015165 ATP binding site [chemical binding]; other site 1042876015166 Q-loop/lid; other site 1042876015167 ABC transporter signature motif; other site 1042876015168 Walker B; other site 1042876015169 D-loop; other site 1042876015170 H-loop/switch region; other site 1042876015171 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1042876015172 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015173 dimer interface [polypeptide binding]; other site 1042876015174 conserved gate region; other site 1042876015175 putative PBP binding loops; other site 1042876015176 ABC-ATPase subunit interface; other site 1042876015177 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1042876015178 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 1042876015179 substrate binding pocket [chemical binding]; other site 1042876015180 membrane-bound complex binding site; other site 1042876015181 hinge residues; other site 1042876015182 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1042876015183 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1042876015184 Ligand binding site; other site 1042876015185 DXD motif; other site 1042876015186 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1042876015187 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1042876015188 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 1042876015189 putative active site [active] 1042876015190 dimerization interface [polypeptide binding]; other site 1042876015191 putative tRNAtyr binding site [nucleotide binding]; other site 1042876015192 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1042876015193 TAP-like protein; Region: Abhydrolase_4; pfam08386 1042876015194 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1042876015195 imidazolonepropionase; Validated; Region: PRK09356 1042876015196 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 1042876015197 active site 1042876015198 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 1042876015199 Spore germination protein; Region: Spore_permease; cl17796 1042876015200 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1042876015201 active sites [active] 1042876015202 tetramer interface [polypeptide binding]; other site 1042876015203 urocanate hydratase; Provisional; Region: PRK05414 1042876015204 HutD; Region: HutD; pfam05962 1042876015205 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1042876015206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876015207 DNA-binding site [nucleotide binding]; DNA binding site 1042876015208 UTRA domain; Region: UTRA; pfam07702 1042876015209 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1042876015210 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 1042876015211 active site 1042876015212 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1042876015213 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1042876015214 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1042876015215 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1042876015216 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 1042876015217 AMP binding site [chemical binding]; other site 1042876015218 metal binding site [ion binding]; metal-binding site 1042876015219 active site 1042876015220 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 1042876015221 homodimer interface [polypeptide binding]; other site 1042876015222 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1042876015223 active site pocket [active] 1042876015224 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1042876015225 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876015226 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876015227 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876015228 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; pfam10142 1042876015229 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1042876015230 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1042876015231 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1042876015232 G1 box; other site 1042876015233 putative GEF interaction site [polypeptide binding]; other site 1042876015234 GTP/Mg2+ binding site [chemical binding]; other site 1042876015235 Switch I region; other site 1042876015236 G2 box; other site 1042876015237 G3 box; other site 1042876015238 Switch II region; other site 1042876015239 G4 box; other site 1042876015240 G5 box; other site 1042876015241 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 1042876015242 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 1042876015243 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1042876015244 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1042876015245 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 1042876015246 Ligand Binding Site [chemical binding]; other site 1042876015247 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1042876015248 glutamine synthetase; Provisional; Region: glnA; PRK09469 1042876015249 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1042876015250 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876015251 Cupin domain; Region: Cupin_2; pfam07883 1042876015252 Chorismate mutase type II; Region: CM_2; cl00693 1042876015253 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1042876015254 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 1042876015255 dimer interface [polypeptide binding]; other site 1042876015256 phosphorylation site [posttranslational modification] 1042876015257 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876015258 ATP binding site [chemical binding]; other site 1042876015259 Mg2+ binding site [ion binding]; other site 1042876015260 G-X-G motif; other site 1042876015261 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1042876015262 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015263 active site 1042876015264 phosphorylation site [posttranslational modification] 1042876015265 intermolecular recognition site; other site 1042876015266 dimerization interface [polypeptide binding]; other site 1042876015267 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876015268 Walker A motif; other site 1042876015269 ATP binding site [chemical binding]; other site 1042876015270 Walker B motif; other site 1042876015271 arginine finger; other site 1042876015272 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1042876015273 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1042876015274 preprotein translocase subunit SecB; Validated; Region: PRK05751 1042876015275 SecA binding site; other site 1042876015276 Preprotein binding site; other site 1042876015277 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 1042876015278 GSH binding site [chemical binding]; other site 1042876015279 catalytic residues [active] 1042876015280 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 1042876015281 active site residue [active] 1042876015282 phosphoglyceromutase; Provisional; Region: PRK05434 1042876015283 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1042876015284 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1042876015285 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042876015286 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1042876015287 C-terminal peptidase (prc); Region: prc; TIGR00225 1042876015288 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 1042876015289 protein binding site [polypeptide binding]; other site 1042876015290 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1042876015291 Catalytic dyad [active] 1042876015292 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1042876015293 NodB motif; other site 1042876015294 putative active site [active] 1042876015295 putative catalytic site [active] 1042876015296 Zn binding site [ion binding]; other site 1042876015297 BCCT family transporter; Region: BCCT; cl00569 1042876015298 transcriptional regulator BetI; Validated; Region: PRK00767 1042876015299 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876015300 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1042876015301 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1042876015302 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1042876015303 NAD(P) binding site [chemical binding]; other site 1042876015304 catalytic residues [active] 1042876015305 choline dehydrogenase; Validated; Region: PRK02106 1042876015306 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042876015307 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042876015308 potassium/proton antiporter; Reviewed; Region: PRK05326 1042876015309 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042876015310 TrkA-C domain; Region: TrkA_C; pfam02080 1042876015311 Transporter associated domain; Region: CorC_HlyC; smart01091 1042876015312 hypothetical protein; Provisional; Region: PRK11281 1042876015313 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1042876015314 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876015315 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1042876015316 hypothetical protein; Validated; Region: PRK00029 1042876015317 thioredoxin 2; Provisional; Region: PRK10996 1042876015318 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 1042876015319 catalytic residues [active] 1042876015320 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1042876015321 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 1042876015322 P-loop; other site 1042876015323 Magnesium ion binding site [ion binding]; other site 1042876015324 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 1042876015325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876015326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876015327 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 1042876015328 dimerization interface [polypeptide binding]; other site 1042876015329 substrate binding pocket [chemical binding]; other site 1042876015330 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876015331 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876015332 putative substrate translocation pore; other site 1042876015333 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1042876015334 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 1042876015335 substrate binding site [chemical binding]; other site 1042876015336 active site 1042876015337 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1042876015338 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 1042876015339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876015340 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1042876015341 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 1042876015342 active site 1042876015343 dimer interface [polypeptide binding]; other site 1042876015344 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1042876015345 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 1042876015346 active site 1042876015347 FMN binding site [chemical binding]; other site 1042876015348 substrate binding site [chemical binding]; other site 1042876015349 3Fe-4S cluster binding site [ion binding]; other site 1042876015350 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 1042876015351 domain interface; other site 1042876015352 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1042876015353 Part of AAA domain; Region: AAA_19; pfam13245 1042876015354 Sporulation related domain; Region: SPOR; pfam05036 1042876015355 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1042876015356 active site 1042876015357 dimer interface [polypeptide binding]; other site 1042876015358 metal binding site [ion binding]; metal-binding site 1042876015359 Shikimate kinase; Region: SKI; pfam01202 1042876015360 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 1042876015361 magnesium binding site [ion binding]; other site 1042876015362 putative shikimate binding site; other site 1042876015363 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1042876015364 Secretin and TonB N terminus short domain; Region: STN; smart00965 1042876015365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1042876015366 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1042876015367 Pilus assembly protein, PilO; Region: PilO; cl01234 1042876015368 Pilus assembly protein, PilP; Region: PilP; pfam04351 1042876015369 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1042876015370 Competence protein A; Region: Competence_A; pfam11104 1042876015371 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1042876015372 Transglycosylase; Region: Transgly; pfam00912 1042876015373 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1042876015374 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1042876015375 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1042876015376 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1042876015377 putative NAD(P) binding site [chemical binding]; other site 1042876015378 Staphylococcal nuclease homologues; Region: SNc; smart00318 1042876015379 Catalytic site; other site 1042876015380 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1042876015381 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1042876015382 primosome assembly protein PriA; Validated; Region: PRK05580 1042876015383 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 1042876015384 ATP binding site [chemical binding]; other site 1042876015385 putative Mg++ binding site [ion binding]; other site 1042876015386 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1042876015387 ATP-binding site [chemical binding]; other site 1042876015388 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1042876015389 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1042876015390 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1042876015391 active site 1042876015392 HIGH motif; other site 1042876015393 KMSK motif region; other site 1042876015394 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1042876015395 tRNA binding surface [nucleotide binding]; other site 1042876015396 anticodon binding site; other site 1042876015397 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1042876015398 Sporulation related domain; Region: SPOR; pfam05036 1042876015399 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 1042876015400 TM2 domain; Region: TM2; cl00984 1042876015401 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1042876015402 NlpC/P60 family; Region: NLPC_P60; pfam00877 1042876015403 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1042876015404 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 1042876015405 Walker A motif; other site 1042876015406 ATP binding site [chemical binding]; other site 1042876015407 Walker B motif; other site 1042876015408 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1042876015409 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876015410 catalytic residue [active] 1042876015411 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1042876015412 pyrroline-5-carboxylate reductase; Region: PLN02688 1042876015413 YGGT family; Region: YGGT; pfam02325 1042876015414 YGGT family; Region: YGGT; pfam02325 1042876015415 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1042876015416 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1042876015417 hypothetical protein; Provisional; Region: PRK08317 1042876015418 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015419 S-adenosylmethionine binding site [chemical binding]; other site 1042876015420 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1042876015421 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 1042876015422 active site 1042876015423 dimerization interface [polypeptide binding]; other site 1042876015424 HemN family oxidoreductase; Provisional; Region: PRK05660 1042876015425 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 1042876015426 FeS/SAM binding site; other site 1042876015427 HemN C-terminal domain; Region: HemN_C; pfam06969 1042876015428 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1042876015429 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1042876015430 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015431 S-adenosylmethionine binding site [chemical binding]; other site 1042876015432 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 1042876015433 ThiS interaction site; other site 1042876015434 putative active site [active] 1042876015435 tetramer interface [polypeptide binding]; other site 1042876015436 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1042876015437 thiS-thiF/thiG interaction site; other site 1042876015438 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1042876015439 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1042876015440 Transglycosylase; Region: Transgly; cl17702 1042876015441 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1042876015442 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1042876015443 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 1042876015444 DNA binding residues [nucleotide binding] 1042876015445 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1042876015446 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1042876015447 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1042876015448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876015449 Walker A/P-loop; other site 1042876015450 ATP binding site [chemical binding]; other site 1042876015451 Q-loop/lid; other site 1042876015452 ABC transporter signature motif; other site 1042876015453 Walker B; other site 1042876015454 D-loop; other site 1042876015455 H-loop/switch region; other site 1042876015456 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1042876015457 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1042876015458 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 1042876015459 P loop; other site 1042876015460 GTP binding site [chemical binding]; other site 1042876015461 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042876015462 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042876015463 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876015464 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042876015465 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876015466 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1042876015467 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015468 S-adenosylmethionine binding site [chemical binding]; other site 1042876015469 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042876015470 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042876015471 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876015472 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1042876015473 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1042876015474 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1042876015475 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1042876015476 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1042876015477 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 1042876015478 active site residue [active] 1042876015479 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 1042876015480 active site residue [active] 1042876015481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1042876015482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1042876015483 Bacterial transcriptional repressor; Region: TetR; pfam13972 1042876015484 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1042876015485 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1042876015486 NAD(P) binding site [chemical binding]; other site 1042876015487 catalytic residues [active] 1042876015488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1042876015489 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1042876015490 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1042876015491 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1042876015492 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1042876015493 active site 1042876015494 (T/H)XGH motif; other site 1042876015495 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1042876015496 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1042876015497 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1042876015498 DNA binding site [nucleotide binding] 1042876015499 catalytic residue [active] 1042876015500 H2TH interface [polypeptide binding]; other site 1042876015501 putative catalytic residues [active] 1042876015502 turnover-facilitating residue; other site 1042876015503 intercalation triad [nucleotide binding]; other site 1042876015504 8OG recognition residue [nucleotide binding]; other site 1042876015505 putative reading head residues; other site 1042876015506 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1042876015507 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1042876015508 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1042876015509 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1042876015510 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1042876015511 proposed catalytic triad [active] 1042876015512 conserved cys residue [active] 1042876015513 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1042876015514 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1042876015515 putative RNA binding site [nucleotide binding]; other site 1042876015516 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876015517 S-adenosylmethionine binding site [chemical binding]; other site 1042876015518 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1042876015519 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876015520 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876015521 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 1042876015522 dimerization interface [polypeptide binding]; other site 1042876015523 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1042876015524 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1042876015525 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1042876015526 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1042876015527 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 1042876015528 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1042876015529 folate binding site [chemical binding]; other site 1042876015530 NADP+ binding site [chemical binding]; other site 1042876015531 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1042876015532 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1042876015533 G1 box; other site 1042876015534 GTP/Mg2+ binding site [chemical binding]; other site 1042876015535 G2 box; other site 1042876015536 Switch I region; other site 1042876015537 G3 box; other site 1042876015538 Switch II region; other site 1042876015539 G4 box; other site 1042876015540 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1042876015541 G5 box; other site 1042876015542 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 1042876015543 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876015544 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876015545 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 1042876015546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015547 dimer interface [polypeptide binding]; other site 1042876015548 conserved gate region; other site 1042876015549 putative PBP binding loops; other site 1042876015550 ABC-ATPase subunit interface; other site 1042876015551 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015552 dimer interface [polypeptide binding]; other site 1042876015553 conserved gate region; other site 1042876015554 putative PBP binding loops; other site 1042876015555 ABC-ATPase subunit interface; other site 1042876015556 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 1042876015557 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876015558 Walker A/P-loop; other site 1042876015559 ATP binding site [chemical binding]; other site 1042876015560 Q-loop/lid; other site 1042876015561 ABC transporter signature motif; other site 1042876015562 Walker B; other site 1042876015563 D-loop; other site 1042876015564 H-loop/switch region; other site 1042876015565 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 1042876015566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876015567 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 1042876015568 dimerization interface [polypeptide binding]; other site 1042876015569 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1042876015570 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 1042876015571 metal-binding site [ion binding] 1042876015572 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1042876015573 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1042876015574 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1042876015575 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1042876015576 DNA binding residues [nucleotide binding] 1042876015577 dimer interface [polypeptide binding]; other site 1042876015578 putative metal binding site [ion binding]; other site 1042876015579 thymidylate synthase; Provisional; Region: thyA; PRK13821 1042876015580 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 1042876015581 dimerization interface [polypeptide binding]; other site 1042876015582 active site 1042876015583 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1042876015584 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1042876015585 NRDE protein; Region: NRDE; cl01315 1042876015586 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1042876015587 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1042876015588 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1042876015589 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1042876015590 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1042876015591 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 1042876015592 putative active site [active] 1042876015593 Ap4A binding site [chemical binding]; other site 1042876015594 nudix motif; other site 1042876015595 putative metal binding site [ion binding]; other site 1042876015596 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1042876015597 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 1042876015598 motif II; other site 1042876015599 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 1042876015600 threonine dehydratase; Reviewed; Region: PRK09224 1042876015601 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 1042876015602 tetramer interface [polypeptide binding]; other site 1042876015603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876015604 catalytic residue [active] 1042876015605 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1042876015606 putative Ile/Val binding site [chemical binding]; other site 1042876015607 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1042876015608 putative Ile/Val binding site [chemical binding]; other site 1042876015609 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 1042876015610 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1042876015611 active site 1042876015612 dimer interface [polypeptide binding]; other site 1042876015613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1042876015614 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1042876015615 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1042876015616 SdiA-regulated; Region: SdiA-regulated; pfam06977 1042876015617 SdiA-regulated; Region: SdiA-regulated; cd09971 1042876015618 putative active site [active] 1042876015619 SdiA-regulated; Region: SdiA-regulated; pfam06977 1042876015620 SdiA-regulated; Region: SdiA-regulated; cd09971 1042876015621 putative active site [active] 1042876015622 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1042876015623 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 1042876015624 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1042876015625 FAD binding domain; Region: FAD_binding_4; pfam01565 1042876015626 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1042876015627 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1042876015628 ligand binding site [chemical binding]; other site 1042876015629 NAD binding site [chemical binding]; other site 1042876015630 tetramer interface [polypeptide binding]; other site 1042876015631 catalytic site [active] 1042876015632 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1042876015633 L-serine binding site [chemical binding]; other site 1042876015634 ACT domain interface; other site 1042876015635 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1042876015636 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 1042876015637 substrate binding pocket [chemical binding]; other site 1042876015638 Uncharacterized conserved protein [Function unknown]; Region: COG1683 1042876015639 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1042876015640 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1042876015641 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1042876015642 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876015643 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1042876015644 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1042876015645 S-type Pyocin; Region: Pyocin_S; pfam06958 1042876015646 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 1042876015647 active site 1042876015648 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 1042876015649 maltose O-acetyltransferase; Provisional; Region: PRK10092 1042876015650 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1042876015651 active site 1042876015652 substrate binding site [chemical binding]; other site 1042876015653 trimer interface [polypeptide binding]; other site 1042876015654 CoA binding site [chemical binding]; other site 1042876015655 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1042876015656 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 1042876015657 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 1042876015658 active site 1042876015659 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876015660 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1042876015661 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1042876015662 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1042876015663 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876015664 Walker A motif; other site 1042876015665 ATP binding site [chemical binding]; other site 1042876015666 Walker B motif; other site 1042876015667 arginine finger; other site 1042876015668 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1042876015669 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1042876015670 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1042876015671 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1042876015672 Walker A/P-loop; other site 1042876015673 ATP binding site [chemical binding]; other site 1042876015674 Q-loop/lid; other site 1042876015675 ABC transporter signature motif; other site 1042876015676 Walker B; other site 1042876015677 D-loop; other site 1042876015678 H-loop/switch region; other site 1042876015679 TOBE-like domain; Region: TOBE_3; pfam12857 1042876015680 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042876015681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015682 dimer interface [polypeptide binding]; other site 1042876015683 conserved gate region; other site 1042876015684 putative PBP binding loops; other site 1042876015685 ABC-ATPase subunit interface; other site 1042876015686 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1042876015687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015688 dimer interface [polypeptide binding]; other site 1042876015689 conserved gate region; other site 1042876015690 putative PBP binding loops; other site 1042876015691 ABC-ATPase subunit interface; other site 1042876015692 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1042876015693 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876015694 Uncharacterized small protein [Function unknown]; Region: COG5583 1042876015695 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1042876015696 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876015697 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876015698 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876015699 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876015700 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1042876015701 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876015702 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 1042876015703 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1042876015704 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876015705 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015706 dimer interface [polypeptide binding]; other site 1042876015707 conserved gate region; other site 1042876015708 putative PBP binding loops; other site 1042876015709 ABC-ATPase subunit interface; other site 1042876015710 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1042876015711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015712 dimer interface [polypeptide binding]; other site 1042876015713 conserved gate region; other site 1042876015714 putative PBP binding loops; other site 1042876015715 ABC-ATPase subunit interface; other site 1042876015716 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1042876015717 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876015718 Walker A/P-loop; other site 1042876015719 ATP binding site [chemical binding]; other site 1042876015720 Q-loop/lid; other site 1042876015721 ABC transporter signature motif; other site 1042876015722 Walker B; other site 1042876015723 D-loop; other site 1042876015724 H-loop/switch region; other site 1042876015725 TOBE domain; Region: TOBE_2; pfam08402 1042876015726 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876015727 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876015728 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876015729 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876015730 putative aminotransferase; Validated; Region: PRK07480 1042876015731 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 1042876015732 inhibitor-cofactor binding pocket; inhibition site 1042876015733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876015734 catalytic residue [active] 1042876015735 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876015736 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876015737 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876015738 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876015739 N-acetylglutamate synthase; Validated; Region: PRK05279 1042876015740 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 1042876015741 putative feedback inhibition sensing region; other site 1042876015742 putative nucleotide binding site [chemical binding]; other site 1042876015743 putative substrate binding site [chemical binding]; other site 1042876015744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876015745 Coenzyme A binding pocket [chemical binding]; other site 1042876015746 acetylornithine deacetylase; Provisional; Region: PRK05111 1042876015747 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1042876015748 metal binding site [ion binding]; metal-binding site 1042876015749 putative dimer interface [polypeptide binding]; other site 1042876015750 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1042876015751 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 1042876015752 putative active site; other site 1042876015753 putative metal binding residues [ion binding]; other site 1042876015754 signature motif; other site 1042876015755 putative triphosphate binding site [ion binding]; other site 1042876015756 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876015757 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 1042876015758 putative DNA binding site [nucleotide binding]; other site 1042876015759 putative Zn2+ binding site [ion binding]; other site 1042876015760 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876015761 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1042876015762 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1042876015763 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 1042876015764 Walker A motif; other site 1042876015765 ATP binding site [chemical binding]; other site 1042876015766 Walker B motif; other site 1042876015767 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1042876015768 glycine dehydrogenase; Provisional; Region: PRK12566 1042876015769 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 1042876015770 tetramer interface [polypeptide binding]; other site 1042876015771 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876015772 catalytic residue [active] 1042876015773 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 1042876015774 tetramer interface [polypeptide binding]; other site 1042876015775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876015776 catalytic residue [active] 1042876015777 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 1042876015778 lipoyl attachment site [posttranslational modification]; other site 1042876015779 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1042876015780 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1042876015781 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1042876015782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015783 dimer interface [polypeptide binding]; other site 1042876015784 conserved gate region; other site 1042876015785 putative PBP binding loops; other site 1042876015786 ABC-ATPase subunit interface; other site 1042876015787 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876015788 dimer interface [polypeptide binding]; other site 1042876015789 conserved gate region; other site 1042876015790 putative PBP binding loops; other site 1042876015791 ABC-ATPase subunit interface; other site 1042876015792 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1042876015793 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1042876015794 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1042876015795 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1042876015796 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 1042876015797 active site 2 [active] 1042876015798 active site 1 [active] 1042876015799 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1042876015800 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1042876015801 proline aminopeptidase P II; Provisional; Region: PRK10879 1042876015802 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1042876015803 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 1042876015804 active site 1042876015805 hypothetical protein; Reviewed; Region: PRK02166 1042876015806 TIGR02449 family protein; Region: TIGR02449 1042876015807 Cell division protein ZapA; Region: ZapA; pfam05164 1042876015808 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1042876015809 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1042876015810 EVE domain; Region: EVE; cl00728 1042876015811 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1042876015812 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 1042876015813 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876015814 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1042876015815 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1042876015816 Walker A/P-loop; other site 1042876015817 ATP binding site [chemical binding]; other site 1042876015818 Q-loop/lid; other site 1042876015819 ABC transporter signature motif; other site 1042876015820 Walker B; other site 1042876015821 D-loop; other site 1042876015822 H-loop/switch region; other site 1042876015823 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1042876015824 Walker A/P-loop; other site 1042876015825 ATP binding site [chemical binding]; other site 1042876015826 Q-loop/lid; other site 1042876015827 ABC transporter signature motif; other site 1042876015828 Walker B; other site 1042876015829 D-loop; other site 1042876015830 H-loop/switch region; other site 1042876015831 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042876015832 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1042876015833 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1042876015834 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1042876015835 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1042876015836 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1042876015837 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1042876015838 NAD(P) binding site [chemical binding]; other site 1042876015839 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 1042876015840 putative active site pocket [active] 1042876015841 dimerization interface [polypeptide binding]; other site 1042876015842 putative catalytic residue [active] 1042876015843 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1042876015844 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 1042876015845 catalytic loop [active] 1042876015846 iron binding site [ion binding]; other site 1042876015847 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 1042876015848 FAD binding pocket [chemical binding]; other site 1042876015849 FAD binding motif [chemical binding]; other site 1042876015850 phosphate binding motif [ion binding]; other site 1042876015851 beta-alpha-beta structure motif; other site 1042876015852 NAD binding pocket [chemical binding]; other site 1042876015853 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1042876015854 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1042876015855 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1042876015856 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 1042876015857 RNA binding site [nucleotide binding]; other site 1042876015858 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 1042876015859 multimer interface [polypeptide binding]; other site 1042876015860 Walker A motif; other site 1042876015861 ATP binding site [chemical binding]; other site 1042876015862 Walker B motif; other site 1042876015863 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 1042876015864 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1042876015865 catalytic residues [active] 1042876015866 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1042876015867 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1042876015868 polyphosphate kinase; Provisional; Region: PRK05443 1042876015869 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1042876015870 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1042876015871 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042876015872 putative active site [active] 1042876015873 catalytic site [active] 1042876015874 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1042876015875 putative domain interface [polypeptide binding]; other site 1042876015876 putative active site [active] 1042876015877 catalytic site [active] 1042876015878 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1042876015879 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1042876015880 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1042876015881 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1042876015882 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1042876015883 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1042876015884 conserved cys residue [active] 1042876015885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1042876015886 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1042876015887 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1042876015888 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1042876015889 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1042876015890 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1042876015891 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 1042876015892 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 1042876015893 putative iron binding site [ion binding]; other site 1042876015894 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1042876015895 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1042876015896 active site 1042876015897 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876015898 substrate binding site [chemical binding]; other site 1042876015899 catalytic residues [active] 1042876015900 dimer interface [polypeptide binding]; other site 1042876015901 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1042876015902 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042876015903 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1042876015904 Protein of unknown function, DUF484; Region: DUF484; cl17449 1042876015905 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1042876015906 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 1042876015907 active site 1042876015908 DNA binding site [nucleotide binding] 1042876015909 Int/Topo IB signature motif; other site 1042876015910 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1042876015911 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 1042876015912 motif II; other site 1042876015913 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1042876015914 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1042876015915 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1042876015916 Membrane fusogenic activity; Region: BMFP; pfam04380 1042876015917 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 1042876015918 putative active site pocket [active] 1042876015919 dimerization interface [polypeptide binding]; other site 1042876015920 putative catalytic residue [active] 1042876015921 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1042876015922 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1042876015923 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1042876015924 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1042876015925 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876015926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015927 active site 1042876015928 phosphorylation site [posttranslational modification] 1042876015929 intermolecular recognition site; other site 1042876015930 dimerization interface [polypeptide binding]; other site 1042876015931 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1042876015932 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 1042876015933 DNA binding site [nucleotide binding] 1042876015934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876015935 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876015936 active site 1042876015937 phosphorylation site [posttranslational modification] 1042876015938 intermolecular recognition site; other site 1042876015939 dimerization interface [polypeptide binding]; other site 1042876015940 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 1042876015941 DNA binding residues [nucleotide binding] 1042876015942 dimerization interface [polypeptide binding]; other site 1042876015943 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1042876015944 active site 1042876015945 substrate binding site [chemical binding]; other site 1042876015946 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 1042876015947 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1042876015948 AAA ATPase domain; Region: AAA_16; pfam13191 1042876015949 Predicted ATPase [General function prediction only]; Region: COG3899 1042876015950 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1042876015951 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1042876015952 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 1042876015953 dimer interface [polypeptide binding]; other site 1042876015954 phosphorylation site [posttranslational modification] 1042876015955 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876015956 ATP binding site [chemical binding]; other site 1042876015957 Mg2+ binding site [ion binding]; other site 1042876015958 G-X-G motif; other site 1042876015959 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876015960 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 1042876015961 catalytic triad [active] 1042876015962 dimer interface [polypeptide binding]; other site 1042876015963 conserved cis-peptide bond; other site 1042876015964 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1042876015965 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876015966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876015967 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1042876015968 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1042876015969 conserved cys residue [active] 1042876015970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876015971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1042876015972 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1042876015973 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1042876015974 TrkA-N domain; Region: TrkA_N; pfam02254 1042876015975 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876015976 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 1042876015977 catalytic triad [active] 1042876015978 dimer interface [polypeptide binding]; other site 1042876015979 conserved cis-peptide bond; other site 1042876015980 LysR family transcriptional regulator; Provisional; Region: PRK14997 1042876015981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876015982 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 1042876015983 putative effector binding pocket; other site 1042876015984 putative dimerization interface [polypeptide binding]; other site 1042876015985 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876015986 Transmembrane secretion effector; Region: MFS_3; pfam05977 1042876015987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876015988 putative substrate translocation pore; other site 1042876015989 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1042876015990 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 1042876015991 active site 1042876015992 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1042876015993 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1042876015994 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1042876015995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 1042876015996 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 1042876015997 Isochorismatase family; Region: Isochorismatase; pfam00857 1042876015998 catalytic triad [active] 1042876015999 conserved cis-peptide bond; other site 1042876016000 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1042876016001 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1042876016002 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1042876016003 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 1042876016004 ligand binding site [chemical binding]; other site 1042876016005 flexible hinge region; other site 1042876016006 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876016007 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876016008 aldehyde dehydrogenase family 7 member; Region: PLN02315 1042876016009 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1042876016010 tetrameric interface [polypeptide binding]; other site 1042876016011 NAD binding site [chemical binding]; other site 1042876016012 catalytic residues [active] 1042876016013 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876016014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016015 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 1042876016016 dimerization interface [polypeptide binding]; other site 1042876016017 substrate binding pocket [chemical binding]; other site 1042876016018 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1042876016019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1042876016020 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1042876016021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016022 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 1042876016023 dimerization interface [polypeptide binding]; other site 1042876016024 multidrug efflux protein NorA; Provisional; Region: PRK00187 1042876016025 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1042876016026 cation binding site [ion binding]; other site 1042876016027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1042876016028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1042876016029 metal binding site [ion binding]; metal-binding site 1042876016030 active site 1042876016031 I-site; other site 1042876016032 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 1042876016033 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1042876016034 Part of AAA domain; Region: AAA_19; pfam13245 1042876016035 Family description; Region: UvrD_C_2; pfam13538 1042876016036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876016037 active site 1042876016038 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1042876016039 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1042876016040 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1042876016041 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1042876016042 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 1042876016043 non-specific DNA binding site [nucleotide binding]; other site 1042876016044 salt bridge; other site 1042876016045 sequence-specific DNA binding site [nucleotide binding]; other site 1042876016046 Cupin domain; Region: Cupin_2; pfam07883 1042876016047 alanine racemase; Reviewed; Region: dadX; PRK03646 1042876016048 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1042876016049 active site 1042876016050 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1042876016051 substrate binding site [chemical binding]; other site 1042876016052 catalytic residues [active] 1042876016053 dimer interface [polypeptide binding]; other site 1042876016054 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1042876016055 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1042876016056 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1042876016057 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1042876016058 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 1042876016059 putative DNA binding site [nucleotide binding]; other site 1042876016060 putative Zn2+ binding site [ion binding]; other site 1042876016061 AsnC family; Region: AsnC_trans_reg; pfam01037 1042876016062 Flagellin N-methylase; Region: FliB; pfam03692 1042876016063 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1042876016064 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1042876016065 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1042876016066 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 1042876016067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876016068 DNA-binding site [nucleotide binding]; DNA binding site 1042876016069 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 1042876016070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876016071 homodimer interface [polypeptide binding]; other site 1042876016072 catalytic residue [active] 1042876016073 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1042876016074 PLD-like domain; Region: PLDc_2; pfam13091 1042876016075 putative active site [active] 1042876016076 catalytic site [active] 1042876016077 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1042876016078 PLD-like domain; Region: PLDc_2; pfam13091 1042876016079 putative active site [active] 1042876016080 catalytic site [active] 1042876016081 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1042876016082 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1042876016083 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1042876016084 NAD(P) binding site [chemical binding]; other site 1042876016085 catalytic residues [active] 1042876016086 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 1042876016087 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1042876016088 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1042876016089 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1042876016090 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1042876016091 peptide binding site [polypeptide binding]; other site 1042876016092 hypothetical protein; Reviewed; Region: PRK00024 1042876016093 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1042876016094 MPN+ (JAMM) motif; other site 1042876016095 Zinc-binding site [ion binding]; other site 1042876016096 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1042876016097 Flavoprotein; Region: Flavoprotein; pfam02441 1042876016098 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1042876016099 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1042876016100 trimer interface [polypeptide binding]; other site 1042876016101 active site 1042876016102 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 1042876016103 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1042876016104 active site 1042876016105 substrate binding site [chemical binding]; other site 1042876016106 metal binding site [ion binding]; metal-binding site 1042876016107 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 1042876016108 feedback inhibition sensing region; other site 1042876016109 homohexameric interface [polypeptide binding]; other site 1042876016110 nucleotide binding site [chemical binding]; other site 1042876016111 N-acetyl-L-glutamate binding site [chemical binding]; other site 1042876016112 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1042876016113 active site 1042876016114 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1042876016115 putative active site [active] 1042876016116 putative catalytic site [active] 1042876016117 putative DNA binding site [nucleotide binding]; other site 1042876016118 putative phosphate binding site [ion binding]; other site 1042876016119 metal binding site A [ion binding]; metal-binding site 1042876016120 putative AP binding site [nucleotide binding]; other site 1042876016121 putative metal binding site B [ion binding]; other site 1042876016122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1042876016123 ribonuclease PH; Reviewed; Region: rph; PRK00173 1042876016124 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1042876016125 hexamer interface [polypeptide binding]; other site 1042876016126 active site 1042876016127 hypothetical protein; Provisional; Region: PRK11820 1042876016128 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1042876016129 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1042876016130 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1042876016131 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 1042876016132 catalytic site [active] 1042876016133 G-X2-G-X-G-K; other site 1042876016134 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1042876016135 Peptidase C26; Region: Peptidase_C26; pfam07722 1042876016136 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1042876016137 catalytic triad [active] 1042876016138 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1042876016139 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1042876016140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876016141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016142 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 1042876016143 dimerization interface [polypeptide binding]; other site 1042876016144 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1042876016145 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1042876016146 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1042876016147 Zn2+ binding site [ion binding]; other site 1042876016148 Mg2+ binding site [ion binding]; other site 1042876016149 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1042876016150 synthetase active site [active] 1042876016151 NTP binding site [chemical binding]; other site 1042876016152 metal binding site [ion binding]; metal-binding site 1042876016153 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 1042876016154 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1042876016155 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 1042876016156 homotrimer interaction site [polypeptide binding]; other site 1042876016157 putative active site [active] 1042876016158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1042876016159 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1042876016160 NAD(P) binding site [chemical binding]; other site 1042876016161 active site 1042876016162 tonB-system energizer ExbB; Region: exbB; TIGR02797 1042876016163 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1042876016164 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1042876016165 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1042876016166 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1042876016167 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1042876016168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016169 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 1042876016170 dimerization interface [polypeptide binding]; other site 1042876016171 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1042876016172 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 1042876016173 generic binding surface II; other site 1042876016174 ssDNA binding site; other site 1042876016175 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 1042876016176 ATP binding site [chemical binding]; other site 1042876016177 putative Mg++ binding site [ion binding]; other site 1042876016178 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 1042876016179 nucleotide binding region [chemical binding]; other site 1042876016180 ATP-binding site [chemical binding]; other site 1042876016181 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 1042876016182 putative deacylase active site [active] 1042876016183 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1042876016184 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1042876016185 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 1042876016186 IHF dimer interface [polypeptide binding]; other site 1042876016187 IHF - DNA interface [nucleotide binding]; other site 1042876016188 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1042876016189 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876016190 Rubredoxin [Energy production and conversion]; Region: COG1773 1042876016191 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 1042876016192 iron binding site [ion binding]; other site 1042876016193 Chorismate lyase; Region: Chor_lyase; cl01230 1042876016194 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1042876016195 UbiA prenyltransferase family; Region: UbiA; pfam01040 1042876016196 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1042876016197 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 1042876016198 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1042876016199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876016200 active site 1042876016201 phosphorylation site [posttranslational modification] 1042876016202 intermolecular recognition site; other site 1042876016203 dimerization interface [polypeptide binding]; other site 1042876016204 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 1042876016205 DNA binding site [nucleotide binding] 1042876016206 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1042876016207 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1042876016208 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 1042876016209 putative active site [active] 1042876016210 heme pocket [chemical binding]; other site 1042876016211 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 1042876016212 dimer interface [polypeptide binding]; other site 1042876016213 phosphorylation site [posttranslational modification] 1042876016214 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876016215 ATP binding site [chemical binding]; other site 1042876016216 Mg2+ binding site [ion binding]; other site 1042876016217 G-X-G motif; other site 1042876016218 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1042876016219 Domain of unknown function DUF21; Region: DUF21; pfam01595 1042876016220 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 1042876016221 Transporter associated domain; Region: CorC_HlyC; smart01091 1042876016222 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1042876016223 Peptidase family M23; Region: Peptidase_M23; pfam01551 1042876016224 Response regulator receiver domain; Region: Response_reg; pfam00072 1042876016225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876016226 active site 1042876016227 phosphorylation site [posttranslational modification] 1042876016228 intermolecular recognition site; other site 1042876016229 dimerization interface [polypeptide binding]; other site 1042876016230 transcriptional regulator PhoU; Provisional; Region: PRK11115 1042876016231 PhoU domain; Region: PhoU; pfam01895 1042876016232 PhoU domain; Region: PhoU; pfam01895 1042876016233 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1042876016234 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1042876016235 Walker A/P-loop; other site 1042876016236 ATP binding site [chemical binding]; other site 1042876016237 Q-loop/lid; other site 1042876016238 ABC transporter signature motif; other site 1042876016239 Walker B; other site 1042876016240 D-loop; other site 1042876016241 H-loop/switch region; other site 1042876016242 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1042876016243 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1042876016244 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876016245 dimer interface [polypeptide binding]; other site 1042876016246 conserved gate region; other site 1042876016247 putative PBP binding loops; other site 1042876016248 ABC-ATPase subunit interface; other site 1042876016249 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1042876016250 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1042876016251 dimer interface [polypeptide binding]; other site 1042876016252 conserved gate region; other site 1042876016253 putative PBP binding loops; other site 1042876016254 ABC-ATPase subunit interface; other site 1042876016255 phosphate binding protein; Region: ptsS_2; TIGR02136 1042876016256 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1042876016257 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1042876016258 metabolite-proton symporter; Region: 2A0106; TIGR00883 1042876016259 putative substrate translocation pore; other site 1042876016260 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 1042876016261 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1042876016262 active site 1042876016263 phosphate binding residues; other site 1042876016264 catalytic residues [active] 1042876016265 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1042876016266 Predicted membrane protein [Function unknown]; Region: COG2261 1042876016267 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1042876016268 ATP-grasp domain; Region: ATP-grasp; pfam02222 1042876016269 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1042876016270 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 1042876016271 active site 1042876016272 cell density-dependent motility repressor; Provisional; Region: PRK10082 1042876016273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016274 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 1042876016275 dimerization interface [polypeptide binding]; other site 1042876016276 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1042876016277 Aspartase; Region: Aspartase; cd01357 1042876016278 active sites [active] 1042876016279 tetramer interface [polypeptide binding]; other site 1042876016280 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1042876016281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1042876016282 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 1042876016283 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1042876016284 active site 1042876016285 Zn binding site [ion binding]; other site 1042876016286 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1042876016287 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1042876016288 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 1042876016289 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1042876016290 DNA-binding site [nucleotide binding]; DNA binding site 1042876016291 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 1042876016292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1042876016293 homodimer interface [polypeptide binding]; other site 1042876016294 catalytic residue [active] 1042876016295 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1042876016296 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1042876016297 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1042876016298 Coenzyme A binding pocket [chemical binding]; other site 1042876016299 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1042876016300 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1042876016301 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1042876016302 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1042876016303 active site 1042876016304 catalytic residues [active] 1042876016305 metal binding site [ion binding]; metal-binding site 1042876016306 homodimer binding site [polypeptide binding]; other site 1042876016307 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 1042876016308 carboxyltransferase (CT) interaction site; other site 1042876016309 biotinylation site [posttranslational modification]; other site 1042876016310 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1042876016311 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1042876016312 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1042876016313 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1042876016314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1042876016315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1042876016316 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 1042876016317 dimerization interface [polypeptide binding]; other site 1042876016318 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1042876016319 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1042876016320 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 1042876016321 putative active site [active] 1042876016322 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1042876016323 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1042876016324 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1042876016325 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1042876016326 Part of AAA domain; Region: AAA_19; pfam13245 1042876016327 Family description; Region: UvrD_C_2; pfam13538 1042876016328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1042876016329 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1042876016330 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1042876016331 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 1042876016332 pyridoxamine kinase; Validated; Region: PRK05756 1042876016333 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 1042876016334 pyridoxal binding site [chemical binding]; other site 1042876016335 dimer interface [polypeptide binding]; other site 1042876016336 ATP binding site [chemical binding]; other site 1042876016337 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1042876016338 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042876016339 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1042876016340 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1042876016341 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 1042876016342 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1042876016343 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1042876016344 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1042876016345 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1042876016346 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1042876016347 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1042876016348 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1042876016349 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 1042876016350 putative active site [active] 1042876016351 catalytic site [active] 1042876016352 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1042876016353 putative active site [active] 1042876016354 catalytic site [active] 1042876016355 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1042876016356 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1042876016357 S-adenosylmethionine binding site [chemical binding]; other site 1042876016358 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 1042876016359 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1042876016360 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876016361 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876016362 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1042876016363 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1042876016364 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1042876016365 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1042876016366 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 1042876016367 active site 1042876016368 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1042876016369 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1042876016370 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1042876016371 arsenical-resistance protein; Region: acr3; TIGR00832 1042876016372 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1042876016373 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1042876016374 active site 1042876016375 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 1042876016376 putative DNA binding site [nucleotide binding]; other site 1042876016377 putative Zn2+ binding site [ion binding]; other site 1042876016378 Low molecular weight phosphatase family; Region: LMWPc; cl00105 1042876016379 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 1042876016380 dimerization interface [polypeptide binding]; other site 1042876016381 putative DNA binding site [nucleotide binding]; other site 1042876016382 putative Zn2+ binding site [ion binding]; other site 1042876016383 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 1042876016384 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 1042876016385 putative metal dependent hydrolase; Provisional; Region: PRK11598 1042876016386 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1042876016387 Sulfatase; Region: Sulfatase; pfam00884 1042876016388 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1042876016389 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1042876016390 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1042876016391 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1042876016392 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1042876016393 catalytic residues [active] 1042876016394 catalytic nucleophile [active] 1042876016395 Presynaptic Site I dimer interface [polypeptide binding]; other site 1042876016396 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1042876016397 Synaptic Flat tetramer interface [polypeptide binding]; other site 1042876016398 Synaptic Site I dimer interface [polypeptide binding]; other site 1042876016399 DNA binding site [nucleotide binding] 1042876016400 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1042876016401 DNA-binding interface [nucleotide binding]; DNA binding site 1042876016402 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 1042876016403 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1042876016404 putative mercury resistance protein; Provisional; Region: PRK13747 1042876016405 transcriptional regulator MerD; Provisional; Region: PRK13749 1042876016406 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 1042876016407 DNA binding residues [nucleotide binding] 1042876016408 putative dimer interface [polypeptide binding]; other site 1042876016409 putative mercuric reductase; Provisional; Region: PRK13748 1042876016410 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 1042876016411 metal-binding site [ion binding] 1042876016412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1042876016413 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1042876016414 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 1042876016415 metal-binding site [ion binding] 1042876016416 putative mercuric transport protein; Provisional; Region: PRK13751 1042876016417 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1042876016418 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1042876016419 DNA binding residues [nucleotide binding] 1042876016420 dimer interface [polypeptide binding]; other site 1042876016421 mercury binding site [ion binding]; other site 1042876016422 hypothetical protein; Provisional; Region: PRK09272 1042876016423 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876016424 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876016425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876016426 active site 1042876016427 phosphorylation site [posttranslational modification] 1042876016428 intermolecular recognition site; other site 1042876016429 dimerization interface [polypeptide binding]; other site 1042876016430 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 1042876016431 DNA binding site [nucleotide binding] 1042876016432 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876016433 HAMP domain; Region: HAMP; pfam00672 1042876016434 dimerization interface [polypeptide binding]; other site 1042876016435 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 1042876016436 dimer interface [polypeptide binding]; other site 1042876016437 phosphorylation site [posttranslational modification] 1042876016438 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876016439 ATP binding site [chemical binding]; other site 1042876016440 Mg2+ binding site [ion binding]; other site 1042876016441 G-X-G motif; other site 1042876016442 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876016443 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1042876016444 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1042876016445 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876016446 Outer membrane efflux protein; Region: OEP; pfam02321 1042876016447 outer membrane porin, OprD family; Region: OprD; pfam03573 1042876016448 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876016449 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876016450 active site 1042876016451 phosphorylation site [posttranslational modification] 1042876016452 intermolecular recognition site; other site 1042876016453 dimerization interface [polypeptide binding]; other site 1042876016454 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 1042876016455 DNA binding site [nucleotide binding] 1042876016456 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1042876016457 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1042876016458 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1042876016459 HlyD family secretion protein; Region: HlyD_3; pfam13437 1042876016460 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1042876016461 Outer membrane efflux protein; Region: OEP; pfam02321 1042876016462 Outer membrane efflux protein; Region: OEP; pfam02321 1042876016463 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1042876016464 HAMP domain; Region: HAMP; pfam00672 1042876016465 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 1042876016466 dimer interface [polypeptide binding]; other site 1042876016467 phosphorylation site [posttranslational modification] 1042876016468 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1042876016469 ATP binding site [chemical binding]; other site 1042876016470 Mg2+ binding site [ion binding]; other site 1042876016471 G-X-G motif; other site 1042876016472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1042876016473 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1042876016474 active site 1042876016475 phosphorylation site [posttranslational modification] 1042876016476 intermolecular recognition site; other site 1042876016477 dimerization interface [polypeptide binding]; other site 1042876016478 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 1042876016479 DNA binding site [nucleotide binding] 1042876016480 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1042876016481 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1042876016482 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1042876016483 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1042876016484 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1042876016485 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 1042876016486 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1042876016487 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1042876016488 Protein of unknown function, DUF; Region: DUF411; cl01142 1042876016489 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1042876016490 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1042876016491 Integrase core domain; Region: rve; pfam00665 1042876016492 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1042876016493 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 1042876016494 glutaminase active site [active] 1042876016495 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 1042876016496 dimer interface [polypeptide binding]; other site 1042876016497 active site 1042876016498 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 1042876016499 dimer interface [polypeptide binding]; other site 1042876016500 active site 1042876016501 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1042876016502 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1042876016503 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1042876016504 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 1042876016505 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1042876016506 Substrate binding site; other site 1042876016507 Mg++ binding site; other site 1042876016508 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 1042876016509 active site 1042876016510 substrate binding site [chemical binding]; other site 1042876016511 CoA binding site [chemical binding]; other site 1042876016512 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1042876016513 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1042876016514 gamma subunit interface [polypeptide binding]; other site 1042876016515 epsilon subunit interface [polypeptide binding]; other site 1042876016516 LBP interface [polypeptide binding]; other site 1042876016517 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1042876016518 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042876016519 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 1042876016520 alpha subunit interaction interface [polypeptide binding]; other site 1042876016521 Walker A motif; other site 1042876016522 ATP binding site [chemical binding]; other site 1042876016523 Walker B motif; other site 1042876016524 inhibitor binding site; inhibition site 1042876016525 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042876016526 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1042876016527 core domain interface [polypeptide binding]; other site 1042876016528 delta subunit interface [polypeptide binding]; other site 1042876016529 epsilon subunit interface [polypeptide binding]; other site 1042876016530 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1042876016531 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1042876016532 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 1042876016533 beta subunit interaction interface [polypeptide binding]; other site 1042876016534 Walker A motif; other site 1042876016535 ATP binding site [chemical binding]; other site 1042876016536 Walker B motif; other site 1042876016537 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1042876016538 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1042876016539 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1042876016540 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1042876016541 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1042876016542 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1042876016543 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1042876016544 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1042876016545 F0F1 ATP synthase subunit I; Validated; Region: PRK05760