-- dump date 20140620_004918 -- class Genbank::misc_feature -- table misc_feature_note -- id note 384676000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 384676000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 384676000004 Walker A motif; other site 384676000005 ATP binding site [chemical binding]; other site 384676000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 384676000007 Walker B motif; other site 384676000008 arginine finger; other site 384676000009 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 384676000010 DnaA box-binding interface [nucleotide binding]; other site 384676000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 384676000012 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 384676000013 putative DNA binding surface [nucleotide binding]; other site 384676000014 dimer interface [polypeptide binding]; other site 384676000015 beta-clamp/clamp loader binding surface; other site 384676000016 beta-clamp/translesion DNA polymerase binding surface; other site 384676000017 recombination protein F; Reviewed; Region: recF; PRK00064 384676000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000019 Walker A/P-loop; other site 384676000020 ATP binding site [chemical binding]; other site 384676000021 Q-loop/lid; other site 384676000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000023 ABC transporter signature motif; other site 384676000024 Walker B; other site 384676000025 D-loop; other site 384676000026 H-loop/switch region; other site 384676000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 384676000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676000029 Mg2+ binding site [ion binding]; other site 384676000030 G-X-G motif; other site 384676000031 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 384676000032 anchoring element; other site 384676000033 dimer interface [polypeptide binding]; other site 384676000034 ATP binding site [chemical binding]; other site 384676000035 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 384676000036 active site 384676000037 putative metal-binding site [ion binding]; other site 384676000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 384676000039 PAS fold; Region: PAS_4; pfam08448 384676000040 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 384676000041 putative active site [active] 384676000042 heme pocket [chemical binding]; other site 384676000043 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676000044 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 384676000045 Walker A motif; other site 384676000046 ATP binding site [chemical binding]; other site 384676000047 Walker B motif; other site 384676000048 arginine finger; other site 384676000049 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676000050 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 384676000051 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 384676000052 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676000053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676000054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676000055 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 384676000056 dimerization interface [polypeptide binding]; other site 384676000057 choline dehydrogenase; Validated; Region: PRK02106 384676000058 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 384676000059 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676000060 putative substrate translocation pore; other site 384676000061 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 384676000062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676000063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676000064 putative acyl-acceptor binding pocket; other site 384676000065 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 384676000066 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 384676000067 active site 384676000068 motif I; other site 384676000069 motif II; other site 384676000070 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 384676000071 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 384676000072 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 384676000073 dimer interface [polypeptide binding]; other site 384676000074 motif 1; other site 384676000075 active site 384676000076 motif 2; other site 384676000077 motif 3; other site 384676000078 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 384676000079 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 384676000080 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 384676000081 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 384676000082 putative acyl-acceptor binding pocket; other site 384676000083 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 384676000084 TPR motif; other site 384676000085 binding surface 384676000086 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 384676000087 TrkA-N domain; Region: TrkA_N; pfam02254 384676000088 TrkA-C domain; Region: TrkA_C; pfam02080 384676000089 TrkA-N domain; Region: TrkA_N; pfam02254 384676000090 TrkA-C domain; Region: TrkA_C; pfam02080 384676000091 16S rRNA methyltransferase B; Provisional; Region: PRK10901 384676000092 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 384676000093 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676000094 S-adenosylmethionine binding site [chemical binding]; other site 384676000095 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 384676000096 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 384676000097 putative active site [active] 384676000098 substrate binding site [chemical binding]; other site 384676000099 putative cosubstrate binding site; other site 384676000100 catalytic site [active] 384676000101 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 384676000102 substrate binding site [chemical binding]; other site 384676000103 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 384676000104 active site 384676000105 catalytic residues [active] 384676000106 metal binding site [ion binding]; metal-binding site 384676000107 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 384676000108 DNA protecting protein DprA; Region: dprA; TIGR00732 384676000109 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 384676000110 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676000111 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 384676000112 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 384676000113 NADP binding site [chemical binding]; other site 384676000114 dimer interface [polypeptide binding]; other site 384676000115 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 384676000116 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 384676000117 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 384676000118 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 384676000119 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 384676000120 shikimate binding site; other site 384676000121 NAD(P) binding site [chemical binding]; other site 384676000122 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 384676000123 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 384676000124 Sulfate transporter family; Region: Sulfate_transp; pfam00916 384676000125 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 384676000126 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676000127 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 384676000128 Sulfatase; Region: Sulfatase; cl17466 384676000129 choline-sulfatase; Region: chol_sulfatase; TIGR03417 384676000130 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 384676000131 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 384676000132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676000133 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 384676000134 dimerization interface [polypeptide binding]; other site 384676000135 substrate binding pocket [chemical binding]; other site 384676000136 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 384676000137 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 384676000138 substrate binding site [chemical binding]; other site 384676000139 active site 384676000140 catalytic residues [active] 384676000141 heterodimer interface [polypeptide binding]; other site 384676000142 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 384676000143 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 384676000144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676000145 catalytic residue [active] 384676000146 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676000147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676000148 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 384676000149 dimerization interface [polypeptide binding]; other site 384676000150 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 384676000151 Dodecin; Region: Dodecin; pfam07311 384676000152 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 384676000153 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 384676000154 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 384676000155 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 384676000156 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 384676000157 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 384676000158 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 384676000159 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 384676000160 Eukaryotic phosphomannomutase; Region: PMM; cl17107 384676000161 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 384676000162 motif II; other site 384676000163 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 384676000164 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 384676000165 trimer interface [polypeptide binding]; other site 384676000166 putative metal binding site [ion binding]; other site 384676000167 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 384676000168 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 384676000169 active site 384676000170 Zn binding site [ion binding]; other site 384676000171 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 384676000172 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 384676000173 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 384676000174 FeS/SAM binding site; other site 384676000175 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 384676000176 active site clefts [active] 384676000177 zinc binding site [ion binding]; other site 384676000178 dimer interface [polypeptide binding]; other site 384676000179 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 384676000180 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 384676000181 Sulfate transporter family; Region: Sulfate_transp; pfam00916 384676000182 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 384676000183 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 384676000184 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 384676000185 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676000186 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 384676000187 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 384676000188 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 384676000189 Subunit I/III interface [polypeptide binding]; other site 384676000190 D-pathway; other site 384676000191 Subunit I/VIIc interface [polypeptide binding]; other site 384676000192 Subunit I/IV interface [polypeptide binding]; other site 384676000193 Subunit I/II interface [polypeptide binding]; other site 384676000194 Low-spin heme (heme a) binding site [chemical binding]; other site 384676000195 Subunit I/VIIa interface [polypeptide binding]; other site 384676000196 Subunit I/VIa interface [polypeptide binding]; other site 384676000197 Dimer interface; other site 384676000198 Putative water exit pathway; other site 384676000199 Binuclear center (heme a3/CuB) [ion binding]; other site 384676000200 K-pathway; other site 384676000201 Subunit I/Vb interface [polypeptide binding]; other site 384676000202 Putative proton exit pathway; other site 384676000203 Subunit I/VIb interface; other site 384676000204 Subunit I/VIc interface [polypeptide binding]; other site 384676000205 Electron transfer pathway; other site 384676000206 Subunit I/VIIIb interface [polypeptide binding]; other site 384676000207 Subunit I/VIIb interface [polypeptide binding]; other site 384676000208 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 384676000209 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 384676000210 Subunit III/VIIa interface [polypeptide binding]; other site 384676000211 Phospholipid binding site [chemical binding]; other site 384676000212 Subunit I/III interface [polypeptide binding]; other site 384676000213 Subunit III/VIb interface [polypeptide binding]; other site 384676000214 Subunit III/VIa interface; other site 384676000215 Subunit III/Vb interface [polypeptide binding]; other site 384676000216 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 384676000217 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 384676000218 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 384676000219 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 384676000220 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 384676000221 UbiA prenyltransferase family; Region: UbiA; pfam01040 384676000222 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 384676000223 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 384676000224 Cu(I) binding site [ion binding]; other site 384676000225 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 384676000226 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 384676000227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000228 dimer interface [polypeptide binding]; other site 384676000229 conserved gate region; other site 384676000230 ABC-ATPase subunit interface; other site 384676000231 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 384676000232 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 384676000233 Walker A/P-loop; other site 384676000234 ATP binding site [chemical binding]; other site 384676000235 Q-loop/lid; other site 384676000236 ABC transporter signature motif; other site 384676000237 Walker B; other site 384676000238 D-loop; other site 384676000239 H-loop/switch region; other site 384676000240 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 384676000241 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 384676000242 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; cl00462 384676000243 ABC-ATPase subunit interface; other site 384676000244 dimer interface [polypeptide binding]; other site 384676000245 putative PBP binding regions; other site 384676000246 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 384676000247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000248 Walker A/P-loop; other site 384676000249 ATP binding site [chemical binding]; other site 384676000250 Q-loop/lid; other site 384676000251 ABC transporter signature motif; other site 384676000252 Walker B; other site 384676000253 D-loop; other site 384676000254 H-loop/switch region; other site 384676000255 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 384676000256 metal binding site 2 [ion binding]; metal-binding site 384676000257 putative DNA binding helix; other site 384676000258 metal binding site 1 [ion binding]; metal-binding site 384676000259 dimer interface [polypeptide binding]; other site 384676000260 structural Zn2+ binding site [ion binding]; other site 384676000261 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 384676000262 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 384676000263 metal binding site [ion binding]; metal-binding site 384676000264 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 384676000265 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 384676000266 putative active site [active] 384676000267 putative substrate binding site [chemical binding]; other site 384676000268 ATP binding site [chemical binding]; other site 384676000269 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 384676000270 DNA polymerase I; Provisional; Region: PRK05755 384676000271 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 384676000272 active site 384676000273 metal binding site 1 [ion binding]; metal-binding site 384676000274 putative 5' ssDNA interaction site; other site 384676000275 metal binding site 3; metal-binding site 384676000276 metal binding site 2 [ion binding]; metal-binding site 384676000277 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 384676000278 putative DNA binding site [nucleotide binding]; other site 384676000279 putative metal binding site [ion binding]; other site 384676000280 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 384676000281 active site 384676000282 catalytic site [active] 384676000283 substrate binding site [chemical binding]; other site 384676000284 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 384676000285 active site 384676000286 DNA binding site [nucleotide binding] 384676000287 catalytic site [active] 384676000288 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 384676000289 G1 box; other site 384676000290 GTP/Mg2+ binding site [chemical binding]; other site 384676000291 Switch I region; other site 384676000292 G2 box; other site 384676000293 G3 box; other site 384676000294 Switch II region; other site 384676000295 G4 box; other site 384676000296 G5 box; other site 384676000297 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 384676000298 Cytochrome c553 [Energy production and conversion]; Region: COG2863 384676000299 Cytochrome c; Region: Cytochrom_C; cl11414 384676000300 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 384676000301 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 384676000302 catalytic residues [active] 384676000303 hinge region; other site 384676000304 alpha helical domain; other site 384676000305 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 384676000306 putative catalytic site [active] 384676000307 putative metal binding site [ion binding]; other site 384676000308 putative phosphate binding site [ion binding]; other site 384676000309 putative catalytic site [active] 384676000310 putative phosphate binding site [ion binding]; other site 384676000311 putative metal binding site [ion binding]; other site 384676000312 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676000313 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676000314 metal binding site [ion binding]; metal-binding site 384676000315 active site 384676000316 I-site; other site 384676000317 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 384676000318 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 384676000319 amidase catalytic site [active] 384676000320 Zn binding residues [ion binding]; other site 384676000321 substrate binding site [chemical binding]; other site 384676000322 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 384676000323 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 384676000324 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 384676000325 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 384676000326 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 384676000327 dimerization interface [polypeptide binding]; other site 384676000328 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 384676000329 dimer interface [polypeptide binding]; other site 384676000330 phosphorylation site [posttranslational modification] 384676000331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676000332 ATP binding site [chemical binding]; other site 384676000333 Mg2+ binding site [ion binding]; other site 384676000334 G-X-G motif; other site 384676000335 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676000336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676000337 active site 384676000338 phosphorylation site [posttranslational modification] 384676000339 intermolecular recognition site; other site 384676000340 dimerization interface [polypeptide binding]; other site 384676000341 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676000342 Walker A motif; other site 384676000343 ATP binding site [chemical binding]; other site 384676000344 Walker B motif; other site 384676000345 arginine finger; other site 384676000346 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676000347 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 384676000348 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 384676000349 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 384676000350 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 384676000351 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 384676000352 Protein of unknown function (DUF330); Region: DUF330; cl01135 384676000353 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 384676000354 mce related protein; Region: MCE; pfam02470 384676000355 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 384676000356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000357 Walker A/P-loop; other site 384676000358 ATP binding site [chemical binding]; other site 384676000359 Q-loop/lid; other site 384676000360 ABC transporter signature motif; other site 384676000361 Walker B; other site 384676000362 D-loop; other site 384676000363 H-loop/switch region; other site 384676000364 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 384676000365 Permease; Region: Permease; pfam02405 384676000366 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 384676000367 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 384676000368 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 384676000369 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 384676000370 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 384676000371 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 384676000372 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 384676000373 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 384676000374 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 384676000375 Citrate transporter; Region: CitMHS; pfam03600 384676000376 Uncharacterized conserved protein [Function unknown]; Region: COG3791 384676000377 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 384676000378 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 384676000379 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 384676000380 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 384676000381 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 384676000382 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 384676000383 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 384676000384 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 384676000385 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 384676000386 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 384676000387 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 384676000388 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 384676000389 ligand binding site [chemical binding]; other site 384676000390 homodimer interface [polypeptide binding]; other site 384676000391 NAD(P) binding site [chemical binding]; other site 384676000392 trimer interface B [polypeptide binding]; other site 384676000393 trimer interface A [polypeptide binding]; other site 384676000394 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676000395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676000396 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 384676000397 dimerization interface [polypeptide binding]; other site 384676000398 substrate binding pocket [chemical binding]; other site 384676000399 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 384676000400 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676000401 FAD binding site [chemical binding]; other site 384676000402 substrate binding pocket [chemical binding]; other site 384676000403 catalytic base [active] 384676000404 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 384676000405 CoA-transferase family III; Region: CoA_transf_3; pfam02515 384676000406 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 384676000407 putative hydrophobic ligand binding site [chemical binding]; other site 384676000408 protein interface [polypeptide binding]; other site 384676000409 gate; other site 384676000410 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676000411 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676000412 acyl-activating enzyme (AAE) consensus motif; other site 384676000413 AMP binding site [chemical binding]; other site 384676000414 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676000415 thioester reductase domain; Region: Thioester-redct; TIGR01746 384676000416 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 384676000417 putative NAD(P) binding site [chemical binding]; other site 384676000418 active site 384676000419 putative substrate binding site [chemical binding]; other site 384676000420 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 384676000421 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 384676000422 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 384676000423 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676000424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676000425 DNA-binding site [nucleotide binding]; DNA binding site 384676000426 FCD domain; Region: FCD; pfam07729 384676000427 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 384676000428 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 384676000429 dimerization interface [polypeptide binding]; other site 384676000430 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676000431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676000432 metal binding site [ion binding]; metal-binding site 384676000433 active site 384676000434 I-site; other site 384676000435 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 384676000436 Calx-beta domain; Region: Calx-beta; cl02522 384676000437 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 384676000438 metal ion-dependent adhesion site (MIDAS); other site 384676000439 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 384676000440 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676000441 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 384676000442 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 384676000443 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676000444 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 384676000445 Walker A/P-loop; other site 384676000446 ATP binding site [chemical binding]; other site 384676000447 Q-loop/lid; other site 384676000448 ABC transporter signature motif; other site 384676000449 Walker B; other site 384676000450 D-loop; other site 384676000451 H-loop/switch region; other site 384676000452 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 384676000453 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 384676000454 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676000455 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 384676000456 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 384676000457 NMT1-like family; Region: NMT1_2; pfam13379 384676000458 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 384676000459 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 384676000460 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 384676000461 Walker A/P-loop; other site 384676000462 ATP binding site [chemical binding]; other site 384676000463 Q-loop/lid; other site 384676000464 ABC transporter signature motif; other site 384676000465 Walker B; other site 384676000466 D-loop; other site 384676000467 H-loop/switch region; other site 384676000468 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676000469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000470 putative PBP binding loops; other site 384676000471 ABC-ATPase subunit interface; other site 384676000472 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 384676000473 WYL domain; Region: WYL; pfam13280 384676000474 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 384676000475 Sel1 repeat; Region: Sel1; cl02723 384676000476 transcriptional regulator SlyA; Provisional; Region: PRK03573 384676000477 MarR family; Region: MarR_2; cl17246 384676000478 Fusaric acid resistance protein family; Region: FUSC; pfam04632 384676000479 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 384676000480 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 384676000481 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 384676000482 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676000483 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676000484 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 384676000485 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 384676000486 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 384676000487 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 384676000488 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 384676000489 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676000490 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 384676000491 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 384676000492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000493 Walker A/P-loop; other site 384676000494 ATP binding site [chemical binding]; other site 384676000495 Q-loop/lid; other site 384676000496 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676000497 ABC transporter signature motif; other site 384676000498 Walker B; other site 384676000499 D-loop; other site 384676000500 ABC transporter; Region: ABC_tran_2; pfam12848 384676000501 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676000502 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 384676000503 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676000504 LysE type translocator; Region: LysE; cl00565 384676000505 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 384676000506 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 384676000507 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 384676000508 dimer interface [polypeptide binding]; other site 384676000509 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 384676000510 active site residues [active] 384676000511 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 384676000512 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 384676000513 putative deacylase active site [active] 384676000514 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 384676000515 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 384676000516 FOG: CBS domain [General function prediction only]; Region: COG0517 384676000517 hypothetical protein; Provisional; Region: PRK06156 384676000518 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 384676000519 active site 384676000520 metal binding site [ion binding]; metal-binding site 384676000521 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 384676000522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676000523 DNA-binding site [nucleotide binding]; DNA binding site 384676000524 UTRA domain; Region: UTRA; pfam07702 384676000525 putative oxidoreductase; Provisional; Region: PRK08275 384676000526 L-aspartate oxidase; Provisional; Region: PRK06175 384676000527 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 384676000528 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 384676000529 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 384676000530 HEAT repeats; Region: HEAT_2; pfam13646 384676000531 HEAT repeats; Region: HEAT_2; pfam13646 384676000532 Protein of unknown function (DUF971); Region: DUF971; pfam06155 384676000533 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 384676000534 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 384676000535 Walker A/P-loop; other site 384676000536 ATP binding site [chemical binding]; other site 384676000537 Q-loop/lid; other site 384676000538 ABC transporter signature motif; other site 384676000539 Walker B; other site 384676000540 D-loop; other site 384676000541 H-loop/switch region; other site 384676000542 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676000543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 384676000544 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676000545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 384676000546 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676000547 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 384676000548 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 384676000549 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 384676000550 active site 384676000551 iron coordination sites [ion binding]; other site 384676000552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676000553 LysR substrate binding domain; Region: LysR_substrate; pfam03466 384676000554 dimerization interface [polypeptide binding]; other site 384676000555 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676000556 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 384676000557 N-terminal plug; other site 384676000558 ligand-binding site [chemical binding]; other site 384676000559 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 384676000560 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 384676000561 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 384676000562 tetramerization interface [polypeptide binding]; other site 384676000563 NAD(P) binding site [chemical binding]; other site 384676000564 catalytic residues [active] 384676000565 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 384676000566 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 384676000567 inhibitor-cofactor binding pocket; inhibition site 384676000568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676000569 catalytic residue [active] 384676000570 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676000571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676000572 active site 384676000573 phosphorylation site [posttranslational modification] 384676000574 intermolecular recognition site; other site 384676000575 dimerization interface [polypeptide binding]; other site 384676000576 HDOD domain; Region: HDOD; pfam08668 384676000577 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 384676000578 PAS fold; Region: PAS_3; pfam08447 384676000579 putative active site [active] 384676000580 heme pocket [chemical binding]; other site 384676000581 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676000582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676000583 metal binding site [ion binding]; metal-binding site 384676000584 active site 384676000585 I-site; other site 384676000586 Fatty acid desaturase; Region: FA_desaturase; pfam00487 384676000587 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 384676000588 Di-iron ligands [ion binding]; other site 384676000589 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 384676000590 Transposase; Region: DDE_Tnp_ISL3; pfam01610 384676000591 RNase II stability modulator; Provisional; Region: PRK10060 384676000592 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 384676000593 putative active site [active] 384676000594 heme pocket [chemical binding]; other site 384676000595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676000596 metal binding site [ion binding]; metal-binding site 384676000597 active site 384676000598 I-site; other site 384676000599 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 384676000600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000601 dimer interface [polypeptide binding]; other site 384676000602 conserved gate region; other site 384676000603 ABC-ATPase subunit interface; other site 384676000604 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 384676000605 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 384676000606 Walker A/P-loop; other site 384676000607 ATP binding site [chemical binding]; other site 384676000608 Q-loop/lid; other site 384676000609 ABC transporter signature motif; other site 384676000610 Walker B; other site 384676000611 D-loop; other site 384676000612 H-loop/switch region; other site 384676000613 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 384676000614 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 384676000615 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 384676000616 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 384676000617 active site 384676000618 non-prolyl cis peptide bond; other site 384676000619 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 384676000620 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 384676000621 Flavin binding site [chemical binding]; other site 384676000622 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 384676000623 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676000624 active site 384676000625 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 384676000626 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676000627 Walker A/P-loop; other site 384676000628 ATP binding site [chemical binding]; other site 384676000629 Q-loop/lid; other site 384676000630 ABC transporter signature motif; other site 384676000631 Walker B; other site 384676000632 D-loop; other site 384676000633 H-loop/switch region; other site 384676000634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000635 dimer interface [polypeptide binding]; other site 384676000636 conserved gate region; other site 384676000637 putative PBP binding loops; other site 384676000638 ABC-ATPase subunit interface; other site 384676000639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676000640 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 384676000641 substrate binding pocket [chemical binding]; other site 384676000642 membrane-bound complex binding site; other site 384676000643 hinge residues; other site 384676000644 serine O-acetyltransferase; Region: cysE; TIGR01172 384676000645 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 384676000646 trimer interface [polypeptide binding]; other site 384676000647 active site 384676000648 substrate binding site [chemical binding]; other site 384676000649 CoA binding site [chemical binding]; other site 384676000650 BCCT family transporter; Region: BCCT; cl00569 384676000651 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 384676000652 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 384676000653 active site 384676000654 iron coordination sites [ion binding]; other site 384676000655 substrate binding pocket [chemical binding]; other site 384676000656 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676000657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000658 dimer interface [polypeptide binding]; other site 384676000659 conserved gate region; other site 384676000660 putative PBP binding loops; other site 384676000661 ABC-ATPase subunit interface; other site 384676000662 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 384676000663 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 384676000664 Walker A/P-loop; other site 384676000665 ATP binding site [chemical binding]; other site 384676000666 Q-loop/lid; other site 384676000667 ABC transporter signature motif; other site 384676000668 Walker B; other site 384676000669 D-loop; other site 384676000670 H-loop/switch region; other site 384676000671 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 384676000672 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 384676000673 substrate binding pocket [chemical binding]; other site 384676000674 membrane-bound complex binding site; other site 384676000675 hinge residues; other site 384676000676 outer membrane porin, OprD family; Region: OprD; pfam03573 384676000677 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 384676000678 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 384676000679 dimer interface [polypeptide binding]; other site 384676000680 decamer (pentamer of dimers) interface [polypeptide binding]; other site 384676000681 catalytic triad [active] 384676000682 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 384676000683 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676000684 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 384676000685 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 384676000686 substrate binding pocket [chemical binding]; other site 384676000687 membrane-bound complex binding site; other site 384676000688 hinge residues; other site 384676000689 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 384676000690 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 384676000691 active site 384676000692 dimer interface [polypeptide binding]; other site 384676000693 non-prolyl cis peptide bond; other site 384676000694 insertion regions; other site 384676000695 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676000696 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000697 dimer interface [polypeptide binding]; other site 384676000698 conserved gate region; other site 384676000699 putative PBP binding loops; other site 384676000700 ABC-ATPase subunit interface; other site 384676000701 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 384676000702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000703 Walker A/P-loop; other site 384676000704 ATP binding site [chemical binding]; other site 384676000705 Q-loop/lid; other site 384676000706 ABC transporter signature motif; other site 384676000707 Walker B; other site 384676000708 D-loop; other site 384676000709 H-loop/switch region; other site 384676000710 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 384676000711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676000712 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676000713 glutamate--cysteine ligase; Provisional; Region: PRK02107 384676000714 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 384676000715 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 384676000716 CoenzymeA binding site [chemical binding]; other site 384676000717 subunit interaction site [polypeptide binding]; other site 384676000718 PHB binding site; other site 384676000719 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 384676000720 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 384676000721 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 384676000722 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 384676000723 RNA binding site [nucleotide binding]; other site 384676000724 osmolarity response regulator; Provisional; Region: ompR; PRK09468 384676000725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676000726 active site 384676000727 phosphorylation site [posttranslational modification] 384676000728 intermolecular recognition site; other site 384676000729 dimerization interface [polypeptide binding]; other site 384676000730 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 384676000731 DNA binding site [nucleotide binding] 384676000732 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 384676000733 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 384676000734 dimerization interface [polypeptide binding]; other site 384676000735 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676000736 ATP binding site [chemical binding]; other site 384676000737 Mg2+ binding site [ion binding]; other site 384676000738 G-X-G motif; other site 384676000739 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 384676000740 RimK-like ATP-grasp domain; Region: RimK; pfam08443 384676000741 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 384676000742 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 384676000743 RNA binding surface [nucleotide binding]; other site 384676000744 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 384676000745 active site 384676000746 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 384676000747 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 384676000748 dimerization interface [polypeptide binding]; other site 384676000749 domain crossover interface; other site 384676000750 redox-dependent activation switch; other site 384676000751 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 384676000752 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 384676000753 active site 384676000754 substrate-binding site [chemical binding]; other site 384676000755 metal-binding site [ion binding] 384676000756 ATP binding site [chemical binding]; other site 384676000757 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 384676000758 active site 384676000759 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676000760 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676000761 active site 384676000762 phosphorylation site [posttranslational modification] 384676000763 intermolecular recognition site; other site 384676000764 dimerization interface [polypeptide binding]; other site 384676000765 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 384676000766 DNA binding residues [nucleotide binding] 384676000767 dimerization interface [polypeptide binding]; other site 384676000768 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 384676000769 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 384676000770 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676000771 S-adenosylmethionine binding site [chemical binding]; other site 384676000772 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 384676000773 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 384676000774 putative molybdopterin cofactor binding site [chemical binding]; other site 384676000775 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 384676000776 putative molybdopterin cofactor binding site; other site 384676000777 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 384676000778 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 384676000779 BON domain; Region: BON; pfam04972 384676000780 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676000781 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 384676000782 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 384676000783 motif II; other site 384676000784 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 384676000785 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 384676000786 dimer interface [polypeptide binding]; other site 384676000787 ADP-ribose binding site [chemical binding]; other site 384676000788 active site 384676000789 nudix motif; other site 384676000790 metal binding site [ion binding]; metal-binding site 384676000791 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 384676000792 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 384676000793 active site 384676000794 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 384676000795 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676000796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676000797 active site 384676000798 phosphorylation site [posttranslational modification] 384676000799 intermolecular recognition site; other site 384676000800 dimerization interface [polypeptide binding]; other site 384676000801 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676000802 Walker A motif; other site 384676000803 ATP binding site [chemical binding]; other site 384676000804 Walker B motif; other site 384676000805 arginine finger; other site 384676000806 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676000807 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 384676000808 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 384676000809 dimer interface [polypeptide binding]; other site 384676000810 phosphorylation site [posttranslational modification] 384676000811 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676000812 ATP binding site [chemical binding]; other site 384676000813 G-X-G motif; other site 384676000814 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 384676000815 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 384676000816 NADP binding site [chemical binding]; other site 384676000817 active site 384676000818 putative substrate binding site [chemical binding]; other site 384676000819 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 384676000820 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 384676000821 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 384676000822 substrate binding site; other site 384676000823 tetramer interface; other site 384676000824 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 384676000825 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 384676000826 NAD binding site [chemical binding]; other site 384676000827 substrate binding site [chemical binding]; other site 384676000828 homodimer interface [polypeptide binding]; other site 384676000829 active site 384676000830 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 384676000831 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 384676000832 inhibitor-cofactor binding pocket; inhibition site 384676000833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676000834 catalytic residue [active] 384676000835 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 384676000836 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 384676000837 active site 384676000838 metal binding site [ion binding]; metal-binding site 384676000839 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 384676000840 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676000841 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676000842 extended (e) SDRs; Region: SDR_e; cd08946 384676000843 NAD(P) binding site [chemical binding]; other site 384676000844 active site 384676000845 substrate binding site [chemical binding]; other site 384676000846 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676000847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676000848 S-adenosylmethionine binding site [chemical binding]; other site 384676000849 WbqC-like protein family; Region: WbqC; pfam08889 384676000850 hypothetical protein; Provisional; Region: PRK06149 384676000851 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 384676000852 active site 384676000853 ATP binding site [chemical binding]; other site 384676000854 substrate binding site [chemical binding]; other site 384676000855 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 384676000856 inhibitor-cofactor binding pocket; inhibition site 384676000857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676000858 catalytic residue [active] 384676000859 agmatine deiminase; Provisional; Region: PRK13551 384676000860 agmatine deiminase; Region: agmatine_aguA; TIGR03380 384676000861 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 384676000862 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 384676000863 N-terminal plug; other site 384676000864 ligand-binding site [chemical binding]; other site 384676000865 outer membrane porin, OprD family; Region: OprD; pfam03573 384676000866 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 384676000867 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 384676000868 active site 384676000869 FMN binding site [chemical binding]; other site 384676000870 substrate binding site [chemical binding]; other site 384676000871 3Fe-4S cluster binding site [ion binding]; other site 384676000872 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 384676000873 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000874 Walker A/P-loop; other site 384676000875 ATP binding site [chemical binding]; other site 384676000876 Q-loop/lid; other site 384676000877 ABC transporter signature motif; other site 384676000878 Walker B; other site 384676000879 D-loop; other site 384676000880 H-loop/switch region; other site 384676000881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000882 dimer interface [polypeptide binding]; other site 384676000883 conserved gate region; other site 384676000884 putative PBP binding loops; other site 384676000885 ABC-ATPase subunit interface; other site 384676000886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676000887 dimer interface [polypeptide binding]; other site 384676000888 conserved gate region; other site 384676000889 putative PBP binding loops; other site 384676000890 ABC-ATPase subunit interface; other site 384676000891 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676000892 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 384676000893 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 384676000894 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 384676000895 G1 box; other site 384676000896 GTP/Mg2+ binding site [chemical binding]; other site 384676000897 G2 box; other site 384676000898 Switch I region; other site 384676000899 G3 box; other site 384676000900 Switch II region; other site 384676000901 G4 box; other site 384676000902 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 384676000903 G5 box; other site 384676000904 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 384676000905 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 384676000906 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 384676000907 folate binding site [chemical binding]; other site 384676000908 NADP+ binding site [chemical binding]; other site 384676000909 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 384676000910 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676000911 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 384676000912 DNA binding residues [nucleotide binding] 384676000913 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676000914 FecR protein; Region: FecR; pfam04773 384676000915 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676000916 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 384676000917 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 384676000918 N-terminal plug; other site 384676000919 ligand-binding site [chemical binding]; other site 384676000920 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 384676000921 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 384676000922 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676000923 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 384676000924 ADP-ribose binding site [chemical binding]; other site 384676000925 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 384676000926 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 384676000927 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 384676000928 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 384676000929 putative RNA binding site [nucleotide binding]; other site 384676000930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676000931 S-adenosylmethionine binding site [chemical binding]; other site 384676000932 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 384676000933 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 384676000934 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 384676000935 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 384676000936 DNA binding site [nucleotide binding] 384676000937 catalytic residue [active] 384676000938 H2TH interface [polypeptide binding]; other site 384676000939 putative catalytic residues [active] 384676000940 turnover-facilitating residue; other site 384676000941 intercalation triad [nucleotide binding]; other site 384676000942 8OG recognition residue [nucleotide binding]; other site 384676000943 putative reading head residues; other site 384676000944 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 384676000945 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 384676000946 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 384676000947 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 384676000948 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 384676000949 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 384676000950 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 384676000951 active site 384676000952 (T/H)XGH motif; other site 384676000953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676000954 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 384676000955 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 384676000956 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 384676000957 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 384676000958 NAD(P) binding site [chemical binding]; other site 384676000959 catalytic residues [active] 384676000960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676000961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676000962 Bacterial transcriptional repressor; Region: TetR; pfam13972 384676000963 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 384676000964 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 384676000965 active site residue [active] 384676000966 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 384676000967 active site residue [active] 384676000968 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 384676000969 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 384676000970 nucleophilic elbow; other site 384676000971 catalytic triad; other site 384676000972 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 384676000973 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676000974 S-adenosylmethionine binding site [chemical binding]; other site 384676000975 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 384676000976 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 384676000977 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 384676000978 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 384676000979 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 384676000980 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 384676000981 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 384676000982 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 384676000983 P loop; other site 384676000984 GTP binding site [chemical binding]; other site 384676000985 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 384676000986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676000987 Walker A/P-loop; other site 384676000988 ATP binding site [chemical binding]; other site 384676000989 Q-loop/lid; other site 384676000990 ABC transporter signature motif; other site 384676000991 Walker B; other site 384676000992 D-loop; other site 384676000993 H-loop/switch region; other site 384676000994 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 384676000995 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 384676000996 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 384676000997 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 384676000998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676000999 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 384676001000 DNA binding residues [nucleotide binding] 384676001001 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 384676001002 Transglycosylase; Region: Transgly; cl17702 384676001003 Protein of unknown function (DUF423); Region: DUF423; pfam04241 384676001004 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 384676001005 thiS-thiF/thiG interaction site; other site 384676001006 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 384676001007 ThiS interaction site; other site 384676001008 putative active site [active] 384676001009 tetramer interface [polypeptide binding]; other site 384676001010 Methyltransferase domain; Region: Methyltransf_31; pfam13847 384676001011 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676001012 S-adenosylmethionine binding site [chemical binding]; other site 384676001013 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 384676001014 HemN family oxidoreductase; Provisional; Region: PRK05660 384676001015 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 384676001016 FeS/SAM binding site; other site 384676001017 HemN C-terminal domain; Region: HemN_C; pfam06969 384676001018 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 384676001019 active site 384676001020 dimerization interface [polypeptide binding]; other site 384676001021 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 384676001022 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676001023 S-adenosylmethionine binding site [chemical binding]; other site 384676001024 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 384676001025 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 384676001026 YGGT family; Region: YGGT; pfam02325 384676001027 YGGT family; Region: YGGT; pfam02325 384676001028 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 384676001029 pyrroline-5-carboxylate reductase; Region: PLN02688 384676001030 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 384676001031 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676001032 catalytic residue [active] 384676001033 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 384676001034 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 384676001035 Walker A motif; other site 384676001036 ATP binding site [chemical binding]; other site 384676001037 Walker B motif; other site 384676001038 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 384676001039 NlpC/P60 family; Region: NLPC_P60; pfam00877 384676001040 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 384676001041 TM2 domain; Region: TM2; cl00984 384676001042 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 384676001043 Sporulation related domain; Region: SPOR; pfam05036 384676001044 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 384676001045 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 384676001046 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 384676001047 active site 384676001048 HIGH motif; other site 384676001049 KMSK motif region; other site 384676001050 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 384676001051 tRNA binding surface [nucleotide binding]; other site 384676001052 anticodon binding site; other site 384676001053 primosome assembly protein PriA; Validated; Region: PRK05580 384676001054 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 384676001055 ATP binding site [chemical binding]; other site 384676001056 putative Mg++ binding site [ion binding]; other site 384676001057 helicase superfamily c-terminal domain; Region: HELICc; smart00490 384676001058 ATP-binding site [chemical binding]; other site 384676001059 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 384676001060 Staphylococcal nuclease homologues; Region: SNc; smart00318 384676001061 Catalytic site; other site 384676001062 Staphylococcal nuclease homologue; Region: SNase; pfam00565 384676001063 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 384676001064 Malic enzyme, N-terminal domain; Region: malic; pfam00390 384676001065 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 384676001066 putative NAD(P) binding site [chemical binding]; other site 384676001067 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 384676001068 Transglycosylase; Region: Transgly; pfam00912 384676001069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 384676001070 Competence protein A; Region: Competence_A; pfam11104 384676001071 Competence protein A; Region: Competence_A; pfam11104 384676001072 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 384676001073 Pilus assembly protein, PilO; Region: PilO; cl01234 384676001074 Pilus assembly protein, PilP; Region: PilP; pfam04351 384676001075 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 384676001076 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676001077 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676001078 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676001079 shikimate kinase; Reviewed; Region: aroK; PRK00131 384676001080 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 384676001081 ADP binding site [chemical binding]; other site 384676001082 magnesium binding site [ion binding]; other site 384676001083 putative shikimate binding site; other site 384676001084 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 384676001085 active site 384676001086 dimer interface [polypeptide binding]; other site 384676001087 metal binding site [ion binding]; metal-binding site 384676001088 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 384676001089 Sporulation related domain; Region: SPOR; pfam05036 384676001090 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 384676001091 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 384676001092 active site 384676001093 dimer interface [polypeptide binding]; other site 384676001094 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 384676001095 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 384676001096 active site 384676001097 FMN binding site [chemical binding]; other site 384676001098 substrate binding site [chemical binding]; other site 384676001099 3Fe-4S cluster binding site [ion binding]; other site 384676001100 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 384676001101 domain interface; other site 384676001102 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 384676001103 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 384676001104 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676001105 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 384676001106 substrate binding site [chemical binding]; other site 384676001107 active site 384676001108 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 384676001109 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676001110 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676001111 putative substrate translocation pore; other site 384676001112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676001113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676001114 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 384676001115 dimerization interface [polypeptide binding]; other site 384676001116 substrate binding pocket [chemical binding]; other site 384676001117 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 384676001118 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 384676001119 dimer interface [polypeptide binding]; other site 384676001120 active site 384676001121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676001122 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 384676001123 NAD(P) binding site [chemical binding]; other site 384676001124 active site 384676001125 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 384676001126 putative active site 1 [active] 384676001127 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 384676001128 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 384676001129 dimer interface [polypeptide binding]; other site 384676001130 active site 384676001131 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676001132 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676001133 S-adenosylmethionine binding site [chemical binding]; other site 384676001134 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 384676001135 Predicted exporter [General function prediction only]; Region: COG4258 384676001136 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 384676001137 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 384676001138 active site 384676001139 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 384676001140 active sites [active] 384676001141 tetramer interface [polypeptide binding]; other site 384676001142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 384676001143 putative acyl-acceptor binding pocket; other site 384676001144 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 384676001145 Ligand binding site; other site 384676001146 Putative Catalytic site; other site 384676001147 DXD motif; other site 384676001148 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676001149 AMP-binding enzyme; Region: AMP-binding; pfam00501 384676001150 acyl-activating enzyme (AAE) consensus motif; other site 384676001151 CoA binding site [chemical binding]; other site 384676001152 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 384676001153 active site 2 [active] 384676001154 dimer interface [polypeptide binding]; other site 384676001155 active site 1 [active] 384676001156 Predicted membrane protein [Function unknown]; Region: COG4648 384676001157 acyl carrier protein; Provisional; Region: PRK05350 384676001158 Phosphopantetheine attachment site; Region: PP-binding; cl09936 384676001159 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676001160 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676001161 putative acyl-acceptor binding pocket; other site 384676001162 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 384676001163 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 384676001164 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 384676001165 P-loop; other site 384676001166 Magnesium ion binding site [ion binding]; other site 384676001167 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 384676001168 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 384676001169 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 384676001170 non-specific DNA binding site [nucleotide binding]; other site 384676001171 salt bridge; other site 384676001172 sequence-specific DNA binding site [nucleotide binding]; other site 384676001173 thioredoxin 2; Provisional; Region: PRK10996 384676001174 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 384676001175 catalytic residues [active] 384676001176 Uncharacterized conserved protein [Function unknown]; Region: COG0397 384676001177 hypothetical protein; Validated; Region: PRK00029 384676001178 hypothetical protein; Provisional; Region: PRK11281 384676001179 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 384676001180 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676001181 potassium/proton antiporter; Reviewed; Region: PRK05326 384676001182 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 384676001183 TrkA-C domain; Region: TrkA_C; pfam02080 384676001184 Transporter associated domain; Region: CorC_HlyC; smart01091 384676001185 choline dehydrogenase; Validated; Region: PRK02106 384676001186 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 384676001187 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 384676001188 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 384676001189 NAD(P) binding site [chemical binding]; other site 384676001190 catalytic residues [active] 384676001191 transcriptional regulator BetI; Validated; Region: PRK00767 384676001192 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676001193 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 384676001194 BCCT family transporter; Region: BCCT; cl00569 384676001195 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 384676001196 NodB motif; other site 384676001197 putative active site [active] 384676001198 putative catalytic site [active] 384676001199 Zn binding site [ion binding]; other site 384676001200 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 384676001201 C-terminal peptidase (prc); Region: prc; TIGR00225 384676001202 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 384676001203 protein binding site [polypeptide binding]; other site 384676001204 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 384676001205 Catalytic dyad [active] 384676001206 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 384676001207 Peptidase family M23; Region: Peptidase_M23; pfam01551 384676001208 phosphoglyceromutase; Provisional; Region: PRK05434 384676001209 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 384676001210 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 384676001211 active site residue [active] 384676001212 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 384676001213 GSH binding site [chemical binding]; other site 384676001214 catalytic residues [active] 384676001215 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 384676001216 SecA binding site; other site 384676001217 Preprotein binding site; other site 384676001218 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 384676001219 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 384676001220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676001221 active site 384676001222 phosphorylation site [posttranslational modification] 384676001223 intermolecular recognition site; other site 384676001224 dimerization interface [polypeptide binding]; other site 384676001225 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676001226 Walker A motif; other site 384676001227 ATP binding site [chemical binding]; other site 384676001228 Walker B motif; other site 384676001229 arginine finger; other site 384676001230 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676001231 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 384676001232 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 384676001233 dimer interface [polypeptide binding]; other site 384676001234 phosphorylation site [posttranslational modification] 384676001235 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676001236 ATP binding site [chemical binding]; other site 384676001237 Mg2+ binding site [ion binding]; other site 384676001238 G-X-G motif; other site 384676001239 chorismate mutase; Provisional; Region: PRK09269 384676001240 Chorismate mutase type II; Region: CM_2; cl00693 384676001241 glutamine synthetase; Provisional; Region: glnA; PRK09469 384676001242 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 384676001243 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676001244 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 384676001245 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 384676001246 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 384676001247 Ligand Binding Site [chemical binding]; other site 384676001248 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 384676001249 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 384676001250 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 384676001251 G1 box; other site 384676001252 putative GEF interaction site [polypeptide binding]; other site 384676001253 GTP/Mg2+ binding site [chemical binding]; other site 384676001254 Switch I region; other site 384676001255 G2 box; other site 384676001256 G3 box; other site 384676001257 Switch II region; other site 384676001258 G4 box; other site 384676001259 G5 box; other site 384676001260 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 384676001261 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 384676001262 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 384676001263 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676001264 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 384676001265 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 384676001266 FeS/SAM binding site; other site 384676001267 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 384676001268 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 384676001269 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 384676001270 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 384676001271 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 384676001272 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 384676001273 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 384676001274 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 384676001275 Predicted amidohydrolase [General function prediction only]; Region: COG0388 384676001276 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 384676001277 putative active site [active] 384676001278 catalytic triad [active] 384676001279 putative dimer interface [polypeptide binding]; other site 384676001280 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 384676001281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676001282 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 384676001283 non-specific DNA binding site [nucleotide binding]; other site 384676001284 salt bridge; other site 384676001285 sequence-specific DNA binding site [nucleotide binding]; other site 384676001286 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676001287 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 384676001288 putative DNA binding site [nucleotide binding]; other site 384676001289 putative Zn2+ binding site [ion binding]; other site 384676001290 AsnC family; Region: AsnC_trans_reg; pfam01037 384676001291 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 384676001292 hypothetical protein; Reviewed; Region: PRK09588 384676001293 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 384676001294 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 384676001295 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 384676001296 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676001297 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 384676001298 substrate binding pocket [chemical binding]; other site 384676001299 membrane-bound complex binding site; other site 384676001300 hinge residues; other site 384676001301 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 384676001302 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 384676001303 putative active site [active] 384676001304 heme pocket [chemical binding]; other site 384676001305 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 384676001306 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 384676001307 putative active site [active] 384676001308 heme pocket [chemical binding]; other site 384676001309 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 384676001310 putative active site [active] 384676001311 heme pocket [chemical binding]; other site 384676001312 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 384676001313 putative active site [active] 384676001314 heme pocket [chemical binding]; other site 384676001315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676001316 metal binding site [ion binding]; metal-binding site 384676001317 active site 384676001318 I-site; other site 384676001319 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 384676001320 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 384676001321 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 384676001322 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 384676001323 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 384676001324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676001325 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 384676001326 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 384676001327 DNA binding residues [nucleotide binding] 384676001328 DNA primase, catalytic core; Region: dnaG; TIGR01391 384676001329 CHC2 zinc finger; Region: zf-CHC2; pfam01807 384676001330 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 384676001331 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 384676001332 active site 384676001333 metal binding site [ion binding]; metal-binding site 384676001334 interdomain interaction site; other site 384676001335 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 384676001336 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 384676001337 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 384676001338 UGMP family protein; Validated; Region: PRK09604 384676001339 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 384676001340 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 384676001341 Dihydroneopterin aldolase; Region: FolB; smart00905 384676001342 active site 384676001343 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 384676001344 catalytic center binding site [active] 384676001345 ATP binding site [chemical binding]; other site 384676001346 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 384676001347 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 384676001348 active site 384676001349 NTP binding site [chemical binding]; other site 384676001350 metal binding triad [ion binding]; metal-binding site 384676001351 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 384676001352 SpoVR family protein; Provisional; Region: PRK11767 384676001353 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 384676001354 hypothetical protein; Provisional; Region: PRK05325 384676001355 PrkA family serine protein kinase; Provisional; Region: PRK15455 384676001356 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 384676001357 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 384676001358 active site residue [active] 384676001359 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 384676001360 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 384676001361 active site 384676001362 metal binding site [ion binding]; metal-binding site 384676001363 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 384676001364 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 384676001365 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 384676001366 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 384676001367 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 384676001368 SurA N-terminal domain; Region: SurA_N; pfam09312 384676001369 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 384676001370 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 384676001371 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 384676001372 OstA-like protein; Region: OstA; cl00844 384676001373 Organic solvent tolerance protein; Region: OstA_C; pfam04453 384676001374 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 384676001375 Phosphotransferase enzyme family; Region: APH; pfam01636 384676001376 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 384676001377 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 384676001378 Substrate binding site; other site 384676001379 metal-binding site 384676001380 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 384676001381 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 384676001382 putative metal binding site [ion binding]; other site 384676001383 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 384676001384 HSP70 interaction site [polypeptide binding]; other site 384676001385 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 384676001386 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 384676001387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676001388 substrate binding pocket [chemical binding]; other site 384676001389 membrane-bound complex binding site; other site 384676001390 hinge residues; other site 384676001391 PAS domain; Region: PAS_9; pfam13426 384676001392 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 384676001393 putative active site [active] 384676001394 heme pocket [chemical binding]; other site 384676001395 PAS fold; Region: PAS_3; pfam08447 384676001396 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 384676001397 Histidine kinase; Region: HisKA_3; pfam07730 384676001398 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676001399 ATP binding site [chemical binding]; other site 384676001400 Mg2+ binding site [ion binding]; other site 384676001401 G-X-G motif; other site 384676001402 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676001403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676001404 active site 384676001405 phosphorylation site [posttranslational modification] 384676001406 intermolecular recognition site; other site 384676001407 dimerization interface [polypeptide binding]; other site 384676001408 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 384676001409 DNA binding residues [nucleotide binding] 384676001410 dimerization interface [polypeptide binding]; other site 384676001411 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 384676001412 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 384676001413 Walker A/P-loop; other site 384676001414 ATP binding site [chemical binding]; other site 384676001415 Q-loop/lid; other site 384676001416 ABC transporter signature motif; other site 384676001417 Walker B; other site 384676001418 D-loop; other site 384676001419 H-loop/switch region; other site 384676001420 TOBE domain; Region: TOBE_2; pfam08402 384676001421 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 384676001422 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676001423 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676001424 dimer interface [polypeptide binding]; other site 384676001425 conserved gate region; other site 384676001426 putative PBP binding loops; other site 384676001427 ABC-ATPase subunit interface; other site 384676001428 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676001429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676001430 dimer interface [polypeptide binding]; other site 384676001431 conserved gate region; other site 384676001432 putative PBP binding loops; other site 384676001433 ABC-ATPase subunit interface; other site 384676001434 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 384676001435 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 384676001436 substrate binding site [chemical binding]; other site 384676001437 hexamer interface [polypeptide binding]; other site 384676001438 metal binding site [ion binding]; metal-binding site 384676001439 phosphoglycolate phosphatase; Provisional; Region: PRK13223 384676001440 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676001441 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 384676001442 motif II; other site 384676001443 anthranilate synthase component I; Provisional; Region: PRK13565 384676001444 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 384676001445 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 384676001446 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 384676001447 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 384676001448 active site 384676001449 catalytic triad [active] 384676001450 oxyanion hole [active] 384676001451 Autotransporter beta-domain; Region: Autotransporter; pfam03797 384676001452 phosphoglycolate phosphatase; Provisional; Region: PRK13223 384676001453 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 384676001454 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 384676001455 glutamine binding [chemical binding]; other site 384676001456 catalytic triad [active] 384676001457 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 384676001458 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 384676001459 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 384676001460 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 384676001461 active site 384676001462 ribulose/triose binding site [chemical binding]; other site 384676001463 phosphate binding site [ion binding]; other site 384676001464 substrate (anthranilate) binding pocket [chemical binding]; other site 384676001465 product (indole) binding pocket [chemical binding]; other site 384676001466 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 384676001467 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 384676001468 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 384676001469 ligand binding site [chemical binding]; other site 384676001470 flexible hinge region; other site 384676001471 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 384676001472 putative switch regulator; other site 384676001473 non-specific DNA interactions [nucleotide binding]; other site 384676001474 DNA binding site [nucleotide binding] 384676001475 sequence specific DNA binding site [nucleotide binding]; other site 384676001476 putative cAMP binding site [chemical binding]; other site 384676001477 OsmC-like protein; Region: OsmC; cl00767 384676001478 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 384676001479 diiron binding motif [ion binding]; other site 384676001480 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 384676001481 nucleotide binding site/active site [active] 384676001482 HIT family signature motif; other site 384676001483 catalytic residue [active] 384676001484 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 384676001485 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676001486 NAD(P) binding site [chemical binding]; other site 384676001487 active site 384676001488 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 384676001489 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 384676001490 FMN binding site [chemical binding]; other site 384676001491 substrate binding site [chemical binding]; other site 384676001492 putative catalytic residue [active] 384676001493 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 384676001494 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 384676001495 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 384676001496 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 384676001497 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 384676001498 putative peptidase; Provisional; Region: PRK11649 384676001499 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 384676001500 Peptidase family M23; Region: Peptidase_M23; pfam01551 384676001501 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 384676001502 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 384676001503 active site 384676001504 HIGH motif; other site 384676001505 dimer interface [polypeptide binding]; other site 384676001506 KMSKS motif; other site 384676001507 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; cl09940 384676001508 RNA binding surface [nucleotide binding]; other site 384676001509 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 384676001510 Biotin operon repressor [Transcription]; Region: BirA; COG1654 384676001511 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 384676001512 pantothenate kinase; Reviewed; Region: PRK13322 384676001513 elongation factor Tu; Reviewed; Region: PRK00049 384676001514 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 384676001515 G1 box; other site 384676001516 GEF interaction site [polypeptide binding]; other site 384676001517 GTP/Mg2+ binding site [chemical binding]; other site 384676001518 Switch I region; other site 384676001519 G2 box; other site 384676001520 G3 box; other site 384676001521 Switch II region; other site 384676001522 G4 box; other site 384676001523 G5 box; other site 384676001524 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 384676001525 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 384676001526 Antibiotic Binding Site [chemical binding]; other site 384676001527 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 384676001528 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 384676001529 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 384676001530 putative homodimer interface [polypeptide binding]; other site 384676001531 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 384676001532 heterodimer interface [polypeptide binding]; other site 384676001533 homodimer interface [polypeptide binding]; other site 384676001534 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 384676001535 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 384676001536 23S rRNA interface [nucleotide binding]; other site 384676001537 L7/L12 interface [polypeptide binding]; other site 384676001538 putative thiostrepton binding site; other site 384676001539 L25 interface [polypeptide binding]; other site 384676001540 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 384676001541 mRNA/rRNA interface [nucleotide binding]; other site 384676001542 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 384676001543 23S rRNA interface [nucleotide binding]; other site 384676001544 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 384676001545 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 384676001546 core dimer interface [polypeptide binding]; other site 384676001547 peripheral dimer interface [polypeptide binding]; other site 384676001548 L10 interface [polypeptide binding]; other site 384676001549 L11 interface [polypeptide binding]; other site 384676001550 putative EF-Tu interaction site [polypeptide binding]; other site 384676001551 putative EF-G interaction site [polypeptide binding]; other site 384676001552 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 384676001553 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 384676001554 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 384676001555 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 384676001556 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 384676001557 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 384676001558 RPB3 interaction site [polypeptide binding]; other site 384676001559 RPB1 interaction site [polypeptide binding]; other site 384676001560 RPB11 interaction site [polypeptide binding]; other site 384676001561 RPB10 interaction site [polypeptide binding]; other site 384676001562 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 384676001563 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 384676001564 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 384676001565 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 384676001566 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 384676001567 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 384676001568 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 384676001569 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 384676001570 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 384676001571 DNA binding site [nucleotide binding] 384676001572 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 384676001573 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 384676001574 S17 interaction site [polypeptide binding]; other site 384676001575 S8 interaction site; other site 384676001576 16S rRNA interaction site [nucleotide binding]; other site 384676001577 streptomycin interaction site [chemical binding]; other site 384676001578 23S rRNA interaction site [nucleotide binding]; other site 384676001579 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 384676001580 30S ribosomal protein S7; Validated; Region: PRK05302 384676001581 elongation factor G; Reviewed; Region: PRK00007 384676001582 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 384676001583 G1 box; other site 384676001584 putative GEF interaction site [polypeptide binding]; other site 384676001585 GTP/Mg2+ binding site [chemical binding]; other site 384676001586 Switch I region; other site 384676001587 G2 box; other site 384676001588 G3 box; other site 384676001589 Switch II region; other site 384676001590 G4 box; other site 384676001591 G5 box; other site 384676001592 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 384676001593 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 384676001594 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 384676001595 elongation factor Tu; Reviewed; Region: PRK00049 384676001596 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 384676001597 G1 box; other site 384676001598 GEF interaction site [polypeptide binding]; other site 384676001599 GTP/Mg2+ binding site [chemical binding]; other site 384676001600 Switch I region; other site 384676001601 G2 box; other site 384676001602 G3 box; other site 384676001603 Switch II region; other site 384676001604 G4 box; other site 384676001605 G5 box; other site 384676001606 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 384676001607 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 384676001608 Antibiotic Binding Site [chemical binding]; other site 384676001609 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 384676001610 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 384676001611 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 384676001612 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 384676001613 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 384676001614 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 384676001615 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 384676001616 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 384676001617 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 384676001618 protein-rRNA interface [nucleotide binding]; other site 384676001619 putative translocon binding site; other site 384676001620 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 384676001621 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 384676001622 G-X-X-G motif; other site 384676001623 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 384676001624 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 384676001625 23S rRNA interface [nucleotide binding]; other site 384676001626 5S rRNA interface [nucleotide binding]; other site 384676001627 putative antibiotic binding site [chemical binding]; other site 384676001628 L25 interface [polypeptide binding]; other site 384676001629 L27 interface [polypeptide binding]; other site 384676001630 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 384676001631 23S rRNA interface [nucleotide binding]; other site 384676001632 putative translocon interaction site; other site 384676001633 signal recognition particle (SRP54) interaction site; other site 384676001634 L23 interface [polypeptide binding]; other site 384676001635 trigger factor interaction site; other site 384676001636 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 384676001637 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 384676001638 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 384676001639 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 384676001640 RNA binding site [nucleotide binding]; other site 384676001641 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 384676001642 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 384676001643 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 384676001644 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 384676001645 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 384676001646 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 384676001647 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 384676001648 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 384676001649 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 384676001650 5S rRNA interface [nucleotide binding]; other site 384676001651 23S rRNA interface [nucleotide binding]; other site 384676001652 L5 interface [polypeptide binding]; other site 384676001653 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 384676001654 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 384676001655 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 384676001656 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 384676001657 23S rRNA binding site [nucleotide binding]; other site 384676001658 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 384676001659 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 384676001660 SecY translocase; Region: SecY; pfam00344 384676001661 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 384676001662 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 384676001663 30S ribosomal protein S13; Region: bact_S13; TIGR03631 384676001664 30S ribosomal protein S11; Validated; Region: PRK05309 384676001665 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 384676001666 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 384676001667 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 384676001668 RNA binding surface [nucleotide binding]; other site 384676001669 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 384676001670 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 384676001671 alphaNTD homodimer interface [polypeptide binding]; other site 384676001672 alphaNTD - beta interaction site [polypeptide binding]; other site 384676001673 alphaNTD - beta' interaction site [polypeptide binding]; other site 384676001674 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 384676001675 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 384676001676 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 384676001677 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 384676001678 tetramer interface [polypeptide binding]; other site 384676001679 heme binding pocket [chemical binding]; other site 384676001680 NADPH binding site [chemical binding]; other site 384676001681 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 384676001682 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 384676001683 heme binding site [chemical binding]; other site 384676001684 ferroxidase pore; other site 384676001685 ferroxidase diiron center [ion binding]; other site 384676001686 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 384676001687 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 384676001688 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 384676001689 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 384676001690 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676001691 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676001692 putative substrate translocation pore; other site 384676001693 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 384676001694 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 384676001695 dimer interface [polypeptide binding]; other site 384676001696 ssDNA binding site [nucleotide binding]; other site 384676001697 tetramer (dimer of dimers) interface [polypeptide binding]; other site 384676001698 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 384676001699 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 384676001700 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 384676001701 Protein of unknown function (DUF770); Region: DUF770; pfam05591 384676001702 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 384676001703 Protein of unknown function (DUF877); Region: DUF877; pfam05943 384676001704 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 384676001705 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 384676001706 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 384676001707 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 384676001708 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 384676001709 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676001710 Walker A motif; other site 384676001711 ATP binding site [chemical binding]; other site 384676001712 Walker B motif; other site 384676001713 arginine finger; other site 384676001714 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676001715 Walker A motif; other site 384676001716 ATP binding site [chemical binding]; other site 384676001717 Walker B motif; other site 384676001718 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 384676001719 GAF domain; Region: GAF; cl17456 384676001720 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676001721 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 384676001722 Walker A motif; other site 384676001723 ATP binding site [chemical binding]; other site 384676001724 Walker B motif; other site 384676001725 arginine finger; other site 384676001726 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676001727 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 384676001728 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 384676001729 phosphopeptide binding site; other site 384676001730 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 384676001731 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 384676001732 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 384676001733 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 384676001734 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 384676001735 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 384676001736 G1 box; other site 384676001737 GTP/Mg2+ binding site [chemical binding]; other site 384676001738 G2 box; other site 384676001739 Switch I region; other site 384676001740 G3 box; other site 384676001741 Switch II region; other site 384676001742 G4 box; other site 384676001743 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 384676001744 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 384676001745 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 384676001746 active site 384676001747 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 384676001748 Catalytic domain of Protein Kinases; Region: PKc; cd00180 384676001749 active site 384676001750 ATP binding site [chemical binding]; other site 384676001751 substrate binding site [chemical binding]; other site 384676001752 activation loop (A-loop); other site 384676001753 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 384676001754 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676001755 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676001756 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676001757 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676001758 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 384676001759 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 384676001760 RHS Repeat; Region: RHS_repeat; pfam05593 384676001761 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676001762 RHS Repeat; Region: RHS_repeat; cl11982 384676001763 RHS Repeat; Region: RHS_repeat; pfam05593 384676001764 RHS protein; Region: RHS; pfam03527 384676001765 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676001766 Pput_2613-like deaminase; Region: Pput2613-deam; pfam14427 384676001767 Cytochrome P450; Region: p450; cl12078 384676001768 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 384676001769 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 384676001770 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 384676001771 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 384676001772 PAAR motif; Region: PAAR_motif; pfam05488 384676001773 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 384676001774 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 384676001775 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 384676001776 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 384676001777 molybdopterin cofactor binding site; other site 384676001778 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 384676001779 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 384676001780 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 384676001781 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 384676001782 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 384676001783 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 384676001784 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 384676001785 selenocysteine synthase; Provisional; Region: PRK04311 384676001786 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 384676001787 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 384676001788 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676001789 catalytic residue [active] 384676001790 catalytic residue [active] 384676001791 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 384676001792 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 384676001793 G1 box; other site 384676001794 putative GEF interaction site [polypeptide binding]; other site 384676001795 GTP/Mg2+ binding site [chemical binding]; other site 384676001796 Switch I region; other site 384676001797 G2 box; other site 384676001798 G3 box; other site 384676001799 Switch II region; other site 384676001800 G4 box; other site 384676001801 G5 box; other site 384676001802 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 384676001803 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 384676001804 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 384676001805 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 384676001806 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 384676001807 active site 384676001808 homodimer interface [polypeptide binding]; other site 384676001809 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 384676001810 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 384676001811 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 384676001812 sequence-specific DNA binding site [nucleotide binding]; other site 384676001813 salt bridge; other site 384676001814 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676001815 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 384676001816 catalytic site [active] 384676001817 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 384676001818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676001819 NAD(P) binding site [chemical binding]; other site 384676001820 active site 384676001821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676001822 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676001823 NAD(P) binding site [chemical binding]; other site 384676001824 active site 384676001825 Predicted transcriptional regulators [Transcription]; Region: COG1733 384676001826 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 384676001827 OmpW family; Region: OmpW; cl17427 384676001828 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 384676001829 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 384676001830 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 384676001831 FtsX-like permease family; Region: FtsX; pfam02687 384676001832 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 384676001833 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 384676001834 Walker A/P-loop; other site 384676001835 ATP binding site [chemical binding]; other site 384676001836 Q-loop/lid; other site 384676001837 ABC transporter signature motif; other site 384676001838 Walker B; other site 384676001839 D-loop; other site 384676001840 H-loop/switch region; other site 384676001841 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 384676001842 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 384676001843 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 384676001844 Predicted methyltransferase [General function prediction only]; Region: COG3897 384676001845 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676001846 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 384676001847 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 384676001848 ATP cone domain; Region: ATP-cone; pfam03477 384676001849 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 384676001850 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 384676001851 catalytic motif [active] 384676001852 Zn binding site [ion binding]; other site 384676001853 RibD C-terminal domain; Region: RibD_C; cl17279 384676001854 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 384676001855 Lumazine binding domain; Region: Lum_binding; pfam00677 384676001856 Lumazine binding domain; Region: Lum_binding; pfam00677 384676001857 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 384676001858 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 384676001859 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 384676001860 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 384676001861 homopentamer interface [polypeptide binding]; other site 384676001862 active site 384676001863 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 384676001864 putative RNA binding site [nucleotide binding]; other site 384676001865 thiamine monophosphate kinase; Provisional; Region: PRK05731 384676001866 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 384676001867 ATP binding site [chemical binding]; other site 384676001868 dimerization interface [polypeptide binding]; other site 384676001869 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 384676001870 tetramer interfaces [polypeptide binding]; other site 384676001871 binuclear metal-binding site [ion binding]; other site 384676001872 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676001873 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676001874 substrate binding pocket [chemical binding]; other site 384676001875 membrane-bound complex binding site; other site 384676001876 hinge residues; other site 384676001877 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 384676001878 dimerization interface [polypeptide binding]; other site 384676001879 active site 384676001880 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 384676001881 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 384676001882 cobalamin binding residues [chemical binding]; other site 384676001883 putative BtuC binding residues; other site 384676001884 dimer interface [polypeptide binding]; other site 384676001885 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 384676001886 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 384676001887 N-terminal plug; other site 384676001888 ligand-binding site [chemical binding]; other site 384676001889 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 384676001890 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 384676001891 TPP-binding site; other site 384676001892 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 384676001893 PYR/PP interface [polypeptide binding]; other site 384676001894 dimer interface [polypeptide binding]; other site 384676001895 TPP binding site [chemical binding]; other site 384676001896 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 384676001897 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 384676001898 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 384676001899 substrate binding pocket [chemical binding]; other site 384676001900 chain length determination region; other site 384676001901 substrate-Mg2+ binding site; other site 384676001902 catalytic residues [active] 384676001903 aspartate-rich region 1; other site 384676001904 active site lid residues [active] 384676001905 aspartate-rich region 2; other site 384676001906 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 384676001907 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 384676001908 SGNH_peri2; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri2; cd01829 384676001909 active site 384676001910 catalytic triad [active] 384676001911 oxyanion hole [active] 384676001912 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cl01053 384676001913 SGNH_peri1; putative periplasmic member of the SGNH-family of 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...; Region: SGNH_hydrolase_peri1; cd01825 384676001914 active site 384676001915 oxyanion hole [active] 384676001916 catalytic triad [active] 384676001917 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676001918 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 384676001919 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 384676001920 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology 384676001921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676001922 AAA domain; Region: AAA_21; pfam13304 384676001923 Walker A/P-loop; other site 384676001924 ATP binding site [chemical binding]; other site 384676001925 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676001926 ABC transporter signature motif; other site 384676001927 Walker B; other site 384676001928 D-loop; other site 384676001929 H-loop/switch region; other site 384676001930 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 384676001931 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 384676001932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676001933 Walker A motif; other site 384676001934 ATP binding site [chemical binding]; other site 384676001935 Walker B motif; other site 384676001936 arginine finger; other site 384676001937 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 384676001938 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 384676001939 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 384676001940 hypothetical protein; Reviewed; Region: PRK09588 384676001941 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 384676001942 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 384676001943 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676001944 FecR protein; Region: FecR; pfam04773 384676001945 RNA polymerase sigma factor; Provisional; Region: PRK12529 384676001946 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676001947 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 384676001948 DNA binding residues [nucleotide binding] 384676001949 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676001950 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676001951 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 384676001952 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 384676001953 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 384676001954 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 384676001955 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 384676001956 putative catalytic cysteine [active] 384676001957 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676001958 active site 384676001959 AMP binding site [chemical binding]; other site 384676001960 acyl-activating enzyme (AAE) consensus motif; other site 384676001961 CoA binding site [chemical binding]; other site 384676001962 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676001963 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 384676001964 acyl-activating enzyme (AAE) consensus motif; other site 384676001965 AMP binding site [chemical binding]; other site 384676001966 active site 384676001967 CoA binding site [chemical binding]; other site 384676001968 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676001969 Coenzyme A binding pocket [chemical binding]; other site 384676001970 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 384676001971 non-specific DNA binding site [nucleotide binding]; other site 384676001972 salt bridge; other site 384676001973 sequence-specific DNA binding site [nucleotide binding]; other site 384676001974 Predicted transcriptional regulator [Transcription]; Region: COG2932 384676001975 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 384676001976 Catalytic site [active] 384676001977 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 384676001978 dimer interface [polypeptide binding]; other site 384676001979 substrate binding site [chemical binding]; other site 384676001980 metal binding sites [ion binding]; metal-binding site 384676001981 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 384676001982 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 384676001983 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 384676001984 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 384676001985 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676001986 Coenzyme A binding pocket [chemical binding]; other site 384676001987 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 384676001988 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 384676001989 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 384676001990 ethanolamine permease; Region: 2A0305; TIGR00908 384676001991 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 384676001992 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676001993 NAD(P) binding site [chemical binding]; other site 384676001994 catalytic residues [active] 384676001995 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 384676001996 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 384676001997 putative active site [active] 384676001998 heme pocket [chemical binding]; other site 384676001999 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676002000 Walker A motif; other site 384676002001 ATP binding site [chemical binding]; other site 384676002002 Walker B motif; other site 384676002003 arginine finger; other site 384676002004 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676002005 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 384676002006 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 384676002007 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676002008 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 384676002009 aromatic acid decarboxylase; Validated; Region: PRK05920 384676002010 Flavoprotein; Region: Flavoprotein; pfam02441 384676002011 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 384676002012 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 384676002013 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 384676002014 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676002015 active site 384676002016 phosphorylation site [posttranslational modification] 384676002017 intermolecular recognition site; other site 384676002018 dimerization interface [polypeptide binding]; other site 384676002019 Flp/Fap pilin component; Region: Flp_Fap; cl01585 384676002020 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 384676002021 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 384676002022 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 384676002023 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 384676002024 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676002025 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 384676002026 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 384676002027 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 384676002028 ATP binding site [chemical binding]; other site 384676002029 Walker A motif; other site 384676002030 hexamer interface [polypeptide binding]; other site 384676002031 Walker B motif; other site 384676002032 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 384676002033 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676002034 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 384676002035 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 384676002036 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 384676002037 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676002038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676002039 active site 384676002040 phosphorylation site [posttranslational modification] 384676002041 intermolecular recognition site; other site 384676002042 dimerization interface [polypeptide binding]; other site 384676002043 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 384676002044 DNA binding residues [nucleotide binding] 384676002045 dimerization interface [polypeptide binding]; other site 384676002046 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 384676002047 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 384676002048 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 384676002049 putative active site [active] 384676002050 heme pocket [chemical binding]; other site 384676002051 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 384676002052 putative active site [active] 384676002053 heme pocket [chemical binding]; other site 384676002054 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 384676002055 dimer interface [polypeptide binding]; other site 384676002056 phosphorylation site [posttranslational modification] 384676002057 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676002058 ATP binding site [chemical binding]; other site 384676002059 Mg2+ binding site [ion binding]; other site 384676002060 G-X-G motif; other site 384676002061 Predicted membrane protein [Function unknown]; Region: COG4655 384676002062 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 384676002063 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 384676002064 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 384676002065 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676002066 S-adenosylmethionine binding site [chemical binding]; other site 384676002067 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 384676002068 homodimer interface [polypeptide binding]; other site 384676002069 chemical substrate binding site [chemical binding]; other site 384676002070 oligomer interface [polypeptide binding]; other site 384676002071 metal binding site [ion binding]; metal-binding site 384676002072 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 384676002073 active site 2 [active] 384676002074 active site 1 [active] 384676002075 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 384676002076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676002077 NAD(P) binding site [chemical binding]; other site 384676002078 active site 384676002079 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 384676002080 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 384676002081 dimer interface [polypeptide binding]; other site 384676002082 active site 384676002083 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676002084 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676002085 Cache domain; Region: Cache_1; pfam02743 384676002086 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 384676002087 dimerization interface [polypeptide binding]; other site 384676002088 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676002089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002090 dimer interface [polypeptide binding]; other site 384676002091 putative CheW interface [polypeptide binding]; other site 384676002092 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 384676002093 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 384676002094 DNA binding residues [nucleotide binding] 384676002095 dimer interface [polypeptide binding]; other site 384676002096 copper binding site [ion binding]; other site 384676002097 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 384676002098 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 384676002099 metal-binding site [ion binding] 384676002100 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 384676002101 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 384676002102 metal-binding site [ion binding] 384676002103 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676002104 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 384676002105 metal-binding site [ion binding] 384676002106 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676002107 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 384676002108 putative substrate translocation pore; other site 384676002109 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 384676002110 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 384676002111 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 384676002112 active site 384676002113 purine riboside binding site [chemical binding]; other site 384676002114 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 384676002115 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 384676002116 active site 384676002117 putative substrate binding pocket [chemical binding]; other site 384676002118 short chain dehydrogenase; Provisional; Region: PRK08177 384676002119 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 384676002120 NAD(P) binding site [chemical binding]; other site 384676002121 active site 384676002122 Uncharacterized conserved protein [Function unknown]; Region: COG1739 384676002123 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 384676002124 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 384676002125 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 384676002126 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676002127 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 384676002128 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676002129 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676002130 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 384676002131 dimerization interface [polypeptide binding]; other site 384676002132 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 384676002133 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 384676002134 inhibitor-cofactor binding pocket; inhibition site 384676002135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676002136 catalytic residue [active] 384676002137 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 384676002138 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 384676002139 tetrameric interface [polypeptide binding]; other site 384676002140 NAD binding site [chemical binding]; other site 384676002141 catalytic residues [active] 384676002142 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 384676002143 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 384676002144 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 384676002145 Part of AAA domain; Region: AAA_19; pfam13245 384676002146 Family description; Region: UvrD_C_2; pfam13538 384676002147 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 384676002148 AAA domain; Region: AAA_30; pfam13604 384676002149 Family description; Region: UvrD_C_2; pfam13538 384676002150 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 384676002151 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 384676002152 HAMP domain; Region: HAMP; pfam00672 384676002153 dimerization interface [polypeptide binding]; other site 384676002154 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676002155 metal binding site [ion binding]; metal-binding site 384676002156 active site 384676002157 I-site; other site 384676002158 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676002159 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676002160 ligand binding site [chemical binding]; other site 384676002161 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676002162 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676002163 LysR substrate binding domain; Region: LysR_substrate; pfam03466 384676002164 dimerization interface [polypeptide binding]; other site 384676002165 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 384676002166 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 384676002167 tetrameric interface [polypeptide binding]; other site 384676002168 NAD binding site [chemical binding]; other site 384676002169 catalytic residues [active] 384676002170 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 384676002171 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 384676002172 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 384676002173 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 384676002174 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 384676002175 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 384676002176 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 384676002177 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 384676002178 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 384676002179 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676002180 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676002181 putative acyl-acceptor binding pocket; other site 384676002182 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 384676002183 active site 384676002184 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 384676002185 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 384676002186 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676002187 Putative methyltransferase; Region: Methyltransf_20; pfam12147 384676002188 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 384676002189 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 384676002190 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 384676002191 Uncharacterized conserved protein [Function unknown]; Region: COG1359 384676002192 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 384676002193 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676002194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676002195 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 384676002196 dimerization interface [polypeptide binding]; other site 384676002197 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 384676002198 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 384676002199 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 384676002200 dimerization interface [polypeptide binding]; other site 384676002201 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676002202 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002203 dimer interface [polypeptide binding]; other site 384676002204 putative CheW interface [polypeptide binding]; other site 384676002205 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 384676002206 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 384676002207 ATP binding site [chemical binding]; other site 384676002208 Mg++ binding site [ion binding]; other site 384676002209 motif III; other site 384676002210 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 384676002211 nucleotide binding region [chemical binding]; other site 384676002212 ATP-binding site [chemical binding]; other site 384676002213 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676002214 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 384676002215 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 384676002216 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 384676002217 putative active site [active] 384676002218 Zn binding site [ion binding]; other site 384676002219 Predicted membrane protein [Function unknown]; Region: COG2510 384676002220 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; cd07040 384676002221 catalytic core [active] 384676002222 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 384676002223 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 384676002224 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 384676002225 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 384676002226 active site 384676002227 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 384676002228 catalytic triad [active] 384676002229 dimer interface [polypeptide binding]; other site 384676002230 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 384676002231 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 384676002232 active site 384676002233 motif I; other site 384676002234 motif II; other site 384676002235 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 384676002236 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 384676002237 putative NAD(P) binding site [chemical binding]; other site 384676002238 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 384676002239 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676002240 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676002241 DNA-binding site [nucleotide binding]; DNA binding site 384676002242 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 384676002243 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676002244 D-galactonate transporter; Region: 2A0114; TIGR00893 384676002245 putative substrate translocation pore; other site 384676002246 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 384676002247 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 384676002248 active site 384676002249 tetramer interface [polypeptide binding]; other site 384676002250 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 384676002251 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676002252 Coenzyme A binding pocket [chemical binding]; other site 384676002253 Peptidase_C39 like family; Region: DUF3335; pfam11814 384676002254 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 384676002255 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 384676002256 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676002257 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 384676002258 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 384676002259 oligomer interface [polypeptide binding]; other site 384676002260 Cl binding site [ion binding]; other site 384676002261 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 384676002262 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676002263 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676002264 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676002265 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676002266 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 384676002267 active site 384676002268 putative substrate binding region [chemical binding]; other site 384676002269 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676002270 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676002271 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 384676002272 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 384676002273 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 384676002274 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676002275 Coenzyme A binding pocket [chemical binding]; other site 384676002276 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 384676002277 Phage Tail Collar Domain; Region: Collar; pfam07484 384676002278 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 384676002279 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 384676002280 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 384676002281 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 384676002282 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 384676002283 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 384676002284 ligand-binding site [chemical binding]; other site 384676002285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676002286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676002287 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 384676002288 dimerization interface [polypeptide binding]; other site 384676002289 substrate binding pocket [chemical binding]; other site 384676002290 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676002291 putative substrate translocation pore; other site 384676002292 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 384676002293 DNA methylase; Region: N6_N4_Mtase; pfam01555 384676002294 DNA methylase; Region: N6_N4_Mtase; pfam01555 384676002295 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 384676002296 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 384676002297 Uncharacterized conserved protein [Function unknown]; Region: COG4127 384676002298 Restriction endonuclease; Region: Mrr_cat; pfam04471 384676002299 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676002300 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 384676002301 FAD binding domain; Region: FAD_binding_4; pfam01565 384676002302 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 384676002303 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 384676002304 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 384676002305 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 384676002306 phosphate binding site [ion binding]; other site 384676002307 glycolate transporter; Provisional; Region: PRK09695 384676002308 L-lactate permease; Region: Lactate_perm; cl00701 384676002309 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676002310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676002311 DNA-binding site [nucleotide binding]; DNA binding site 384676002312 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 384676002313 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 384676002314 SmpB-tmRNA interface; other site 384676002315 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 384676002316 putative coenzyme Q binding site [chemical binding]; other site 384676002317 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 384676002318 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 384676002319 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 384676002320 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 384676002321 metal binding site 2 [ion binding]; metal-binding site 384676002322 putative DNA binding helix; other site 384676002323 metal binding site 1 [ion binding]; metal-binding site 384676002324 dimer interface [polypeptide binding]; other site 384676002325 structural Zn2+ binding site [ion binding]; other site 384676002326 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 384676002327 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 384676002328 Walker A/P-loop; other site 384676002329 ATP binding site [chemical binding]; other site 384676002330 Q-loop/lid; other site 384676002331 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 384676002332 ABC transporter signature motif; other site 384676002333 Walker B; other site 384676002334 D-loop; other site 384676002335 H-loop/switch region; other site 384676002336 GrpE; Region: GrpE; pfam01025 384676002337 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 384676002338 dimer interface [polypeptide binding]; other site 384676002339 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 384676002340 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 384676002341 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 384676002342 nucleotide binding site [chemical binding]; other site 384676002343 NEF interaction site [polypeptide binding]; other site 384676002344 SBD interface [polypeptide binding]; other site 384676002345 chaperone protein DnaJ; Provisional; Region: PRK10767 384676002346 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 384676002347 HSP70 interaction site [polypeptide binding]; other site 384676002348 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 384676002349 substrate binding site [polypeptide binding]; other site 384676002350 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 384676002351 Zn binding sites [ion binding]; other site 384676002352 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 384676002353 dimer interface [polypeptide binding]; other site 384676002354 dihydrodipicolinate reductase; Provisional; Region: PRK00048 384676002355 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 384676002356 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 384676002357 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 384676002358 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 384676002359 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 384676002360 catalytic site [active] 384676002361 subunit interface [polypeptide binding]; other site 384676002362 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 384676002363 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 384676002364 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 384676002365 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 384676002366 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 384676002367 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676002368 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 384676002369 IMP binding site; other site 384676002370 dimer interface [polypeptide binding]; other site 384676002371 interdomain contacts; other site 384676002372 partial ornithine binding site; other site 384676002373 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 384676002374 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 384676002375 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 384676002376 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 384676002377 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 384676002378 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676002379 S-adenosylmethionine binding site [chemical binding]; other site 384676002380 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 384676002381 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676002382 Walker A motif; other site 384676002383 ATP binding site [chemical binding]; other site 384676002384 Walker B motif; other site 384676002385 arginine finger; other site 384676002386 Peptidase family M41; Region: Peptidase_M41; pfam01434 384676002387 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 384676002388 dihydropteroate synthase; Region: DHPS; TIGR01496 384676002389 substrate binding pocket [chemical binding]; other site 384676002390 dimer interface [polypeptide binding]; other site 384676002391 inhibitor binding site; inhibition site 384676002392 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 384676002393 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 384676002394 active site 384676002395 substrate binding site [chemical binding]; other site 384676002396 metal binding site [ion binding]; metal-binding site 384676002397 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 384676002398 triosephosphate isomerase; Provisional; Region: PRK14567 384676002399 substrate binding site [chemical binding]; other site 384676002400 dimer interface [polypeptide binding]; other site 384676002401 catalytic triad [active] 384676002402 ribosome maturation protein RimP; Reviewed; Region: PRK00092 384676002403 Sm and related proteins; Region: Sm_like; cl00259 384676002404 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 384676002405 putative oligomer interface [polypeptide binding]; other site 384676002406 putative RNA binding site [nucleotide binding]; other site 384676002407 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 384676002408 NusA N-terminal domain; Region: NusA_N; pfam08529 384676002409 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 384676002410 RNA binding site [nucleotide binding]; other site 384676002411 homodimer interface [polypeptide binding]; other site 384676002412 NusA-like KH domain; Region: KH_5; pfam13184 384676002413 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 384676002414 G-X-X-G motif; other site 384676002415 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 384676002416 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 384676002417 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 384676002418 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 384676002419 translation initiation factor IF-2; Region: IF-2; TIGR00487 384676002420 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 384676002421 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 384676002422 G1 box; other site 384676002423 putative GEF interaction site [polypeptide binding]; other site 384676002424 GTP/Mg2+ binding site [chemical binding]; other site 384676002425 Switch I region; other site 384676002426 G2 box; other site 384676002427 G3 box; other site 384676002428 Switch II region; other site 384676002429 G4 box; other site 384676002430 G5 box; other site 384676002431 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 384676002432 Translation-initiation factor 2; Region: IF-2; pfam11987 384676002433 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 384676002434 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 384676002435 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 384676002436 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 384676002437 RNA binding site [nucleotide binding]; other site 384676002438 active site 384676002439 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 384676002440 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 384676002441 16S/18S rRNA binding site [nucleotide binding]; other site 384676002442 S13e-L30e interaction site [polypeptide binding]; other site 384676002443 25S rRNA binding site [nucleotide binding]; other site 384676002444 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 384676002445 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 384676002446 RNase E interface [polypeptide binding]; other site 384676002447 trimer interface [polypeptide binding]; other site 384676002448 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 384676002449 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 384676002450 RNase E interface [polypeptide binding]; other site 384676002451 trimer interface [polypeptide binding]; other site 384676002452 active site 384676002453 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 384676002454 putative nucleic acid binding region [nucleotide binding]; other site 384676002455 G-X-X-G motif; other site 384676002456 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 384676002457 RNA binding site [nucleotide binding]; other site 384676002458 domain interface; other site 384676002459 BON domain; Region: BON; pfam04972 384676002460 xanthine permease; Region: pbuX; TIGR03173 384676002461 PilZ domain; Region: PilZ; pfam07238 384676002462 carbon starvation protein A; Provisional; Region: PRK15015 384676002463 Carbon starvation protein CstA; Region: CstA; pfam02554 384676002464 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 384676002465 Protein of unknown function (DUF466); Region: DUF466; pfam04328 384676002466 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 384676002467 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 384676002468 P-loop, Walker A motif; other site 384676002469 Base recognition motif; other site 384676002470 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 384676002471 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 384676002472 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 384676002473 dimer interface [polypeptide binding]; other site 384676002474 active site 384676002475 glycine-pyridoxal phosphate binding site [chemical binding]; other site 384676002476 folate binding site [chemical binding]; other site 384676002477 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 384676002478 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 384676002479 putative active site [active] 384676002480 heme pocket [chemical binding]; other site 384676002481 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 384676002482 putative active site [active] 384676002483 heme pocket [chemical binding]; other site 384676002484 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 384676002485 putative active site [active] 384676002486 heme pocket [chemical binding]; other site 384676002487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676002488 metal binding site [ion binding]; metal-binding site 384676002489 active site 384676002490 I-site; other site 384676002491 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 384676002492 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 384676002493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676002494 Walker A/P-loop; other site 384676002495 ATP binding site [chemical binding]; other site 384676002496 Q-loop/lid; other site 384676002497 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676002498 ABC transporter signature motif; other site 384676002499 Walker B; other site 384676002500 D-loop; other site 384676002501 ABC transporter; Region: ABC_tran_2; pfam12848 384676002502 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676002503 glutamate dehydrogenase; Provisional; Region: PRK09414 384676002504 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 384676002505 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 384676002506 NAD(P) binding site [chemical binding]; other site 384676002507 transcription elongation factor regulatory protein; Validated; Region: PRK06342 384676002508 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 384676002509 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 384676002510 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 384676002511 AAA domain; Region: AAA_32; pfam13654 384676002512 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 384676002513 hypothetical protein; Provisional; Region: PRK05208 384676002514 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 384676002515 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 384676002516 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676002517 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14355 384676002518 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 384676002519 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 384676002520 PhnA protein; Region: PhnA; pfam03831 384676002521 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 384676002522 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 384676002523 substrate binding pocket [chemical binding]; other site 384676002524 chain length determination region; other site 384676002525 substrate-Mg2+ binding site; other site 384676002526 catalytic residues [active] 384676002527 aspartate-rich region 1; other site 384676002528 active site lid residues [active] 384676002529 aspartate-rich region 2; other site 384676002530 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 384676002531 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 384676002532 GTPase CgtA; Reviewed; Region: obgE; PRK12298 384676002533 GTP1/OBG; Region: GTP1_OBG; pfam01018 384676002534 Obg GTPase; Region: Obg; cd01898 384676002535 G1 box; other site 384676002536 GTP/Mg2+ binding site [chemical binding]; other site 384676002537 Switch I region; other site 384676002538 G2 box; other site 384676002539 G3 box; other site 384676002540 Switch II region; other site 384676002541 G4 box; other site 384676002542 G5 box; other site 384676002543 gamma-glutamyl kinase; Provisional; Region: PRK05429 384676002544 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 384676002545 nucleotide binding site [chemical binding]; other site 384676002546 homotetrameric interface [polypeptide binding]; other site 384676002547 putative phosphate binding site [ion binding]; other site 384676002548 putative allosteric binding site; other site 384676002549 PUA domain; Region: PUA; pfam01472 384676002550 hypothetical protein; Provisional; Region: PRK10756 384676002551 CreA protein; Region: CreA; pfam05981 384676002552 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 384676002553 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 384676002554 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 384676002555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676002556 Coenzyme A binding pocket [chemical binding]; other site 384676002557 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676002558 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676002559 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 384676002560 dimerization interface [polypeptide binding]; other site 384676002561 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676002562 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676002563 FecR protein; Region: FecR; pfam04773 384676002564 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676002565 putative substrate translocation pore; other site 384676002566 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676002567 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676002568 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676002569 putative substrate translocation pore; other site 384676002570 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 384676002571 endonuclease III; Region: ENDO3c; smart00478 384676002572 minor groove reading motif; other site 384676002573 helix-hairpin-helix signature motif; other site 384676002574 substrate binding pocket [chemical binding]; other site 384676002575 active site 384676002576 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 384676002577 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 384676002578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676002579 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 384676002580 DNA binding site [nucleotide binding] 384676002581 active site 384676002582 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 384676002583 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 384676002584 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 384676002585 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676002586 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 384676002587 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676002588 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 384676002589 NAD(P) binding site [chemical binding]; other site 384676002590 catalytic residues [active] 384676002591 catalytic residues [active] 384676002592 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 384676002593 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676002594 Na binding site [ion binding]; other site 384676002595 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 384676002596 SnoaL-like domain; Region: SnoaL_3; pfam13474 384676002597 Isochorismatase family; Region: Isochorismatase; pfam00857 384676002598 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 384676002599 catalytic triad [active] 384676002600 dimer interface [polypeptide binding]; other site 384676002601 conserved cis-peptide bond; other site 384676002602 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 384676002603 Cupin domain; Region: Cupin_2; cl17218 384676002604 GTP-binding protein YchF; Reviewed; Region: PRK09601 384676002605 YchF GTPase; Region: YchF; cd01900 384676002606 G1 box; other site 384676002607 GTP/Mg2+ binding site [chemical binding]; other site 384676002608 Switch I region; other site 384676002609 G2 box; other site 384676002610 Switch II region; other site 384676002611 G3 box; other site 384676002612 G4 box; other site 384676002613 G5 box; other site 384676002614 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 384676002615 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 384676002616 putative active site [active] 384676002617 catalytic residue [active] 384676002618 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 384676002619 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 384676002620 5S rRNA interface [nucleotide binding]; other site 384676002621 CTC domain interface [polypeptide binding]; other site 384676002622 L16 interface [polypeptide binding]; other site 384676002623 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 384676002624 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 384676002625 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676002626 active site 384676002627 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 384676002628 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 384676002629 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 384676002630 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 384676002631 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 384676002632 TPR motif; other site 384676002633 binding surface 384676002634 Tetratricopeptide repeat; Region: TPR_16; pfam13432 384676002635 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 384676002636 binding surface 384676002637 TPR motif; other site 384676002638 TPR repeat; Region: TPR_11; pfam13414 384676002639 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 384676002640 binding surface 384676002641 TPR motif; other site 384676002642 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676002643 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676002644 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676002645 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676002646 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 384676002647 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 384676002648 RHS Repeat; Region: RHS_repeat; pfam05593 384676002649 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676002650 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676002651 RHS Repeat; Region: RHS_repeat; pfam05593 384676002652 RHS protein; Region: RHS; pfam03527 384676002653 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676002654 Protein of unknown function (DUF2167); Region: DUF2167; pfam09935 384676002655 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676002656 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 384676002657 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 384676002658 tRNA; other site 384676002659 putative tRNA binding site [nucleotide binding]; other site 384676002660 putative NADP binding site [chemical binding]; other site 384676002661 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 384676002662 peptide chain release factor 1; Validated; Region: prfA; PRK00591 384676002663 This domain is found in peptide chain release factors; Region: PCRF; smart00937 384676002664 RF-1 domain; Region: RF-1; pfam00472 384676002665 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 384676002666 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676002667 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 384676002668 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 384676002669 ATP binding site [chemical binding]; other site 384676002670 substrate interface [chemical binding]; other site 384676002671 glutamate racemase; Provisional; Region: PRK00865 384676002672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676002673 NAD(P) binding site [chemical binding]; other site 384676002674 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 384676002675 DNA photolyase; Region: DNA_photolyase; pfam00875 384676002676 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 384676002677 DNA binding residues [nucleotide binding] 384676002678 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 384676002679 Protein of unknown function (DUF523); Region: DUF523; pfam04463 384676002680 Uncharacterized conserved protein [Function unknown]; Region: COG3272 384676002681 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 384676002682 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676002683 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 384676002684 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 384676002685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676002686 NAD(P) binding site [chemical binding]; other site 384676002687 active site 384676002688 ferrochelatase; Reviewed; Region: hemH; PRK00035 384676002689 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 384676002690 C-terminal domain interface [polypeptide binding]; other site 384676002691 active site 384676002692 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 384676002693 active site 384676002694 N-terminal domain interface [polypeptide binding]; other site 384676002695 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 384676002696 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676002697 active site 384676002698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676002699 active site 384676002700 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 384676002701 malate:quinone oxidoreductase; Reviewed; Region: PRK13339 384676002702 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 384676002703 hypothetical protein; Provisional; Region: PRK11627 384676002704 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 384676002705 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676002706 putative acyl-acceptor binding pocket; other site 384676002707 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 384676002708 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 384676002709 Uncharacterized conserved protein [Function unknown]; Region: COG2135 384676002710 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 384676002711 dimerization interface [polypeptide binding]; other site 384676002712 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676002713 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002714 dimer interface [polypeptide binding]; other site 384676002715 putative CheW interface [polypeptide binding]; other site 384676002716 Peptidase family M48; Region: Peptidase_M48; pfam01435 384676002717 Predicted membrane protein [Function unknown]; Region: COG2119 384676002718 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 384676002719 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 384676002720 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 384676002721 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 384676002722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676002723 S-adenosylmethionine binding site [chemical binding]; other site 384676002724 glycerate dehydrogenase; Provisional; Region: PRK06487 384676002725 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 384676002726 putative ligand binding site [chemical binding]; other site 384676002727 putative NAD binding site [chemical binding]; other site 384676002728 catalytic site [active] 384676002729 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 384676002730 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676002731 acyl-activating enzyme (AAE) consensus motif; other site 384676002732 AMP binding site [chemical binding]; other site 384676002733 active site 384676002734 CoA binding site [chemical binding]; other site 384676002735 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 384676002736 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 384676002737 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 384676002738 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 384676002739 DNA binding residues [nucleotide binding] 384676002740 dimerization interface [polypeptide binding]; other site 384676002741 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 384676002742 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676002743 active site 384676002744 phosphorylation site [posttranslational modification] 384676002745 intermolecular recognition site; other site 384676002746 dimerization interface [polypeptide binding]; other site 384676002747 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 384676002748 binding surface 384676002749 TPR motif; other site 384676002750 TPR repeat; Region: TPR_11; pfam13414 384676002751 TPR repeat; Region: TPR_11; pfam13414 384676002752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676002753 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676002754 ATP binding site [chemical binding]; other site 384676002755 Mg2+ binding site [ion binding]; other site 384676002756 G-X-G motif; other site 384676002757 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 384676002758 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 384676002759 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676002760 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676002761 ligand binding site [chemical binding]; other site 384676002762 phosphate acetyltransferase; Reviewed; Region: PRK05632 384676002763 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 384676002764 DRTGG domain; Region: DRTGG; pfam07085 384676002765 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 384676002766 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 384676002767 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676002768 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 384676002769 catalytic residues [active] 384676002770 dimer interface [polypeptide binding]; other site 384676002771 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676002772 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 384676002773 putative active site [active] 384676002774 putative FMN binding site [chemical binding]; other site 384676002775 putative substrate binding site [chemical binding]; other site 384676002776 putative catalytic residue [active] 384676002777 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 384676002778 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 384676002779 PAS domain; Region: PAS_9; pfam13426 384676002780 putative active site [active] 384676002781 heme pocket [chemical binding]; other site 384676002782 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 384676002783 PAS domain; Region: PAS_9; pfam13426 384676002784 putative active site [active] 384676002785 heme pocket [chemical binding]; other site 384676002786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002787 dimer interface [polypeptide binding]; other site 384676002788 putative CheW interface [polypeptide binding]; other site 384676002789 putative sulfate transport protein CysZ; Validated; Region: PRK04949 384676002790 thioredoxin reductase; Provisional; Region: PRK10262 384676002791 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676002792 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676002793 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 384676002794 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 384676002795 dimerization interface [polypeptide binding]; other site 384676002796 active site 384676002797 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 384676002798 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 384676002799 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 384676002800 amidase catalytic site [active] 384676002801 Zn binding residues [ion binding]; other site 384676002802 substrate binding site [chemical binding]; other site 384676002803 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 384676002804 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 384676002805 dimerization interface [polypeptide binding]; other site 384676002806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676002807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002808 dimer interface [polypeptide binding]; other site 384676002809 putative CheW interface [polypeptide binding]; other site 384676002810 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 384676002811 active site 384676002812 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 384676002813 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 384676002814 DNA binding site [nucleotide binding] 384676002815 domain linker motif; other site 384676002816 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 384676002817 dimerization interface [polypeptide binding]; other site 384676002818 ligand binding site [chemical binding]; other site 384676002819 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 384676002820 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 384676002821 active site 384676002822 phosphorylation site [posttranslational modification] 384676002823 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 384676002824 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 384676002825 dimerization domain swap beta strand [polypeptide binding]; other site 384676002826 regulatory protein interface [polypeptide binding]; other site 384676002827 active site 384676002828 regulatory phosphorylation site [posttranslational modification]; other site 384676002829 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 384676002830 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 384676002831 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 384676002832 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 384676002833 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 384676002834 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 384676002835 putative substrate binding site [chemical binding]; other site 384676002836 putative ATP binding site [chemical binding]; other site 384676002837 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 384676002838 active site 384676002839 P-loop; other site 384676002840 phosphorylation site [posttranslational modification] 384676002841 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 384676002842 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 384676002843 active site 384676002844 P-loop; other site 384676002845 phosphorylation site [posttranslational modification] 384676002846 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 384676002847 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 384676002848 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 384676002849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676002850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676002851 metal binding site [ion binding]; metal-binding site 384676002852 active site 384676002853 I-site; other site 384676002854 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676002855 outer membrane porin, OprD family; Region: OprD; pfam03573 384676002856 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 384676002857 HAMP domain; Region: HAMP; pfam00672 384676002858 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 384676002859 dimer interface [polypeptide binding]; other site 384676002860 phosphorylation site [posttranslational modification] 384676002861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676002862 ATP binding site [chemical binding]; other site 384676002863 G-X-G motif; other site 384676002864 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 384676002865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676002866 active site 384676002867 phosphorylation site [posttranslational modification] 384676002868 intermolecular recognition site; other site 384676002869 dimerization interface [polypeptide binding]; other site 384676002870 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 384676002871 DNA binding site [nucleotide binding] 384676002872 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 384676002873 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676002874 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 384676002875 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676002876 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 384676002877 PAS fold; Region: PAS_3; pfam08447 384676002878 putative active site [active] 384676002879 heme pocket [chemical binding]; other site 384676002880 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676002881 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676002882 dimer interface [polypeptide binding]; other site 384676002883 putative CheW interface [polypeptide binding]; other site 384676002884 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 384676002885 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 384676002886 catalytic motif [active] 384676002887 Zn binding site [ion binding]; other site 384676002888 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 384676002889 Response regulator receiver domain; Region: Response_reg; pfam00072 384676002890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676002891 active site 384676002892 phosphorylation site [posttranslational modification] 384676002893 intermolecular recognition site; other site 384676002894 dimerization interface [polypeptide binding]; other site 384676002895 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 384676002896 GAF domain; Region: GAF; pfam01590 384676002897 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676002898 Walker A motif; other site 384676002899 ATP binding site [chemical binding]; other site 384676002900 Walker B motif; other site 384676002901 arginine finger; other site 384676002902 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 384676002903 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 384676002904 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 384676002905 heme-binding site [chemical binding]; other site 384676002906 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 384676002907 FAD binding pocket [chemical binding]; other site 384676002908 FAD binding motif [chemical binding]; other site 384676002909 phosphate binding motif [ion binding]; other site 384676002910 beta-alpha-beta structure motif; other site 384676002911 NAD binding pocket [chemical binding]; other site 384676002912 Heme binding pocket [chemical binding]; other site 384676002913 disulfide bond formation protein B; Provisional; Region: PRK02110 384676002914 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 384676002915 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 384676002916 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 384676002917 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 384676002918 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 384676002919 D-pathway; other site 384676002920 Putative ubiquinol binding site [chemical binding]; other site 384676002921 Low-spin heme (heme b) binding site [chemical binding]; other site 384676002922 Putative water exit pathway; other site 384676002923 Binuclear center (heme o3/CuB) [ion binding]; other site 384676002924 K-pathway; other site 384676002925 Putative proton exit pathway; other site 384676002926 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 384676002927 Subunit I/III interface [polypeptide binding]; other site 384676002928 Subunit III/IV interface [polypeptide binding]; other site 384676002929 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 384676002930 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 384676002931 UbiA prenyltransferase family; Region: UbiA; pfam01040 384676002932 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 384676002933 phosphoglycolate phosphatase; Provisional; Region: PRK13222 384676002934 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 384676002935 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 384676002936 motif II; other site 384676002937 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 384676002938 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 384676002939 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 384676002940 substrate binding pocket [chemical binding]; other site 384676002941 active site 384676002942 iron coordination sites [ion binding]; other site 384676002943 aminotransferase; Validated; Region: PRK08175 384676002944 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 384676002945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676002946 homodimer interface [polypeptide binding]; other site 384676002947 catalytic residue [active] 384676002948 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 384676002949 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676002950 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676002951 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676002952 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676002953 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676002954 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 384676002955 Autotransporter beta-domain; Region: Autotransporter; pfam03797 384676002956 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676002957 dihydrodipicolinate synthase; Region: dapA; TIGR00674 384676002958 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 384676002959 inhibitor site; inhibition site 384676002960 active site 384676002961 dimer interface [polypeptide binding]; other site 384676002962 catalytic residue [active] 384676002963 Domain of unknown function (DUF718); Region: DUF718; cl01281 384676002964 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 384676002965 active site 384676002966 catalytic residues [active] 384676002967 metal binding site [ion binding]; metal-binding site 384676002968 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 384676002969 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 384676002970 active site 384676002971 motif I; other site 384676002972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676002973 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 384676002974 NAD(P) binding site [chemical binding]; other site 384676002975 active site 384676002976 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 384676002977 classical (c) SDRs; Region: SDR_c; cd05233 384676002978 NAD(P) binding site [chemical binding]; other site 384676002979 active site 384676002980 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676002981 hypothetical protein; Provisional; Region: PRK07206 384676002982 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 384676002983 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676002984 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676002985 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676002986 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676002987 Cupin domain; Region: Cupin_2; pfam07883 384676002988 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 384676002989 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 384676002990 active site 384676002991 nucleotide binding site [chemical binding]; other site 384676002992 HIGH motif; other site 384676002993 KMSKS motif; other site 384676002994 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 384676002995 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 384676002996 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 384676002997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676002998 catalytic residue [active] 384676002999 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 384676003000 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676003001 Protein of unknown function, DUF606; Region: DUF606; pfam04657 384676003002 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 384676003003 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 384676003004 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 384676003005 active site residue [active] 384676003006 selenophosphate synthetase; Provisional; Region: PRK00943 384676003007 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 384676003008 dimerization interface [polypeptide binding]; other site 384676003009 putative ATP binding site [chemical binding]; other site 384676003010 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 384676003011 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 384676003012 substrate binding pocket [chemical binding]; other site 384676003013 membrane-bound complex binding site; other site 384676003014 hinge residues; other site 384676003015 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 384676003016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676003017 Walker A/P-loop; other site 384676003018 ATP binding site [chemical binding]; other site 384676003019 Q-loop/lid; other site 384676003020 ABC transporter signature motif; other site 384676003021 Walker B; other site 384676003022 D-loop; other site 384676003023 H-loop/switch region; other site 384676003024 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 384676003025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003026 dimer interface [polypeptide binding]; other site 384676003027 conserved gate region; other site 384676003028 putative PBP binding loops; other site 384676003029 ABC-ATPase subunit interface; other site 384676003030 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 384676003031 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 384676003032 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 384676003033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676003034 Coenzyme A binding pocket [chemical binding]; other site 384676003035 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 384676003036 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 384676003037 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 384676003038 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 384676003039 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 384676003040 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 384676003041 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 384676003042 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 384676003043 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 384676003044 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 384676003045 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 384676003046 Protein export membrane protein; Region: SecD_SecF; pfam02355 384676003047 hypothetical protein; Provisional; Region: PRK11280 384676003048 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 384676003049 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 384676003050 active site 384676003051 dimerization interface [polypeptide binding]; other site 384676003052 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 384676003053 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 384676003054 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 384676003055 serine O-acetyltransferase; Region: cysE; TIGR01172 384676003056 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 384676003057 trimer interface [polypeptide binding]; other site 384676003058 active site 384676003059 substrate binding site [chemical binding]; other site 384676003060 CoA binding site [chemical binding]; other site 384676003061 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 384676003062 Rrf2 family protein; Region: rrf2_super; TIGR00738 384676003063 cysteine desulfurase; Provisional; Region: PRK14012 384676003064 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 384676003065 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676003066 catalytic residue [active] 384676003067 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 384676003068 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 384676003069 trimerization site [polypeptide binding]; other site 384676003070 active site 384676003071 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 384676003072 co-chaperone HscB; Provisional; Region: hscB; PRK00294 384676003073 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 384676003074 HSP70 interaction site [polypeptide binding]; other site 384676003075 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 384676003076 chaperone protein HscA; Provisional; Region: hscA; PRK05183 384676003077 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 384676003078 nucleotide binding site [chemical binding]; other site 384676003079 putative NEF/HSP70 interaction site [polypeptide binding]; other site 384676003080 SBD interface [polypeptide binding]; other site 384676003081 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 384676003082 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 384676003083 catalytic loop [active] 384676003084 iron binding site [ion binding]; other site 384676003085 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 384676003086 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 384676003087 active site 384676003088 multimer interface [polypeptide binding]; other site 384676003089 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 384676003090 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 384676003091 FeS/SAM binding site; other site 384676003092 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 384676003093 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 384676003094 binding surface 384676003095 TPR motif; other site 384676003096 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 384676003097 binding surface 384676003098 TPR motif; other site 384676003099 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 384676003100 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 384676003101 non-specific DNA binding site [nucleotide binding]; other site 384676003102 salt bridge; other site 384676003103 sequence-specific DNA binding site [nucleotide binding]; other site 384676003104 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 384676003105 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 384676003106 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 384676003107 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 384676003108 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 384676003109 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 384676003110 dimer interface [polypeptide binding]; other site 384676003111 motif 1; other site 384676003112 active site 384676003113 motif 2; other site 384676003114 motif 3; other site 384676003115 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 384676003116 anticodon binding site; other site 384676003117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 384676003118 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 384676003119 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 384676003120 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 384676003121 Trp docking motif [polypeptide binding]; other site 384676003122 active site 384676003123 GTP-binding protein Der; Reviewed; Region: PRK00093 384676003124 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 384676003125 G1 box; other site 384676003126 GTP/Mg2+ binding site [chemical binding]; other site 384676003127 Switch I region; other site 384676003128 G2 box; other site 384676003129 Switch II region; other site 384676003130 G3 box; other site 384676003131 G4 box; other site 384676003132 G5 box; other site 384676003133 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 384676003134 G1 box; other site 384676003135 GTP/Mg2+ binding site [chemical binding]; other site 384676003136 Switch I region; other site 384676003137 G2 box; other site 384676003138 G3 box; other site 384676003139 Switch II region; other site 384676003140 G4 box; other site 384676003141 G5 box; other site 384676003142 methionine aminotransferase; Validated; Region: PRK09082 384676003143 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 384676003144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676003145 homodimer interface [polypeptide binding]; other site 384676003146 catalytic residue [active] 384676003147 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 384676003148 putative active site [active] 384676003149 catalytic triad [active] 384676003150 dimer interface [polypeptide binding]; other site 384676003151 multimer interface [polypeptide binding]; other site 384676003152 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 384676003153 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 384676003154 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676003155 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 384676003156 Flavodoxin; Region: Flavodoxin_1; pfam00258 384676003157 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 384676003158 FAD binding pocket [chemical binding]; other site 384676003159 FAD binding motif [chemical binding]; other site 384676003160 catalytic residues [active] 384676003161 NAD binding pocket [chemical binding]; other site 384676003162 phosphate binding motif [ion binding]; other site 384676003163 beta-alpha-beta structure motif; other site 384676003164 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 384676003165 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 384676003166 N-terminal plug; other site 384676003167 ligand-binding site [chemical binding]; other site 384676003168 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 384676003169 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 384676003170 Sel1-like repeats; Region: SEL1; smart00671 384676003171 Sel1 repeat; Region: Sel1; cl02723 384676003172 Sel1-like repeats; Region: SEL1; smart00671 384676003173 Sel1 repeat; Region: Sel1; cl02723 384676003174 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 384676003175 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 384676003176 dimer interface [polypeptide binding]; other site 384676003177 active site 384676003178 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676003179 catalytic residues [active] 384676003180 substrate binding site [chemical binding]; other site 384676003181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676003182 RNA polymerase sigma factor; Reviewed; Region: PRK12527 384676003183 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 384676003184 DNA binding residues [nucleotide binding] 384676003185 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676003186 FecR protein; Region: FecR; pfam04773 384676003187 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676003188 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 384676003189 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 384676003190 N-terminal plug; other site 384676003191 ligand-binding site [chemical binding]; other site 384676003192 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 384676003193 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 384676003194 Walker A/P-loop; other site 384676003195 ATP binding site [chemical binding]; other site 384676003196 Q-loop/lid; other site 384676003197 ABC transporter signature motif; other site 384676003198 Walker B; other site 384676003199 D-loop; other site 384676003200 H-loop/switch region; other site 384676003201 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 384676003202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003203 dimer interface [polypeptide binding]; other site 384676003204 conserved gate region; other site 384676003205 ABC-ATPase subunit interface; other site 384676003206 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 384676003207 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003208 dimer interface [polypeptide binding]; other site 384676003209 conserved gate region; other site 384676003210 putative PBP binding loops; other site 384676003211 ABC-ATPase subunit interface; other site 384676003212 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 384676003213 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 384676003214 non-specific DNA binding site [nucleotide binding]; other site 384676003215 salt bridge; other site 384676003216 sequence-specific DNA binding site [nucleotide binding]; other site 384676003217 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 384676003218 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 384676003219 G1 box; other site 384676003220 putative GEF interaction site [polypeptide binding]; other site 384676003221 GTP/Mg2+ binding site [chemical binding]; other site 384676003222 Switch I region; other site 384676003223 G2 box; other site 384676003224 G3 box; other site 384676003225 Switch II region; other site 384676003226 G4 box; other site 384676003227 G5 box; other site 384676003228 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 384676003229 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676003230 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676003231 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 384676003232 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676003233 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676003234 SnoaL-like domain; Region: SnoaL_2; pfam12680 384676003235 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676003236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676003237 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 384676003238 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 384676003239 Walker A/P-loop; other site 384676003240 ATP binding site [chemical binding]; other site 384676003241 Q-loop/lid; other site 384676003242 ABC transporter signature motif; other site 384676003243 Walker B; other site 384676003244 D-loop; other site 384676003245 H-loop/switch region; other site 384676003246 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 384676003247 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 384676003248 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 384676003249 Walker A/P-loop; other site 384676003250 ATP binding site [chemical binding]; other site 384676003251 Q-loop/lid; other site 384676003252 ABC transporter signature motif; other site 384676003253 Walker B; other site 384676003254 D-loop; other site 384676003255 H-loop/switch region; other site 384676003256 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 384676003257 dipeptide transporter; Provisional; Region: PRK10913 384676003258 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 384676003259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003260 dimer interface [polypeptide binding]; other site 384676003261 conserved gate region; other site 384676003262 putative PBP binding loops; other site 384676003263 ABC-ATPase subunit interface; other site 384676003264 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 384676003265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003266 dimer interface [polypeptide binding]; other site 384676003267 conserved gate region; other site 384676003268 putative PBP binding loops; other site 384676003269 ABC-ATPase subunit interface; other site 384676003270 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 384676003271 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 384676003272 peptide binding site [polypeptide binding]; other site 384676003273 outer membrane porin, OprD family; Region: OprD; pfam03573 384676003274 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 384676003275 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 384676003276 peptide binding site [polypeptide binding]; other site 384676003277 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 384676003278 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 384676003279 peptide binding site [polypeptide binding]; other site 384676003280 Protein of unknown function (DUF541); Region: SIMPL; cl01077 384676003281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676003282 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676003283 ATP binding site [chemical binding]; other site 384676003284 G-X-G motif; other site 384676003285 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 384676003286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003287 active site 384676003288 phosphorylation site [posttranslational modification] 384676003289 intermolecular recognition site; other site 384676003290 dimerization interface [polypeptide binding]; other site 384676003291 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676003292 Predicted permeases [General function prediction only]; Region: COG0679 384676003293 aromatic amino acid transporter; Provisional; Region: PRK10238 384676003294 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 384676003295 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 384676003296 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 384676003297 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 384676003298 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 384676003299 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 384676003300 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 384676003301 GatB domain; Region: GatB_Yqey; smart00845 384676003302 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 384676003303 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 384676003304 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 384676003305 rod shape-determining protein MreB; Provisional; Region: PRK13927 384676003306 MreB and similar proteins; Region: MreB_like; cd10225 384676003307 nucleotide binding site [chemical binding]; other site 384676003308 Mg binding site [ion binding]; other site 384676003309 putative protofilament interaction site [polypeptide binding]; other site 384676003310 RodZ interaction site [polypeptide binding]; other site 384676003311 rod shape-determining protein MreC; Provisional; Region: PRK13922 384676003312 rod shape-determining protein MreC; Region: MreC; pfam04085 384676003313 rod shape-determining protein MreD; Region: MreD; cl01087 384676003314 Maf-like protein; Region: Maf; pfam02545 384676003315 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 384676003316 active site 384676003317 dimer interface [polypeptide binding]; other site 384676003318 ribonuclease G; Provisional; Region: PRK11712 384676003319 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 384676003320 homodimer interface [polypeptide binding]; other site 384676003321 oligonucleotide binding site [chemical binding]; other site 384676003322 TIGR02099 family protein; Region: TIGR02099 384676003323 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 384676003324 nitrilase; Region: PLN02798 384676003325 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 384676003326 putative active site [active] 384676003327 catalytic triad [active] 384676003328 dimer interface [polypeptide binding]; other site 384676003329 protease TldD; Provisional; Region: tldD; PRK10735 384676003330 hypothetical protein; Provisional; Region: PRK05255 384676003331 peptidase PmbA; Provisional; Region: PRK11040 384676003332 fumarate hydratase; Reviewed; Region: fumC; PRK00485 384676003333 Class II fumarases; Region: Fumarase_classII; cd01362 384676003334 active site 384676003335 tetramer interface [polypeptide binding]; other site 384676003336 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 384676003337 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 384676003338 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 384676003339 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 384676003340 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 384676003341 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 384676003342 dimerization domain swap beta strand [polypeptide binding]; other site 384676003343 regulatory protein interface [polypeptide binding]; other site 384676003344 active site 384676003345 regulatory phosphorylation site [posttranslational modification]; other site 384676003346 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 384676003347 AAA domain; Region: AAA_18; pfam13238 384676003348 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 384676003349 active site 384676003350 phosphorylation site [posttranslational modification] 384676003351 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 384676003352 30S subunit binding site; other site 384676003353 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 384676003354 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 384676003355 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 384676003356 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 384676003357 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 384676003358 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 384676003359 Walker A/P-loop; other site 384676003360 ATP binding site [chemical binding]; other site 384676003361 Q-loop/lid; other site 384676003362 ABC transporter signature motif; other site 384676003363 Walker B; other site 384676003364 D-loop; other site 384676003365 H-loop/switch region; other site 384676003366 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 384676003367 OstA-like protein; Region: OstA; pfam03968 384676003368 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 384676003369 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 384676003370 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 384676003371 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 384676003372 active site 384676003373 motif I; other site 384676003374 motif II; other site 384676003375 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 384676003376 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 384676003377 putative active site [active] 384676003378 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 384676003379 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 384676003380 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 384676003381 Walker A/P-loop; other site 384676003382 ATP binding site [chemical binding]; other site 384676003383 Q-loop/lid; other site 384676003384 ABC transporter signature motif; other site 384676003385 Walker B; other site 384676003386 D-loop; other site 384676003387 H-loop/switch region; other site 384676003388 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 384676003389 Permease; Region: Permease; cl00510 384676003390 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 384676003391 mce related protein; Region: MCE; pfam02470 384676003392 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 384676003393 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 384676003394 anti sigma factor interaction site; other site 384676003395 regulatory phosphorylation site [posttranslational modification]; other site 384676003396 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 384676003397 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 384676003398 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 384676003399 hinge; other site 384676003400 active site 384676003401 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 384676003402 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 384676003403 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 384676003404 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 384676003405 NAD binding site [chemical binding]; other site 384676003406 dimerization interface [polypeptide binding]; other site 384676003407 product binding site; other site 384676003408 substrate binding site [chemical binding]; other site 384676003409 zinc binding site [ion binding]; other site 384676003410 catalytic residues [active] 384676003411 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 384676003412 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 384676003413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676003414 homodimer interface [polypeptide binding]; other site 384676003415 catalytic residue [active] 384676003416 multidrug efflux protein; Reviewed; Region: PRK09579 384676003417 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676003418 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676003419 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676003420 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 384676003421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 384676003422 Imelysin; Region: Peptidase_M75; cl09159 384676003423 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 384676003424 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 384676003425 Imelysin; Region: Peptidase_M75; cl09159 384676003426 biofilm formation regulator HmsP; Provisional; Region: PRK11829 384676003427 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676003428 metal binding site [ion binding]; metal-binding site 384676003429 active site 384676003430 I-site; other site 384676003431 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 384676003432 superoxide dismutase; Provisional; Region: PRK10543 384676003433 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 384676003434 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 384676003435 Lysine efflux permease [General function prediction only]; Region: COG1279 384676003436 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 384676003437 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676003438 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 384676003439 dimerization interface [polypeptide binding]; other site 384676003440 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676003441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676003442 NAD(P) binding site [chemical binding]; other site 384676003443 active site 384676003444 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 384676003445 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676003446 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 384676003447 FMN binding site [chemical binding]; other site 384676003448 active site 384676003449 substrate binding site [chemical binding]; other site 384676003450 catalytic residue [active] 384676003451 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 384676003452 dimerization interface [polypeptide binding]; other site 384676003453 putative DNA binding site [nucleotide binding]; other site 384676003454 putative Zn2+ binding site [ion binding]; other site 384676003455 Protein of unknown function, DUF479; Region: DUF479; cl01203 384676003456 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676003457 RHS Repeat; Region: RHS_repeat; cl11982 384676003458 RHS Repeat; Region: RHS_repeat; cl11982 384676003459 RHS Repeat; Region: RHS_repeat; pfam05593 384676003460 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676003461 RHS Repeat; Region: RHS_repeat; pfam05593 384676003462 RHS Repeat; Region: RHS_repeat; pfam05593 384676003463 RHS Repeat; Region: RHS_repeat; pfam05593 384676003464 RHS protein; Region: RHS; pfam03527 384676003465 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676003466 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676003467 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676003468 putative acyl-acceptor binding pocket; other site 384676003469 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 384676003470 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676003471 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676003472 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 384676003473 Beta-lactamase; Region: Beta-lactamase; pfam00144 384676003474 YceI-like domain; Region: YceI; pfam04264 384676003475 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 384676003476 PLD-like domain; Region: PLDc_2; pfam13091 384676003477 putative active site [active] 384676003478 catalytic site [active] 384676003479 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 384676003480 PLD-like domain; Region: PLDc_2; pfam13091 384676003481 putative active site [active] 384676003482 catalytic site [active] 384676003483 intracellular protease, PfpI family; Region: PfpI; TIGR01382 384676003484 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 384676003485 conserved cys residue [active] 384676003486 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676003487 putative fumarate hydratase; Provisional; Region: PRK15392 384676003488 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 384676003489 Fumarase C-terminus; Region: Fumerase_C; pfam05683 384676003490 hypothetical protein; Provisional; Region: PRK05713 384676003491 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 384676003492 catalytic loop [active] 384676003493 iron binding site [ion binding]; other site 384676003494 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 384676003495 FAD binding pocket [chemical binding]; other site 384676003496 FAD binding motif [chemical binding]; other site 384676003497 phosphate binding motif [ion binding]; other site 384676003498 beta-alpha-beta structure motif; other site 384676003499 NAD binding pocket [chemical binding]; other site 384676003500 pyruvate kinase; Provisional; Region: PRK05826 384676003501 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 384676003502 domain interfaces; other site 384676003503 active site 384676003504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 384676003505 PilZ domain; Region: PilZ; pfam07238 384676003506 exonuclease I; Provisional; Region: sbcB; PRK11779 384676003507 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 384676003508 active site 384676003509 catalytic site [active] 384676003510 substrate binding site [chemical binding]; other site 384676003511 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 384676003512 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 384676003513 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 384676003514 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 384676003515 putative active site [active] 384676003516 putative substrate binding site [chemical binding]; other site 384676003517 putative cosubstrate binding site; other site 384676003518 catalytic site [active] 384676003519 Cache domain; Region: Cache_1; pfam02743 384676003520 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 384676003521 dimerization interface [polypeptide binding]; other site 384676003522 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676003523 dimer interface [polypeptide binding]; other site 384676003524 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 384676003525 putative CheW interface [polypeptide binding]; other site 384676003526 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 384676003527 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 384676003528 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 384676003529 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 384676003530 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 384676003531 Bacterial transcriptional regulator; Region: IclR; pfam01614 384676003532 benzoate transport; Region: 2A0115; TIGR00895 384676003533 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676003534 putative substrate translocation pore; other site 384676003535 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 384676003536 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 384676003537 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 384676003538 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 384676003539 dimer interface [polypeptide binding]; other site 384676003540 active site 384676003541 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 384676003542 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676003543 putative substrate translocation pore; other site 384676003544 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 384676003545 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 384676003546 tetramer interface [polypeptide binding]; other site 384676003547 active site 384676003548 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 384676003549 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 384676003550 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 384676003551 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 384676003552 Trp docking motif [polypeptide binding]; other site 384676003553 putative active site [active] 384676003554 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 384676003555 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 384676003556 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 384676003557 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 384676003558 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 384676003559 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 384676003560 N-terminal plug; other site 384676003561 ligand-binding site [chemical binding]; other site 384676003562 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 384676003563 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 384676003564 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 384676003565 FAD binding pocket [chemical binding]; other site 384676003566 FAD binding motif [chemical binding]; other site 384676003567 phosphate binding motif [ion binding]; other site 384676003568 NAD binding pocket [chemical binding]; other site 384676003569 Predicted transcriptional regulators [Transcription]; Region: COG1695 384676003570 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 384676003571 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 384676003572 Transglycosylase; Region: Transgly; pfam00912 384676003573 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 384676003574 Spore germination protein; Region: Spore_permease; cl17796 384676003575 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 384676003576 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 384676003577 active site 384676003578 FMN binding site [chemical binding]; other site 384676003579 substrate binding site [chemical binding]; other site 384676003580 3Fe-4S cluster binding site [ion binding]; other site 384676003581 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 384676003582 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 384676003583 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 384676003584 ATP binding site [chemical binding]; other site 384676003585 putative Mg++ binding site [ion binding]; other site 384676003586 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 384676003587 nucleotide binding region [chemical binding]; other site 384676003588 ATP-binding site [chemical binding]; other site 384676003589 DEAD/H associated; Region: DEAD_assoc; pfam08494 384676003590 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 384676003591 nudix motif; other site 384676003592 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 384676003593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676003594 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 384676003595 putative dimerization interface [polypeptide binding]; other site 384676003596 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 384676003597 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 384676003598 GlpM protein; Region: GlpM; pfam06942 384676003599 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676003600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003601 active site 384676003602 phosphorylation site [posttranslational modification] 384676003603 intermolecular recognition site; other site 384676003604 dimerization interface [polypeptide binding]; other site 384676003605 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676003606 Walker A motif; other site 384676003607 ATP binding site [chemical binding]; other site 384676003608 Walker B motif; other site 384676003609 arginine finger; other site 384676003610 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676003611 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 384676003612 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 384676003613 dimer interface [polypeptide binding]; other site 384676003614 phosphorylation site [posttranslational modification] 384676003615 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676003616 Mg2+ binding site [ion binding]; other site 384676003617 G-X-G motif; other site 384676003618 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676003619 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676003620 Walker A/P-loop; other site 384676003621 ATP binding site [chemical binding]; other site 384676003622 Q-loop/lid; other site 384676003623 ABC transporter signature motif; other site 384676003624 Walker B; other site 384676003625 D-loop; other site 384676003626 H-loop/switch region; other site 384676003627 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676003628 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003629 dimer interface [polypeptide binding]; other site 384676003630 conserved gate region; other site 384676003631 putative PBP binding loops; other site 384676003632 ABC-ATPase subunit interface; other site 384676003633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003634 dimer interface [polypeptide binding]; other site 384676003635 conserved gate region; other site 384676003636 putative PBP binding loops; other site 384676003637 ABC-ATPase subunit interface; other site 384676003638 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 384676003639 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 384676003640 substrate binding pocket [chemical binding]; other site 384676003641 membrane-bound complex binding site; other site 384676003642 hinge residues; other site 384676003643 Leucine rich repeat; Region: LRR_8; pfam13855 384676003644 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 384676003645 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 384676003646 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 384676003647 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 384676003648 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 384676003649 glycerol kinase; Provisional; Region: glpK; PRK00047 384676003650 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 384676003651 N- and C-terminal domain interface [polypeptide binding]; other site 384676003652 active site 384676003653 MgATP binding site [chemical binding]; other site 384676003654 catalytic site [active] 384676003655 metal binding site [ion binding]; metal-binding site 384676003656 glycerol binding site [chemical binding]; other site 384676003657 homotetramer interface [polypeptide binding]; other site 384676003658 homodimer interface [polypeptide binding]; other site 384676003659 protein IIAGlc interface [polypeptide binding]; other site 384676003660 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 384676003661 amphipathic channel; other site 384676003662 Asn-Pro-Ala signature motifs; other site 384676003663 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 384676003664 putative deacylase active site [active] 384676003665 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 384676003666 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 384676003667 Walker A/P-loop; other site 384676003668 ATP binding site [chemical binding]; other site 384676003669 Q-loop/lid; other site 384676003670 ABC transporter signature motif; other site 384676003671 Walker B; other site 384676003672 D-loop; other site 384676003673 H-loop/switch region; other site 384676003674 TOBE domain; Region: TOBE_2; pfam08402 384676003675 ornithine carbamoyltransferase; Provisional; Region: PRK00779 384676003676 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 384676003677 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 384676003678 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 384676003679 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 384676003680 putative [Fe4-S4] binding site [ion binding]; other site 384676003681 putative molybdopterin cofactor binding site [chemical binding]; other site 384676003682 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 384676003683 putative molybdopterin cofactor binding site; other site 384676003684 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 384676003685 putative GSH binding site [chemical binding]; other site 384676003686 catalytic residues [active] 384676003687 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 384676003688 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 384676003689 heme binding site [chemical binding]; other site 384676003690 ferroxidase pore; other site 384676003691 ferroxidase diiron center [ion binding]; other site 384676003692 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 384676003693 peroxidase; Provisional; Region: PRK15000 384676003694 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 384676003695 dimer interface [polypeptide binding]; other site 384676003696 decamer (pentamer of dimers) interface [polypeptide binding]; other site 384676003697 catalytic triad [active] 384676003698 peroxidatic and resolving cysteines [active] 384676003699 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 384676003700 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 384676003701 dimer interface [polypeptide binding]; other site 384676003702 catalytic site [active] 384676003703 putative active site [active] 384676003704 putative substrate binding site [chemical binding]; other site 384676003705 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 384676003706 active site 384676003707 substrate binding pocket [chemical binding]; other site 384676003708 dimer interface [polypeptide binding]; other site 384676003709 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676003710 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676003711 ligand binding site [chemical binding]; other site 384676003712 argininosuccinate synthase; Provisional; Region: PRK13820 384676003713 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 384676003714 ANP binding site [chemical binding]; other site 384676003715 Substrate Binding Site II [chemical binding]; other site 384676003716 Substrate Binding Site I [chemical binding]; other site 384676003717 hydroperoxidase II; Provisional; Region: katE; PRK11249 384676003718 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676003719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003720 active site 384676003721 phosphorylation site [posttranslational modification] 384676003722 intermolecular recognition site; other site 384676003723 dimerization interface [polypeptide binding]; other site 384676003724 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 384676003725 DNA binding residues [nucleotide binding] 384676003726 dimerization interface [polypeptide binding]; other site 384676003727 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 384676003728 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 384676003729 minor groove reading motif; other site 384676003730 helix-hairpin-helix signature motif; other site 384676003731 substrate binding pocket [chemical binding]; other site 384676003732 active site 384676003733 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 384676003734 electron transport complex, RnfABCDGE type, G subunit; Region: rnfG; TIGR01947 384676003735 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 384676003736 ferredoxin; Provisional; Region: PRK08764 384676003737 Putative Fe-S cluster; Region: FeS; pfam04060 384676003738 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 384676003739 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 384676003740 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 384676003741 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 384676003742 active site 384676003743 HIGH motif; other site 384676003744 KMSKS motif; other site 384676003745 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 384676003746 tRNA binding surface [nucleotide binding]; other site 384676003747 anticodon binding site; other site 384676003748 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 384676003749 dimer interface [polypeptide binding]; other site 384676003750 putative tRNA-binding site [nucleotide binding]; other site 384676003751 antiporter inner membrane protein; Provisional; Region: PRK11670 384676003752 Domain of unknown function DUF59; Region: DUF59; pfam01883 384676003753 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 384676003754 Walker A motif; other site 384676003755 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 384676003756 DNA-binding site [nucleotide binding]; DNA binding site 384676003757 RNA-binding motif; other site 384676003758 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 384676003759 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 384676003760 active site 384676003761 Zn binding site [ion binding]; other site 384676003762 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 384676003763 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 384676003764 active site 384676003765 SEC-C motif; Region: SEC-C; pfam02810 384676003766 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 384676003767 hypothetical protein; Provisional; Region: PRK00183 384676003768 SEC-C motif; Region: SEC-C; pfam02810 384676003769 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676003770 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676003771 ligand binding site [chemical binding]; other site 384676003772 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676003773 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676003774 ligand binding site [chemical binding]; other site 384676003775 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 384676003776 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676003777 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 384676003778 active site 384676003779 FMN binding site [chemical binding]; other site 384676003780 substrate binding site [chemical binding]; other site 384676003781 homotetramer interface [polypeptide binding]; other site 384676003782 catalytic residue [active] 384676003783 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 384676003784 HicB family; Region: HicB; pfam05534 384676003785 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 384676003786 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 384676003787 tetrameric interface [polypeptide binding]; other site 384676003788 NAD binding site [chemical binding]; other site 384676003789 catalytic residues [active] 384676003790 substrate binding site [chemical binding]; other site 384676003791 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676003792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003793 dimer interface [polypeptide binding]; other site 384676003794 conserved gate region; other site 384676003795 ABC-ATPase subunit interface; other site 384676003796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676003797 putative PBP binding loops; other site 384676003798 dimer interface [polypeptide binding]; other site 384676003799 ABC-ATPase subunit interface; other site 384676003800 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 384676003801 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676003802 Walker A/P-loop; other site 384676003803 ATP binding site [chemical binding]; other site 384676003804 Q-loop/lid; other site 384676003805 ABC transporter signature motif; other site 384676003806 Walker B; other site 384676003807 D-loop; other site 384676003808 H-loop/switch region; other site 384676003809 TOBE domain; Region: TOBE_2; pfam08402 384676003810 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 384676003811 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676003812 Protein of unknown function (DUF533); Region: DUF533; pfam04391 384676003813 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 384676003814 putative metal binding site [ion binding]; other site 384676003815 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 384676003816 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 384676003817 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 384676003818 dimerization interface [polypeptide binding]; other site 384676003819 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676003820 dimer interface [polypeptide binding]; other site 384676003821 putative CheW interface [polypeptide binding]; other site 384676003822 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 384676003823 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 384676003824 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 384676003825 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 384676003826 binding surface 384676003827 TPR motif; other site 384676003828 CheW-like domain; Region: CheW; pfam01584 384676003829 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 384676003830 putative binding surface; other site 384676003831 active site 384676003832 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 384676003833 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676003834 ATP binding site [chemical binding]; other site 384676003835 Mg2+ binding site [ion binding]; other site 384676003836 G-X-G motif; other site 384676003837 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 384676003838 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003839 Response regulator receiver domain; Region: Response_reg; pfam00072 384676003840 active site 384676003841 phosphorylation site [posttranslational modification] 384676003842 intermolecular recognition site; other site 384676003843 dimerization interface [polypeptide binding]; other site 384676003844 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 384676003845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003846 active site 384676003847 phosphorylation site [posttranslational modification] 384676003848 intermolecular recognition site; other site 384676003849 CheB methylesterase; Region: CheB_methylest; pfam01339 384676003850 Response regulator receiver domain; Region: Response_reg; pfam00072 384676003851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676003852 active site 384676003853 phosphorylation site [posttranslational modification] 384676003854 intermolecular recognition site; other site 384676003855 dimerization interface [polypeptide binding]; other site 384676003856 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676003857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676003858 metal binding site [ion binding]; metal-binding site 384676003859 active site 384676003860 I-site; other site 384676003861 Helix-turn-helix domain; Region: HTH_28; pfam13518 384676003862 putative transposase OrfB; Reviewed; Region: PHA02517 384676003863 Homeodomain-like domain; Region: HTH_32; pfam13565 384676003864 Integrase core domain; Region: rve; pfam00665 384676003865 Integrase core domain; Region: rve_3; pfam13683 384676003866 peptide chain release factor 2; Validated; Region: prfB; PRK00578 384676003867 This domain is found in peptide chain release factors; Region: PCRF; smart00937 384676003868 RF-1 domain; Region: RF-1; pfam00472 384676003869 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 384676003870 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 384676003871 dimer interface [polypeptide binding]; other site 384676003872 putative anticodon binding site; other site 384676003873 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 384676003874 motif 1; other site 384676003875 active site 384676003876 motif 2; other site 384676003877 motif 3; other site 384676003878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 384676003879 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 384676003880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676003881 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676003882 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676003883 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676003884 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676003885 ligand binding site [chemical binding]; other site 384676003886 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 384676003887 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 384676003888 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 384676003889 adenylate kinase; Reviewed; Region: adk; PRK00279 384676003890 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 384676003891 AMP-binding site [chemical binding]; other site 384676003892 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 384676003893 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 384676003894 Glycoprotease family; Region: Peptidase_M22; pfam00814 384676003895 Protein of unknown function DUF72; Region: DUF72; cl00777 384676003896 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 384676003897 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 384676003898 tetramer interface [polypeptide binding]; other site 384676003899 active site 384676003900 Mg2+/Mn2+ binding site [ion binding]; other site 384676003901 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 384676003902 Predicted integral membrane protein [Function unknown]; Region: COG5615 384676003903 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 384676003904 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 384676003905 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 384676003906 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 384676003907 Beta-lactamase; Region: Beta-lactamase; pfam00144 384676003908 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676003909 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676003910 ligand binding site [chemical binding]; other site 384676003911 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 384676003912 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 384676003913 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 384676003914 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 384676003915 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 384676003916 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676003917 Predicted membrane protein [Function unknown]; Region: COG3650 384676003918 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 384676003919 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 384676003920 Walker A/P-loop; other site 384676003921 ATP binding site [chemical binding]; other site 384676003922 Q-loop/lid; other site 384676003923 ABC transporter signature motif; other site 384676003924 Walker B; other site 384676003925 D-loop; other site 384676003926 H-loop/switch region; other site 384676003927 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 384676003928 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 384676003929 Walker A/P-loop; other site 384676003930 ATP binding site [chemical binding]; other site 384676003931 Q-loop/lid; other site 384676003932 ABC transporter signature motif; other site 384676003933 Walker B; other site 384676003934 D-loop; other site 384676003935 H-loop/switch region; other site 384676003936 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 384676003937 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 384676003938 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 384676003939 TM-ABC transporter signature motif; other site 384676003940 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 384676003941 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 384676003942 TM-ABC transporter signature motif; other site 384676003943 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 384676003944 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 384676003945 dimerization interface [polypeptide binding]; other site 384676003946 ligand binding site [chemical binding]; other site 384676003947 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 384676003948 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 384676003949 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 384676003950 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 384676003951 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 384676003952 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 384676003953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676003954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676003955 metal binding site [ion binding]; metal-binding site 384676003956 active site 384676003957 I-site; other site 384676003958 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 384676003959 ATP-dependent helicase HepA; Validated; Region: PRK04914 384676003960 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 384676003961 ATP binding site [chemical binding]; other site 384676003962 putative Mg++ binding site [ion binding]; other site 384676003963 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 384676003964 nucleotide binding region [chemical binding]; other site 384676003965 ATP-binding site [chemical binding]; other site 384676003966 Fusaric acid resistance protein family; Region: FUSC; pfam04632 384676003967 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 384676003968 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 384676003969 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 384676003970 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676003971 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676003972 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 384676003973 classical (c) SDRs; Region: SDR_c; cd05233 384676003974 NAD(P) binding site [chemical binding]; other site 384676003975 active site 384676003976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676003977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676003978 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 384676003979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676003980 NAD(P) binding site [chemical binding]; other site 384676003981 active site 384676003982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676003983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676003984 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 384676003985 putative effector binding pocket; other site 384676003986 putative dimerization interface [polypeptide binding]; other site 384676003987 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 384676003988 GAF domain; Region: GAF; pfam01590 384676003989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676003990 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 384676003991 dimer interface [polypeptide binding]; other site 384676003992 phosphorylation site [posttranslational modification] 384676003993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676003994 ATP binding site [chemical binding]; other site 384676003995 Mg2+ binding site [ion binding]; other site 384676003996 G-X-G motif; other site 384676003997 Protein of unknown function (DUF2025); Region: DUF2025; pfam09634 384676003998 CHASE4 domain; Region: CHASE4; pfam05228 384676003999 PAS domain S-box; Region: sensory_box; TIGR00229 384676004000 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 384676004001 putative active site [active] 384676004002 heme pocket [chemical binding]; other site 384676004003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676004004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676004005 metal binding site [ion binding]; metal-binding site 384676004006 active site 384676004007 I-site; other site 384676004008 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 384676004009 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 384676004010 MASE2 domain; Region: MASE2; pfam05230 384676004011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676004012 metal binding site [ion binding]; metal-binding site 384676004013 active site 384676004014 I-site; other site 384676004015 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 384676004016 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 384676004017 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 384676004018 acetolactate synthase; Reviewed; Region: PRK08322 384676004019 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 384676004020 PYR/PP interface [polypeptide binding]; other site 384676004021 dimer interface [polypeptide binding]; other site 384676004022 TPP binding site [chemical binding]; other site 384676004023 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 384676004024 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 384676004025 TPP-binding site [chemical binding]; other site 384676004026 dimer interface [polypeptide binding]; other site 384676004027 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 384676004028 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676004029 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 384676004030 putative C-terminal domain interface [polypeptide binding]; other site 384676004031 putative GSH binding site (G-site) [chemical binding]; other site 384676004032 putative dimer interface [polypeptide binding]; other site 384676004033 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 384676004034 putative N-terminal domain interface [polypeptide binding]; other site 384676004035 putative dimer interface [polypeptide binding]; other site 384676004036 putative substrate binding pocket (H-site) [chemical binding]; other site 384676004037 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 384676004038 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 384676004039 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 384676004040 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 384676004041 FAD binding pocket [chemical binding]; other site 384676004042 FAD binding motif [chemical binding]; other site 384676004043 phosphate binding motif [ion binding]; other site 384676004044 beta-alpha-beta structure motif; other site 384676004045 NAD binding pocket [chemical binding]; other site 384676004046 Heme binding pocket [chemical binding]; other site 384676004047 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 384676004048 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 384676004049 catalytic loop [active] 384676004050 iron binding site [ion binding]; other site 384676004051 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004053 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 384676004054 putative effector binding pocket; other site 384676004055 putative dimerization interface [polypeptide binding]; other site 384676004056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676004057 DNA-binding site [nucleotide binding]; DNA binding site 384676004058 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 384676004059 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 384676004060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004061 homodimer interface [polypeptide binding]; other site 384676004062 catalytic residue [active] 384676004063 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 384676004064 non-specific DNA binding site [nucleotide binding]; other site 384676004065 salt bridge; other site 384676004066 sequence-specific DNA binding site [nucleotide binding]; other site 384676004067 HipA N-terminal domain; Region: Couple_hipA; pfam13657 384676004068 HipA-like N-terminal domain; Region: HipA_N; pfam07805 384676004069 HipA-like C-terminal domain; Region: HipA_C; pfam07804 384676004070 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 384676004071 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676004072 HipA N-terminal domain; Region: Couple_hipA; cl11853 384676004073 HipA-like N-terminal domain; Region: HipA_N; pfam07805 384676004074 HipA-like C-terminal domain; Region: HipA_C; pfam07804 384676004075 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 384676004076 non-specific DNA binding site [nucleotide binding]; other site 384676004077 salt bridge; other site 384676004078 sequence-specific DNA binding site [nucleotide binding]; other site 384676004079 BRO family, N-terminal domain; Region: Bro-N; smart01040 384676004080 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 384676004081 dimer interface [polypeptide binding]; other site 384676004082 putative radical transfer pathway; other site 384676004083 diiron center [ion binding]; other site 384676004084 tyrosyl radical; other site 384676004085 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 384676004086 ATP cone domain; Region: ATP-cone; pfam03477 384676004087 ATP cone domain; Region: ATP-cone; pfam03477 384676004088 Class I ribonucleotide reductase; Region: RNR_I; cd01679 384676004089 active site 384676004090 dimer interface [polypeptide binding]; other site 384676004091 catalytic residues [active] 384676004092 effector binding site; other site 384676004093 R2 peptide binding site; other site 384676004094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676004095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004096 active site 384676004097 phosphorylation site [posttranslational modification] 384676004098 intermolecular recognition site; other site 384676004099 dimerization interface [polypeptide binding]; other site 384676004100 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 384676004101 DNA binding site [nucleotide binding] 384676004102 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 384676004103 dimerization interface [polypeptide binding]; other site 384676004104 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 384676004105 dimer interface [polypeptide binding]; other site 384676004106 phosphorylation site [posttranslational modification] 384676004107 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004108 ATP binding site [chemical binding]; other site 384676004109 Mg2+ binding site [ion binding]; other site 384676004110 G-X-G motif; other site 384676004111 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 384676004112 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 384676004113 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 384676004114 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676004115 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 384676004116 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 384676004117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004118 active site 384676004119 phosphorylation site [posttranslational modification] 384676004120 intermolecular recognition site; other site 384676004121 dimerization interface [polypeptide binding]; other site 384676004122 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 384676004123 DNA binding site [nucleotide binding] 384676004124 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 384676004125 dimer interface [polypeptide binding]; other site 384676004126 phosphorylation site [posttranslational modification] 384676004127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004128 ATP binding site [chemical binding]; other site 384676004129 G-X-G motif; other site 384676004130 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 384676004131 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 384676004132 hypothetical protein; Provisional; Region: PRK04860 384676004133 SprT homologues; Region: SprT; cl01182 384676004134 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 384676004135 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 384676004136 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 384676004137 Ligand Binding Site [chemical binding]; other site 384676004138 3-methyladenine DNA glycosylase [DNA replication, recombination, and repair]; Region: Tag; COG2818 384676004139 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 384676004140 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 384676004141 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676004142 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 384676004143 ArsC family; Region: ArsC; pfam03960 384676004144 catalytic residues [active] 384676004145 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 384676004146 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676004147 catalytic residues [active] 384676004148 META domain; Region: META; pfam03724 384676004149 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 384676004150 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 384676004151 putative ligand binding site [chemical binding]; other site 384676004152 putative NAD binding site [chemical binding]; other site 384676004153 catalytic site [active] 384676004154 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 384676004155 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 384676004156 dimerization interface [polypeptide binding]; other site 384676004157 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 384676004158 dimer interface [polypeptide binding]; other site 384676004159 phosphorylation site [posttranslational modification] 384676004160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004161 ATP binding site [chemical binding]; other site 384676004162 Mg2+ binding site [ion binding]; other site 384676004163 G-X-G motif; other site 384676004164 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004165 active site 384676004166 phosphorylation site [posttranslational modification] 384676004167 intermolecular recognition site; other site 384676004168 dimerization interface [polypeptide binding]; other site 384676004169 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 384676004170 putative binding surface; other site 384676004171 active site 384676004172 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676004173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004174 active site 384676004175 phosphorylation site [posttranslational modification] 384676004176 intermolecular recognition site; other site 384676004177 dimerization interface [polypeptide binding]; other site 384676004178 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 384676004179 DNA binding site [nucleotide binding] 384676004180 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676004181 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 384676004182 dimerization interface [polypeptide binding]; other site 384676004183 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 384676004184 dimer interface [polypeptide binding]; other site 384676004185 phosphorylation site [posttranslational modification] 384676004186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004187 ATP binding site [chemical binding]; other site 384676004188 Mg2+ binding site [ion binding]; other site 384676004189 G-X-G motif; other site 384676004190 cysteine synthase B; Region: cysM; TIGR01138 384676004191 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 384676004192 dimer interface [polypeptide binding]; other site 384676004193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004194 catalytic residue [active] 384676004195 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 384676004196 TRAM domain; Region: TRAM; pfam01938 384676004197 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676004198 S-adenosylmethionine binding site [chemical binding]; other site 384676004199 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 384676004200 HD domain; Region: HD_4; pfam13328 384676004201 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 384676004202 synthetase active site [active] 384676004203 NTP binding site [chemical binding]; other site 384676004204 metal binding site [ion binding]; metal-binding site 384676004205 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 384676004206 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 384676004207 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 384676004208 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 384676004209 homodimer interface [polypeptide binding]; other site 384676004210 metal binding site [ion binding]; metal-binding site 384676004211 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 384676004212 homodimer interface [polypeptide binding]; other site 384676004213 active site 384676004214 putative chemical substrate binding site [chemical binding]; other site 384676004215 metal binding site [ion binding]; metal-binding site 384676004216 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 384676004217 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 384676004218 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 384676004219 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 384676004220 active site 384676004221 substrate binding site [chemical binding]; other site 384676004222 cosubstrate binding site; other site 384676004223 catalytic site [active] 384676004224 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 384676004225 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 384676004226 dimerization interface [polypeptide binding]; other site 384676004227 putative ATP binding site [chemical binding]; other site 384676004228 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 384676004229 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 384676004230 Domain of unknown function DUF20; Region: UPF0118; pfam01594 384676004231 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 384676004232 DNA replication initiation factor; Validated; Region: PRK05642 384676004233 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 384676004234 NlpC/P60 family; Region: NLPC_P60; pfam00877 384676004235 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 384676004236 NlpC/P60 family; Region: NLPC_P60; pfam00877 384676004237 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 384676004238 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 384676004239 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 384676004240 Walker A motif; other site 384676004241 homodimer interface [polypeptide binding]; other site 384676004242 ATP binding site [chemical binding]; other site 384676004243 hydroxycobalamin binding site [chemical binding]; other site 384676004244 Walker B motif; other site 384676004245 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 384676004246 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 384676004247 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 384676004248 catalytic triad [active] 384676004249 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 384676004250 putative FMN binding site [chemical binding]; other site 384676004251 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 384676004252 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 384676004253 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 384676004254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004255 homodimer interface [polypeptide binding]; other site 384676004256 catalytic residue [active] 384676004257 cobyric acid synthase; Provisional; Region: PRK00784 384676004258 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 384676004259 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 384676004260 catalytic triad [active] 384676004261 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 384676004262 homotrimer interface [polypeptide binding]; other site 384676004263 Walker A motif; other site 384676004264 GTP binding site [chemical binding]; other site 384676004265 Walker B motif; other site 384676004266 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 384676004267 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 384676004268 putative dimer interface [polypeptide binding]; other site 384676004269 active site pocket [active] 384676004270 putative cataytic base [active] 384676004271 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 384676004272 catalytic core [active] 384676004273 cobalamin synthase; Reviewed; Region: cobS; PRK00235 384676004274 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 384676004275 Transcriptional regulators [Transcription]; Region: MarR; COG1846 384676004276 MarR family; Region: MarR_2; pfam12802 384676004277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676004278 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004279 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 384676004280 catalytic residues [active] 384676004281 dimer interface [polypeptide binding]; other site 384676004282 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 384676004283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004285 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 384676004286 putative effector binding pocket; other site 384676004287 dimerization interface [polypeptide binding]; other site 384676004288 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 384676004289 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 384676004290 RmuC family; Region: RmuC; pfam02646 384676004291 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 384676004292 Na binding site [ion binding]; other site 384676004293 PAS domain; Region: PAS; smart00091 384676004294 PAS fold; Region: PAS_7; pfam12860 384676004295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676004296 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 384676004297 dimer interface [polypeptide binding]; other site 384676004298 phosphorylation site [posttranslational modification] 384676004299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004300 ATP binding site [chemical binding]; other site 384676004301 Mg2+ binding site [ion binding]; other site 384676004302 G-X-G motif; other site 384676004303 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676004304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004305 active site 384676004306 phosphorylation site [posttranslational modification] 384676004307 intermolecular recognition site; other site 384676004308 dimerization interface [polypeptide binding]; other site 384676004309 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004310 putative substrate translocation pore; other site 384676004311 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 384676004312 gating phenylalanine in ion channel; other site 384676004313 H+ Antiporter protein; Region: 2A0121; TIGR00900 384676004314 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004315 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676004316 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676004317 putative acyl-acceptor binding pocket; other site 384676004318 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 384676004319 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 384676004320 Sodium Bile acid symporter family; Region: SBF; cl17470 384676004321 recombination associated protein; Reviewed; Region: rdgC; PRK00321 384676004322 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 384676004323 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 384676004324 nucleotide binding site [chemical binding]; other site 384676004325 putative NEF/HSP70 interaction site [polypeptide binding]; other site 384676004326 SBD interface [polypeptide binding]; other site 384676004327 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 384676004328 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 384676004329 active site 384676004330 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 384676004331 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 384676004332 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 384676004333 [4Fe-4S] binding site [ion binding]; other site 384676004334 molybdopterin cofactor binding site; other site 384676004335 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 384676004336 molybdopterin cofactor binding site; other site 384676004337 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 384676004338 Flavodoxin; Region: Flavodoxin_1; pfam00258 384676004339 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 384676004340 FAD binding pocket [chemical binding]; other site 384676004341 FAD binding motif [chemical binding]; other site 384676004342 catalytic residues [active] 384676004343 NAD binding pocket [chemical binding]; other site 384676004344 phosphate binding motif [ion binding]; other site 384676004345 beta-alpha-beta structure motif; other site 384676004346 nitrite reductase subunit NirD; Provisional; Region: PRK14989 384676004347 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676004348 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 384676004349 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 384676004350 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 384676004351 RHS Repeat; Region: RHS_repeat; cl11982 384676004352 RHS Repeat; Region: RHS_repeat; pfam05593 384676004353 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676004354 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676004355 RHS Repeat; Region: RHS_repeat; pfam05593 384676004356 RHS Repeat; Region: RHS_repeat; cl11982 384676004357 RHS Repeat; Region: RHS_repeat; cl11982 384676004358 RHS protein; Region: RHS; pfam03527 384676004359 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676004360 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676004361 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 384676004362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004363 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 384676004364 dimerization interface [polypeptide binding]; other site 384676004365 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 384676004366 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 384676004367 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676004368 Uncharacterized conserved protein [Function unknown]; Region: COG3339 384676004369 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 384676004370 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 384676004371 sequence-specific DNA binding site [nucleotide binding]; other site 384676004372 salt bridge; other site 384676004373 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 384676004374 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 384676004375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676004376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676004377 metal binding site [ion binding]; metal-binding site 384676004378 active site 384676004379 I-site; other site 384676004380 carboxy-terminal protease; Provisional; Region: PRK11186 384676004381 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 384676004382 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 384676004383 protein binding site [polypeptide binding]; other site 384676004384 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 384676004385 Catalytic dyad [active] 384676004386 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 384676004387 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 384676004388 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 384676004389 NAD(P) binding site [chemical binding]; other site 384676004390 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 384676004391 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676004392 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 384676004393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676004394 Walker A/P-loop; other site 384676004395 ATP binding site [chemical binding]; other site 384676004396 Q-loop/lid; other site 384676004397 ABC transporter signature motif; other site 384676004398 Walker B; other site 384676004399 D-loop; other site 384676004400 H-loop/switch region; other site 384676004401 TOBE domain; Region: TOBE_2; pfam08402 384676004402 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676004403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676004404 dimer interface [polypeptide binding]; other site 384676004405 conserved gate region; other site 384676004406 ABC-ATPase subunit interface; other site 384676004407 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676004408 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676004409 dimer interface [polypeptide binding]; other site 384676004410 conserved gate region; other site 384676004411 putative PBP binding loops; other site 384676004412 ABC-ATPase subunit interface; other site 384676004413 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 384676004414 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 384676004415 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 384676004416 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 384676004417 transcriptional regulator protein; Region: phnR; TIGR03337 384676004418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676004419 DNA-binding site [nucleotide binding]; DNA binding site 384676004420 UTRA domain; Region: UTRA; pfam07702 384676004421 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 384676004422 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676004423 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 384676004424 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 384676004425 active site 384676004426 metal binding site [ion binding]; metal-binding site 384676004427 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 384676004428 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 384676004429 active site 384676004430 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 384676004431 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 384676004432 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 384676004433 Switch I; other site 384676004434 Switch II; other site 384676004435 septum formation inhibitor; Reviewed; Region: minC; PRK00339 384676004436 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 384676004437 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 384676004438 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 384676004439 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 384676004440 putative acyl-acceptor binding pocket; other site 384676004441 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 384676004442 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 384676004443 active site 384676004444 nucleophile elbow; other site 384676004445 VacJ like lipoprotein; Region: VacJ; cl01073 384676004446 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 384676004447 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676004448 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 384676004449 Predicted membrane protein [Function unknown]; Region: COG3162 384676004450 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 384676004451 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 384676004452 Na binding site [ion binding]; other site 384676004453 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 384676004454 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 384676004455 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 384676004456 putative fimbrial protein TcfA; Provisional; Region: PRK15308 384676004457 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676004458 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004459 active site 384676004460 phosphorylation site [posttranslational modification] 384676004461 intermolecular recognition site; other site 384676004462 dimerization interface [polypeptide binding]; other site 384676004463 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 384676004464 DNA binding residues [nucleotide binding] 384676004465 dimerization interface [polypeptide binding]; other site 384676004466 Response regulator receiver domain; Region: Response_reg; pfam00072 384676004467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004468 active site 384676004469 phosphorylation site [posttranslational modification] 384676004470 intermolecular recognition site; other site 384676004471 dimerization interface [polypeptide binding]; other site 384676004472 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 384676004473 putative binding surface; other site 384676004474 active site 384676004475 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 384676004476 short chain dehydrogenase; Provisional; Region: PRK05650 384676004477 classical (c) SDRs; Region: SDR_c; cd05233 384676004478 NAD(P) binding site [chemical binding]; other site 384676004479 active site 384676004480 Global regulator protein family; Region: CsrA; pfam02599 384676004481 hypothetical protein; Provisional; Region: PRK00304 384676004482 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 384676004483 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 384676004484 putative oligomer interface [polypeptide binding]; other site 384676004485 putative active site [active] 384676004486 metal binding site [ion binding]; metal-binding site 384676004487 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 384676004488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676004489 Coenzyme A binding pocket [chemical binding]; other site 384676004490 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676004491 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 384676004492 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 384676004493 active site 384676004494 dimer interface [polypeptide binding]; other site 384676004495 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 384676004496 Ligand Binding Site [chemical binding]; other site 384676004497 Molecular Tunnel; other site 384676004498 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 384676004499 Uncharacterized conserved protein [Function unknown]; Region: COG4121 384676004500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676004501 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 384676004502 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 384676004503 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 384676004504 fumarate hydratase; Provisional; Region: PRK12425 384676004505 Class II fumarases; Region: Fumarase_classII; cd01362 384676004506 active site 384676004507 tetramer interface [polypeptide binding]; other site 384676004508 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 384676004509 BolA-like protein; Region: BolA; pfam01722 384676004510 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 384676004511 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 384676004512 active site residue [active] 384676004513 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 384676004514 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 384676004515 catalytic residues [active] 384676004516 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676004517 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676004518 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676004519 Walker A/P-loop; other site 384676004520 ATP binding site [chemical binding]; other site 384676004521 Q-loop/lid; other site 384676004522 ABC transporter signature motif; other site 384676004523 Walker B; other site 384676004524 D-loop; other site 384676004525 H-loop/switch region; other site 384676004526 PAS domain S-box; Region: sensory_box; TIGR00229 384676004527 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 384676004528 putative active site [active] 384676004529 heme pocket [chemical binding]; other site 384676004530 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676004531 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676004532 metal binding site [ion binding]; metal-binding site 384676004533 active site 384676004534 I-site; other site 384676004535 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 384676004536 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 384676004537 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 384676004538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676004539 NAD(P) binding site [chemical binding]; other site 384676004540 active site 384676004541 phosphoglycolate phosphatase; Provisional; Region: PRK13222 384676004542 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676004543 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 384676004544 motif II; other site 384676004545 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 384676004546 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676004547 S-adenosylmethionine binding site [chemical binding]; other site 384676004548 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 384676004549 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 384676004550 active site 384676004551 putative substrate binding pocket [chemical binding]; other site 384676004552 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 384676004553 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 384676004554 DNA gyrase subunit A; Validated; Region: PRK05560 384676004555 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 384676004556 CAP-like domain; other site 384676004557 active site 384676004558 primary dimer interface [polypeptide binding]; other site 384676004559 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004560 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004561 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004562 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004563 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004564 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 384676004565 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 384676004566 homodimer interface [polypeptide binding]; other site 384676004567 substrate-cofactor binding pocket; other site 384676004568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004569 catalytic residue [active] 384676004570 Chorismate mutase type II; Region: CM_2; cl00693 384676004571 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 384676004572 Prephenate dehydratase; Region: PDT; pfam00800 384676004573 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 384676004574 putative L-Phe binding site [chemical binding]; other site 384676004575 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 384676004576 prephenate dehydrogenase; Validated; Region: PRK08507 384676004577 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 384676004578 hinge; other site 384676004579 active site 384676004580 cytidylate kinase; Provisional; Region: cmk; PRK00023 384676004581 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 384676004582 CMP-binding site; other site 384676004583 The sites determining sugar specificity; other site 384676004584 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 384676004585 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 384676004586 RNA binding site [nucleotide binding]; other site 384676004587 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 384676004588 RNA binding site [nucleotide binding]; other site 384676004589 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 384676004590 RNA binding site [nucleotide binding]; other site 384676004591 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 384676004592 RNA binding site [nucleotide binding]; other site 384676004593 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 384676004594 RNA binding site [nucleotide binding]; other site 384676004595 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 384676004596 RNA binding site [nucleotide binding]; other site 384676004597 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 384676004598 IHF dimer interface [polypeptide binding]; other site 384676004599 IHF - DNA interface [nucleotide binding]; other site 384676004600 Chain length determinant protein; Region: Wzz; pfam02706 384676004601 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 384676004602 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 384676004603 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 384676004604 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 384676004605 putative glycosyl transferase; Provisional; Region: PRK10307 384676004606 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 384676004607 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 384676004608 NAD(P) binding site [chemical binding]; other site 384676004609 homodimer interface [polypeptide binding]; other site 384676004610 substrate binding site [chemical binding]; other site 384676004611 active site 384676004612 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 384676004613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676004614 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 384676004615 NAD(P) binding site [chemical binding]; other site 384676004616 active site 384676004617 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 384676004618 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 384676004619 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 384676004620 active site 384676004621 homodimer interface [polypeptide binding]; other site 384676004622 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 384676004623 putative glycosyl transferase; Provisional; Region: PRK10307 384676004624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676004625 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 384676004626 putative NAD(P) binding site [chemical binding]; other site 384676004627 active site 384676004628 putative substrate binding site [chemical binding]; other site 384676004629 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 384676004630 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 384676004631 Mg++ binding site [ion binding]; other site 384676004632 putative catalytic motif [active] 384676004633 putative substrate binding site [chemical binding]; other site 384676004634 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 384676004635 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 384676004636 NAD(P) binding site [chemical binding]; other site 384676004637 homodimer interface [polypeptide binding]; other site 384676004638 substrate binding site [chemical binding]; other site 384676004639 active site 384676004640 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 384676004641 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 384676004642 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 384676004643 active site 384676004644 dimer interface [polypeptide binding]; other site 384676004645 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 384676004646 Prostaglandin dehydrogenases; Region: PGDH; cd05288 384676004647 NAD(P) binding site [chemical binding]; other site 384676004648 substrate binding site [chemical binding]; other site 384676004649 dimer interface [polypeptide binding]; other site 384676004650 short chain dehydrogenase; Provisional; Region: PRK06172 384676004651 classical (c) SDRs; Region: SDR_c; cd05233 384676004652 NAD(P) binding site [chemical binding]; other site 384676004653 active site 384676004654 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 384676004655 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004656 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676004657 putative substrate translocation pore; other site 384676004658 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 384676004659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676004660 DNA-binding site [nucleotide binding]; DNA binding site 384676004661 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 384676004662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004663 homodimer interface [polypeptide binding]; other site 384676004664 catalytic residue [active] 384676004665 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 384676004666 dimerization interface [polypeptide binding]; other site 384676004667 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676004668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676004669 dimer interface [polypeptide binding]; other site 384676004670 putative CheW interface [polypeptide binding]; other site 384676004671 benzoate transporter; Region: benE; TIGR00843 384676004672 Benzoate membrane transport protein; Region: BenE; pfam03594 384676004673 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676004674 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 384676004675 putative C-terminal domain interface [polypeptide binding]; other site 384676004676 putative GSH binding site (G-site) [chemical binding]; other site 384676004677 putative dimer interface [polypeptide binding]; other site 384676004678 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 384676004679 N-terminal domain interface [polypeptide binding]; other site 384676004680 dimer interface [polypeptide binding]; other site 384676004681 substrate binding pocket (H-site) [chemical binding]; other site 384676004682 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 384676004683 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 384676004684 GTP cyclohydrolase I; Provisional; Region: PLN03044 384676004685 active site 384676004686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 384676004687 Smr domain; Region: Smr; pfam01713 384676004688 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 384676004689 Isochorismatase family; Region: Isochorismatase; pfam00857 384676004690 catalytic triad [active] 384676004691 conserved cis-peptide bond; other site 384676004692 HemK family putative methylases; Region: hemK_fam; TIGR00536 384676004693 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676004694 S-adenosylmethionine binding site [chemical binding]; other site 384676004695 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676004696 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 384676004697 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 384676004698 Tetramer interface [polypeptide binding]; other site 384676004699 active site 384676004700 FMN-binding site [chemical binding]; other site 384676004701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004702 putative substrate translocation pore; other site 384676004703 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 384676004704 Cupin domain; Region: Cupin_2; cl17218 384676004705 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 384676004706 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 384676004707 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 384676004708 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 384676004709 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 384676004710 ZIP Zinc transporter; Region: Zip; pfam02535 384676004711 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 384676004712 Sulfatase; Region: Sulfatase; pfam00884 384676004713 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 384676004714 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676004715 Cytochrome c; Region: Cytochrom_C; pfam00034 384676004716 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 384676004717 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 384676004718 catalytic triad [active] 384676004719 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 384676004720 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 384676004721 oligomer interface [polypeptide binding]; other site 384676004722 metal binding site [ion binding]; metal-binding site 384676004723 metal binding site [ion binding]; metal-binding site 384676004724 putative Cl binding site [ion binding]; other site 384676004725 basic sphincter; other site 384676004726 hydrophobic gate; other site 384676004727 periplasmic entrance; other site 384676004728 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 384676004729 putative acyl-acceptor binding pocket; other site 384676004730 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 384676004731 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 384676004732 substrate binding site [chemical binding]; other site 384676004733 oxyanion hole (OAH) forming residues; other site 384676004734 trimer interface [polypeptide binding]; other site 384676004735 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676004736 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 384676004737 N-terminal plug; other site 384676004738 ligand-binding site [chemical binding]; other site 384676004739 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 384676004740 active site 384676004741 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 384676004742 Protease inhibitor Inh; Region: Inh; pfam02974 384676004743 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 384676004744 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 384676004745 Walker A/P-loop; other site 384676004746 ATP binding site [chemical binding]; other site 384676004747 Q-loop/lid; other site 384676004748 ABC transporter signature motif; other site 384676004749 Walker B; other site 384676004750 D-loop; other site 384676004751 H-loop/switch region; other site 384676004752 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 384676004753 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676004754 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676004755 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676004756 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 384676004757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004759 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 384676004760 putative dimerization interface [polypeptide binding]; other site 384676004761 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 384676004762 classical (c) SDRs; Region: SDR_c; cd05233 384676004763 NAD(P) binding site [chemical binding]; other site 384676004764 active site 384676004765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004767 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 384676004768 putative effector binding pocket; other site 384676004769 dimerization interface [polypeptide binding]; other site 384676004770 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 384676004771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 384676004772 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 384676004773 elongation factor P; Validated; Region: PRK00529 384676004774 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 384676004775 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 384676004776 RNA binding site [nucleotide binding]; other site 384676004777 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 384676004778 RNA binding site [nucleotide binding]; other site 384676004779 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 384676004780 Transcriptional regulators [Transcription]; Region: MarR; COG1846 384676004781 MarR family; Region: MarR; pfam01047 384676004782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004784 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 384676004785 putative effector binding pocket; other site 384676004786 dimerization interface [polypeptide binding]; other site 384676004787 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676004788 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676004789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676004790 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 384676004791 dimerization interface [polypeptide binding]; other site 384676004792 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 384676004793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 384676004794 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 384676004795 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 384676004796 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676004797 helicase 45; Provisional; Region: PTZ00424 384676004798 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 384676004799 ATP binding site [chemical binding]; other site 384676004800 Mg++ binding site [ion binding]; other site 384676004801 motif III; other site 384676004802 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 384676004803 nucleotide binding region [chemical binding]; other site 384676004804 ATP-binding site [chemical binding]; other site 384676004805 DbpA RNA binding domain; Region: DbpA; pfam03880 384676004806 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 384676004807 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676004808 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676004809 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676004810 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 384676004811 putative active site [active] 384676004812 metal binding site [ion binding]; metal-binding site 384676004813 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 384676004814 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 384676004815 heat shock protein HtpX; Provisional; Region: PRK05457 384676004816 aminotransferase AlaT; Validated; Region: PRK09265 384676004817 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 384676004818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004819 homodimer interface [polypeptide binding]; other site 384676004820 catalytic residue [active] 384676004821 methionine sulfoxide reductase B; Provisional; Region: PRK00222 384676004822 SelR domain; Region: SelR; pfam01641 384676004823 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 384676004824 catalytic residues [active] 384676004825 dimer interface [polypeptide binding]; other site 384676004826 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 384676004827 dimer interface [polypeptide binding]; other site 384676004828 phosphorylation site [posttranslational modification] 384676004829 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676004830 ATP binding site [chemical binding]; other site 384676004831 Mg2+ binding site [ion binding]; other site 384676004832 G-X-G motif; other site 384676004833 Response regulator receiver domain; Region: Response_reg; pfam00072 384676004834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676004835 active site 384676004836 phosphorylation site [posttranslational modification] 384676004837 intermolecular recognition site; other site 384676004838 dimerization interface [polypeptide binding]; other site 384676004839 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 384676004840 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676004841 Walker A motif; other site 384676004842 ATP binding site [chemical binding]; other site 384676004843 Walker B motif; other site 384676004844 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 384676004845 GAF domain; Region: GAF_2; pfam13185 384676004846 GAF domain; Region: GAF_2; pfam13185 384676004847 GAF domain; Region: GAF; pfam01590 384676004848 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 384676004849 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 384676004850 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 384676004851 active site 384676004852 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 384676004853 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676004854 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 384676004855 putative C-terminal domain interface [polypeptide binding]; other site 384676004856 putative GSH binding site (G-site) [chemical binding]; other site 384676004857 putative dimer interface [polypeptide binding]; other site 384676004858 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 384676004859 putative N-terminal domain interface [polypeptide binding]; other site 384676004860 putative dimer interface [polypeptide binding]; other site 384676004861 putative substrate binding pocket (H-site) [chemical binding]; other site 384676004862 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 384676004863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676004864 Walker A/P-loop; other site 384676004865 ATP binding site [chemical binding]; other site 384676004866 Q-loop/lid; other site 384676004867 ABC transporter signature motif; other site 384676004868 Walker B; other site 384676004869 D-loop; other site 384676004870 H-loop/switch region; other site 384676004871 inner membrane transport permease; Provisional; Region: PRK15066 384676004872 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 384676004873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 384676004874 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 384676004875 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 384676004876 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 384676004877 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 384676004878 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 384676004879 Uncharacterized conserved protein [Function unknown]; Region: COG2835 384676004880 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 384676004881 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 384676004882 Ligand binding site; other site 384676004883 oligomer interface; other site 384676004884 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 384676004885 Low molecular weight phosphatase family; Region: LMWPc; cd00115 384676004886 active site 384676004887 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 384676004888 FAD binding domain; Region: FAD_binding_4; pfam01565 384676004889 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 384676004890 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 384676004891 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 384676004892 homodimer interface [polypeptide binding]; other site 384676004893 oligonucleotide binding site [chemical binding]; other site 384676004894 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 384676004895 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 384676004896 RNA binding surface [nucleotide binding]; other site 384676004897 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 384676004898 active site 384676004899 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 384676004900 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 384676004901 motif II; other site 384676004902 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 384676004903 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 384676004904 tandem repeat interface [polypeptide binding]; other site 384676004905 oligomer interface [polypeptide binding]; other site 384676004906 active site residues [active] 384676004907 Maf-like protein; Region: Maf; pfam02545 384676004908 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 384676004909 active site 384676004910 dimer interface [polypeptide binding]; other site 384676004911 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 384676004912 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 384676004913 putative phosphate acyltransferase; Provisional; Region: PRK05331 384676004914 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 384676004915 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 384676004916 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 384676004917 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 384676004918 NAD(P) binding site [chemical binding]; other site 384676004919 homotetramer interface [polypeptide binding]; other site 384676004920 homodimer interface [polypeptide binding]; other site 384676004921 active site 384676004922 acyl carrier protein; Provisional; Region: acpP; PRK00982 384676004923 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 384676004924 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 384676004925 dimer interface [polypeptide binding]; other site 384676004926 active site 384676004927 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 384676004928 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 384676004929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004930 catalytic residue [active] 384676004931 YceG-like family; Region: YceG; pfam02618 384676004932 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 384676004933 dimerization interface [polypeptide binding]; other site 384676004934 thymidylate kinase; Validated; Region: tmk; PRK00698 384676004935 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 384676004936 TMP-binding site; other site 384676004937 ATP-binding site [chemical binding]; other site 384676004938 DNA polymerase III subunit delta'; Validated; Region: PRK05707 384676004939 DNA polymerase III subunit delta'; Validated; Region: PRK08485 384676004940 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 384676004941 active site 384676004942 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 384676004943 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 384676004944 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676004945 catalytic residue [active] 384676004946 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676004947 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676004948 WHG domain; Region: WHG; pfam13305 384676004949 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 384676004950 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 384676004951 FeS/SAM binding site; other site 384676004952 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 384676004953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 384676004954 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 384676004955 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 384676004956 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 384676004957 nucleoside/Zn binding site; other site 384676004958 dimer interface [polypeptide binding]; other site 384676004959 catalytic motif [active] 384676004960 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 384676004961 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 384676004962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676004963 homodimer interface [polypeptide binding]; other site 384676004964 catalytic residue [active] 384676004965 excinuclease ABC subunit B; Provisional; Region: PRK05298 384676004966 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 384676004967 ATP binding site [chemical binding]; other site 384676004968 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 384676004969 nucleotide binding region [chemical binding]; other site 384676004970 ATP-binding site [chemical binding]; other site 384676004971 Ultra-violet resistance protein B; Region: UvrB; pfam12344 384676004972 UvrB/uvrC motif; Region: UVR; pfam02151 384676004973 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676004974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004975 putative substrate translocation pore; other site 384676004976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676004977 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 384676004978 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676004979 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 384676004980 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676004981 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 384676004982 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 384676004983 active site 384676004984 HIGH motif; other site 384676004985 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 384676004986 active site 384676004987 KMSKS motif; other site 384676004988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676004989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676004990 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676004991 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676004992 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 384676004993 active site 384676004994 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 384676004995 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 384676004996 FMN binding site [chemical binding]; other site 384676004997 active site 384676004998 catalytic residues [active] 384676004999 substrate binding site [chemical binding]; other site 384676005000 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 384676005001 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 384676005002 putative dimer interface [polypeptide binding]; other site 384676005003 PAS fold; Region: PAS_3; pfam08447 384676005004 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 384676005005 putative active site [active] 384676005006 heme pocket [chemical binding]; other site 384676005007 PAS domain S-box; Region: sensory_box; TIGR00229 384676005008 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 384676005009 putative active site [active] 384676005010 heme pocket [chemical binding]; other site 384676005011 PAS fold; Region: PAS_3; pfam08447 384676005012 PAS domain S-box; Region: sensory_box; TIGR00229 384676005013 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 384676005014 putative active site [active] 384676005015 heme pocket [chemical binding]; other site 384676005016 PAS domain S-box; Region: sensory_box; TIGR00229 384676005017 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 384676005018 putative active site [active] 384676005019 heme pocket [chemical binding]; other site 384676005020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676005021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676005022 metal binding site [ion binding]; metal-binding site 384676005023 active site 384676005024 I-site; other site 384676005025 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 384676005026 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676005027 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005028 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 384676005029 dimerization interface [polypeptide binding]; other site 384676005030 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 384676005031 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 384676005032 substrate binding site [chemical binding]; other site 384676005033 ligand binding site [chemical binding]; other site 384676005034 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 384676005035 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 384676005036 substrate binding site [chemical binding]; other site 384676005037 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 384676005038 tartrate dehydrogenase; Region: TTC; TIGR02089 384676005039 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 384676005040 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 384676005041 Uncharacterized conserved protein [Function unknown]; Region: COG3791 384676005042 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 384676005043 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676005044 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 384676005045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676005046 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676005047 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 384676005048 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 384676005049 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676005050 Na binding site [ion binding]; other site 384676005051 putative substrate binding site [chemical binding]; other site 384676005052 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676005053 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 384676005054 AsnC family; Region: AsnC_trans_reg; pfam01037 384676005055 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 384676005056 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676005057 S-adenosylmethionine binding site [chemical binding]; other site 384676005058 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 384676005059 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 384676005060 Ion transport protein; Region: Ion_trans; pfam00520 384676005061 Ion channel; Region: Ion_trans_2; pfam07885 384676005062 Double zinc ribbon; Region: DZR; pfam12773 384676005063 Urea transporter; Region: UT; pfam03253 384676005064 pyruvate kinase; Provisional; Region: PRK06247 384676005065 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 384676005066 domain interfaces; other site 384676005067 active site 384676005068 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 384676005069 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 384676005070 MOFRL family; Region: MOFRL; pfam05161 384676005071 tartronate semialdehyde reductase; Provisional; Region: PRK15059 384676005072 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 384676005073 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 384676005074 glyoxylate carboligase; Provisional; Region: PRK11269 384676005075 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 384676005076 PYR/PP interface [polypeptide binding]; other site 384676005077 dimer interface [polypeptide binding]; other site 384676005078 TPP binding site [chemical binding]; other site 384676005079 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 384676005080 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 384676005081 TPP-binding site [chemical binding]; other site 384676005082 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 384676005083 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 384676005084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676005085 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 384676005086 Protein of unknown function (DUF808); Region: DUF808; pfam05661 384676005087 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 384676005088 Sulfatase; Region: Sulfatase; pfam00884 384676005089 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 384676005090 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 384676005091 xanthine permease; Region: pbuX; TIGR03173 384676005092 Predicted membrane protein [Function unknown]; Region: COG3748 384676005093 Protein of unknown function (DUF989); Region: DUF989; pfam06181 384676005094 Cytochrome c; Region: Cytochrom_C; pfam00034 384676005095 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 384676005096 ureidoglycolate hydrolase; Provisional; Region: PRK03606 384676005097 OHCU decarboxylase; Region: UHCUDC; TIGR03164 384676005098 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 384676005099 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 384676005100 active site 384676005101 catalytic site [active] 384676005102 tetramer interface [polypeptide binding]; other site 384676005103 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 384676005104 active site 384676005105 homotetramer interface [polypeptide binding]; other site 384676005106 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK05671 384676005107 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 384676005108 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676005109 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 384676005110 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 384676005111 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 384676005112 dimerization interface 3.5A [polypeptide binding]; other site 384676005113 active site 384676005114 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 384676005115 active site 384676005116 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 384676005117 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 384676005118 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 384676005119 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676005120 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 384676005121 Sporulation related domain; Region: SPOR; pfam05036 384676005122 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 384676005123 Colicin V production protein; Region: Colicin_V; cl00567 384676005124 amidophosphoribosyltransferase; Provisional; Region: PRK09246 384676005125 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 384676005126 active site 384676005127 tetramer interface [polypeptide binding]; other site 384676005128 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676005129 active site 384676005130 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 384676005131 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 384676005132 homodimer interface [polypeptide binding]; other site 384676005133 substrate-cofactor binding pocket; other site 384676005134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676005135 catalytic residue [active] 384676005136 oxidoreductase; Validated; Region: PRK05717 384676005137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676005138 NAD(P) binding site [chemical binding]; other site 384676005139 active site 384676005140 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 384676005141 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 384676005142 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676005143 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676005144 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676005145 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 384676005146 active site 384676005147 catalytic triad [active] 384676005148 dimer interface [polypeptide binding]; other site 384676005149 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676005150 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 384676005151 active site 384676005152 FMN binding site [chemical binding]; other site 384676005153 2,4-decadienoyl-CoA binding site; other site 384676005154 catalytic residue [active] 384676005155 4Fe-4S cluster binding site [ion binding]; other site 384676005156 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 384676005157 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676005158 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 384676005159 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 384676005160 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 384676005161 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 384676005162 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 384676005163 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 384676005164 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 384676005165 active site 384676005166 metal binding site [ion binding]; metal-binding site 384676005167 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 384676005168 Rhomboid family; Region: Rhomboid; cl11446 384676005169 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 384676005170 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 384676005171 aminopeptidase N; Provisional; Region: pepN; PRK14015 384676005172 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 384676005173 active site 384676005174 Zn binding site [ion binding]; other site 384676005175 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 384676005176 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 384676005177 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 384676005178 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676005179 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 384676005180 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 384676005181 putative N-terminal domain interface [polypeptide binding]; other site 384676005182 putative dimer interface [polypeptide binding]; other site 384676005183 putative substrate binding pocket (H-site) [chemical binding]; other site 384676005184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676005185 AAA domain; Region: AAA_23; pfam13476 384676005186 Walker A/P-loop; other site 384676005187 ATP binding site [chemical binding]; other site 384676005188 Q-loop/lid; other site 384676005189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676005190 ABC transporter signature motif; other site 384676005191 Walker B; other site 384676005192 D-loop; other site 384676005193 H-loop/switch region; other site 384676005194 exonuclease subunit SbcD; Provisional; Region: PRK10966 384676005195 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 384676005196 active site 384676005197 metal binding site [ion binding]; metal-binding site 384676005198 DNA binding site [nucleotide binding] 384676005199 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 384676005200 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 384676005201 Oxygen tolerance; Region: BatD; pfam13584 384676005202 von Willebrand factor type A domain; Region: VWA_2; pfam13519 384676005203 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 384676005204 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 384676005205 metal ion-dependent adhesion site (MIDAS); other site 384676005206 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 384676005207 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 384676005208 Protein of unknown function DUF58; Region: DUF58; pfam01882 384676005209 MoxR-like ATPases [General function prediction only]; Region: COG0714 384676005210 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676005211 Walker A motif; other site 384676005212 ATP binding site [chemical binding]; other site 384676005213 Walker B motif; other site 384676005214 arginine finger; other site 384676005215 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676005216 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676005217 putative substrate translocation pore; other site 384676005218 Predicted dehydrogenase [General function prediction only]; Region: COG0579 384676005219 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676005220 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676005221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005222 DNA-binding site [nucleotide binding]; DNA binding site 384676005223 FCD domain; Region: FCD; pfam07729 384676005224 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 384676005225 PEP synthetase regulatory protein; Provisional; Region: PRK05339 384676005226 phosphoenolpyruvate synthase; Validated; Region: PRK06464 384676005227 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 384676005228 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 384676005229 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 384676005230 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 384676005231 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676005232 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 384676005233 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 384676005234 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 384676005235 Cl binding site [ion binding]; other site 384676005236 oligomer interface [polypeptide binding]; other site 384676005237 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 384676005238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676005239 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 384676005240 DNA binding residues [nucleotide binding] 384676005241 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 384676005242 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676005243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676005244 ligand binding site [chemical binding]; other site 384676005245 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 384676005246 active site 384676005247 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 384676005248 Catalytic domain of Protein Kinases; Region: PKc; cd00180 384676005249 active site 384676005250 ATP binding site [chemical binding]; other site 384676005251 substrate binding site [chemical binding]; other site 384676005252 activation loop (A-loop); other site 384676005253 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 384676005254 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676005255 putative substrate translocation pore; other site 384676005256 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 384676005257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676005258 active site 384676005259 phosphorylation site [posttranslational modification] 384676005260 intermolecular recognition site; other site 384676005261 dimerization interface [polypeptide binding]; other site 384676005262 ANTAR domain; Region: ANTAR; pfam03861 384676005263 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 384676005264 NMT1-like family; Region: NMT1_2; pfam13379 384676005265 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 384676005266 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 384676005267 quinone interaction residues [chemical binding]; other site 384676005268 active site 384676005269 catalytic residues [active] 384676005270 FMN binding site [chemical binding]; other site 384676005271 substrate binding site [chemical binding]; other site 384676005272 Ribosome modulation factor; Region: RMF; pfam04957 384676005273 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 384676005274 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 384676005275 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676005276 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676005277 S-adenosylmethionine binding site [chemical binding]; other site 384676005278 CHASE domain; Region: CHASE; pfam03924 384676005279 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 384676005280 PAS domain; Region: PAS_9; pfam13426 384676005281 putative active site [active] 384676005282 heme pocket [chemical binding]; other site 384676005283 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 384676005284 putative active site [active] 384676005285 heme pocket [chemical binding]; other site 384676005286 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676005287 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676005288 metal binding site [ion binding]; metal-binding site 384676005289 active site 384676005290 I-site; other site 384676005291 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 384676005292 Transcriptional regulators [Transcription]; Region: GntR; COG1802 384676005293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005294 DNA-binding site [nucleotide binding]; DNA binding site 384676005295 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 384676005296 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 384676005297 amphipathic channel; other site 384676005298 Asn-Pro-Ala signature motifs; other site 384676005299 guanine deaminase; Provisional; Region: PRK09228 384676005300 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 384676005301 active site 384676005302 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 384676005303 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 384676005304 XdhC Rossmann domain; Region: XdhC_C; pfam13478 384676005305 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 384676005306 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 384676005307 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676005308 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 384676005309 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 384676005310 catalytic loop [active] 384676005311 iron binding site [ion binding]; other site 384676005312 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 384676005313 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 384676005314 Transcriptional regulators [Transcription]; Region: GntR; COG1802 384676005315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005316 DNA-binding site [nucleotide binding]; DNA binding site 384676005317 FCD domain; Region: FCD; cl11656 384676005318 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 384676005319 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 384676005320 Walker A/P-loop; other site 384676005321 ATP binding site [chemical binding]; other site 384676005322 Q-loop/lid; other site 384676005323 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 384676005324 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 384676005325 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 384676005326 ABC transporter signature motif; other site 384676005327 Walker B; other site 384676005328 D-loop; other site 384676005329 H-loop/switch region; other site 384676005330 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 384676005331 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 384676005332 FtsZ protein binding site [polypeptide binding]; other site 384676005333 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 384676005334 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 384676005335 nucleotide binding pocket [chemical binding]; other site 384676005336 K-X-D-G motif; other site 384676005337 catalytic site [active] 384676005338 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 384676005339 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 384676005340 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 384676005341 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 384676005342 Dimer interface [polypeptide binding]; other site 384676005343 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676005344 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676005345 ATP binding site [chemical binding]; other site 384676005346 Mg2+ binding site [ion binding]; other site 384676005347 G-X-G motif; other site 384676005348 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 384676005349 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 384676005350 catalytic residues [active] 384676005351 catalytic nucleophile [active] 384676005352 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 384676005353 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 384676005354 Int/Topo IB signature motif; other site 384676005355 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 384676005356 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 384676005357 DNA binding residues [nucleotide binding] 384676005358 putative dimer interface [polypeptide binding]; other site 384676005359 putative metal binding residues [ion binding]; other site 384676005360 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 384676005361 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 384676005362 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676005363 substrate binding pocket [chemical binding]; other site 384676005364 membrane-bound complex binding site; other site 384676005365 hinge residues; other site 384676005366 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 384676005367 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676005368 Walker A motif; other site 384676005369 ATP binding site [chemical binding]; other site 384676005370 Walker B motif; other site 384676005371 arginine finger; other site 384676005372 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 384676005373 hypothetical protein; Validated; Region: PRK00153 384676005374 recombination protein RecR; Reviewed; Region: recR; PRK00076 384676005375 RecR protein; Region: RecR; pfam02132 384676005376 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 384676005377 putative active site [active] 384676005378 putative metal-binding site [ion binding]; other site 384676005379 tetramer interface [polypeptide binding]; other site 384676005380 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676005381 active site 384676005382 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 384676005383 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 384676005384 ligand binding site [chemical binding]; other site 384676005385 flexible hinge region; other site 384676005386 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 384676005387 putative switch regulator; other site 384676005388 non-specific DNA interactions [nucleotide binding]; other site 384676005389 DNA binding site [nucleotide binding] 384676005390 sequence specific DNA binding site [nucleotide binding]; other site 384676005391 putative cAMP binding site [chemical binding]; other site 384676005392 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 384676005393 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 384676005394 FeS/SAM binding site; other site 384676005395 HemN C-terminal domain; Region: HemN_C; pfam06969 384676005396 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 384676005397 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 384676005398 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 384676005399 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 384676005400 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 384676005401 metal-binding site [ion binding] 384676005402 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676005403 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 384676005404 motif II; other site 384676005405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 384676005406 FixH; Region: FixH; pfam05751 384676005407 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 384676005408 4Fe-4S binding domain; Region: Fer4_5; pfam12801 384676005409 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 384676005410 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 384676005411 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 384676005412 Cytochrome c; Region: Cytochrom_C; pfam00034 384676005413 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 384676005414 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 384676005415 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 384676005416 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 384676005417 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 384676005418 Low-spin heme binding site [chemical binding]; other site 384676005419 Putative water exit pathway; other site 384676005420 Binuclear center (active site) [active] 384676005421 Putative proton exit pathway; other site 384676005422 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 384676005423 Cytochrome c; Region: Cytochrom_C; pfam00034 384676005424 Cytochrome c; Region: Cytochrom_C; pfam00034 384676005425 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 384676005426 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 384676005427 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 384676005428 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 384676005429 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 384676005430 Low-spin heme binding site [chemical binding]; other site 384676005431 Putative water exit pathway; other site 384676005432 Binuclear center (active site) [active] 384676005433 Putative proton exit pathway; other site 384676005434 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 384676005435 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 384676005436 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 384676005437 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 384676005438 active site 384676005439 catalytic site [active] 384676005440 substrate binding site [chemical binding]; other site 384676005441 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 384676005442 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 384676005443 substrate binding pocket [chemical binding]; other site 384676005444 membrane-bound complex binding site; other site 384676005445 hinge residues; other site 384676005446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 384676005447 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 384676005448 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 384676005449 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676005450 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 384676005451 DNA binding residues [nucleotide binding] 384676005452 peptide synthase; Validated; Region: PRK05691 384676005453 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 384676005454 acyl-activating enzyme (AAE) consensus motif; other site 384676005455 active site 384676005456 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676005457 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676005458 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676005459 acyl-activating enzyme (AAE) consensus motif; other site 384676005460 AMP binding site [chemical binding]; other site 384676005461 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676005462 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676005463 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676005464 acyl-activating enzyme (AAE) consensus motif; other site 384676005465 AMP binding site [chemical binding]; other site 384676005466 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676005467 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 384676005468 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676005469 acyl-activating enzyme (AAE) consensus motif; other site 384676005470 AMP binding site [chemical binding]; other site 384676005471 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676005472 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 384676005473 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 384676005474 dimerization domain [polypeptide binding]; other site 384676005475 dimer interface [polypeptide binding]; other site 384676005476 catalytic residues [active] 384676005477 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 384676005478 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676005479 catalytic residues [active] 384676005480 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 384676005481 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 384676005482 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 384676005483 DsbD alpha interface [polypeptide binding]; other site 384676005484 catalytic residues [active] 384676005485 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 384676005486 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 384676005487 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 384676005488 Predicted membrane protein [Function unknown]; Region: COG3766 384676005489 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 384676005490 Protein of unknown function (DUF1190); Region: DUF1190; pfam06693 384676005491 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 384676005492 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 384676005493 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 384676005494 putative dimer interface [polypeptide binding]; other site 384676005495 [2Fe-2S] cluster binding site [ion binding]; other site 384676005496 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 384676005497 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 384676005498 SLBB domain; Region: SLBB; pfam10531 384676005499 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 384676005500 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 384676005501 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 384676005502 catalytic loop [active] 384676005503 iron binding site [ion binding]; other site 384676005504 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 384676005505 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 384676005506 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 384676005507 [4Fe-4S] binding site [ion binding]; other site 384676005508 molybdopterin cofactor binding site; other site 384676005509 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 384676005510 molybdopterin cofactor binding site; other site 384676005511 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 384676005512 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676005513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676005514 Coenzyme A binding pocket [chemical binding]; other site 384676005515 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 384676005516 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 384676005517 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 384676005518 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 384676005519 salt bridge; other site 384676005520 non-specific DNA binding site [nucleotide binding]; other site 384676005521 sequence-specific DNA binding site [nucleotide binding]; other site 384676005522 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 384676005523 heme binding pocket [chemical binding]; other site 384676005524 heme ligand [chemical binding]; other site 384676005525 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 384676005526 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676005527 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 384676005528 homotrimer interaction site [polypeptide binding]; other site 384676005529 putative active site [active] 384676005530 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 384676005531 Cache domain; Region: Cache_1; pfam02743 384676005532 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 384676005533 dimerization interface [polypeptide binding]; other site 384676005534 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676005535 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676005536 dimer interface [polypeptide binding]; other site 384676005537 putative CheW interface [polypeptide binding]; other site 384676005538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676005539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005540 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 384676005541 dimerization interface [polypeptide binding]; other site 384676005542 Predicted membrane protein [Function unknown]; Region: COG4125 384676005543 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 384676005544 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 384676005545 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676005546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676005547 Coenzyme A binding pocket [chemical binding]; other site 384676005548 Isochorismatase family; Region: Isochorismatase; pfam00857 384676005549 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 384676005550 catalytic triad [active] 384676005551 conserved cis-peptide bond; other site 384676005552 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676005553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005554 DNA-binding site [nucleotide binding]; DNA binding site 384676005555 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 384676005556 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676005557 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005558 DNA-binding site [nucleotide binding]; DNA binding site 384676005559 FCD domain; Region: FCD; pfam07729 384676005560 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 384676005561 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 384676005562 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 384676005563 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 384676005564 non-specific DNA binding site [nucleotide binding]; other site 384676005565 salt bridge; other site 384676005566 sequence-specific DNA binding site [nucleotide binding]; other site 384676005567 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 384676005568 PAS fold; Region: PAS_3; pfam08447 384676005569 putative active site [active] 384676005570 heme pocket [chemical binding]; other site 384676005571 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676005572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676005573 dimer interface [polypeptide binding]; other site 384676005574 putative CheW interface [polypeptide binding]; other site 384676005575 PAS domain; Region: PAS_9; pfam13426 384676005576 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 384676005577 putative active site [active] 384676005578 heme pocket [chemical binding]; other site 384676005579 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676005580 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676005581 metal binding site [ion binding]; metal-binding site 384676005582 active site 384676005583 I-site; other site 384676005584 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 384676005585 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 384676005586 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 384676005587 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 384676005588 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 384676005589 AsnC family; Region: AsnC_trans_reg; pfam01037 384676005590 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 384676005591 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676005592 Walker A/P-loop; other site 384676005593 ATP binding site [chemical binding]; other site 384676005594 Q-loop/lid; other site 384676005595 ABC transporter signature motif; other site 384676005596 Walker B; other site 384676005597 D-loop; other site 384676005598 H-loop/switch region; other site 384676005599 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676005600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676005601 dimer interface [polypeptide binding]; other site 384676005602 conserved gate region; other site 384676005603 putative PBP binding loops; other site 384676005604 ABC-ATPase subunit interface; other site 384676005605 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676005606 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676005607 dimer interface [polypeptide binding]; other site 384676005608 conserved gate region; other site 384676005609 putative PBP binding loops; other site 384676005610 ABC-ATPase subunit interface; other site 384676005611 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 384676005612 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 384676005613 substrate binding pocket [chemical binding]; other site 384676005614 membrane-bound complex binding site; other site 384676005615 hinge residues; other site 384676005616 ornithine cyclodeaminase; Validated; Region: PRK07589 384676005617 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 384676005618 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 384676005619 Amidinotransferase; Region: Amidinotransf; pfam02274 384676005620 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 384676005621 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 384676005622 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 384676005623 homodimer interface [polypeptide binding]; other site 384676005624 NADP binding site [chemical binding]; other site 384676005625 substrate binding site [chemical binding]; other site 384676005626 Methyltransferase domain; Region: Methyltransf_24; pfam13578 384676005627 trigger factor; Provisional; Region: tig; PRK01490 384676005628 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676005629 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 384676005630 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 384676005631 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 384676005632 oligomer interface [polypeptide binding]; other site 384676005633 active site residues [active] 384676005634 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 384676005635 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 384676005636 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676005637 Walker A motif; other site 384676005638 ATP binding site [chemical binding]; other site 384676005639 Walker B motif; other site 384676005640 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 384676005641 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 384676005642 Found in ATP-dependent protease La (LON); Region: LON; smart00464 384676005643 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676005644 Walker A motif; other site 384676005645 ATP binding site [chemical binding]; other site 384676005646 Walker B motif; other site 384676005647 arginine finger; other site 384676005648 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 384676005649 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 384676005650 IHF dimer interface [polypeptide binding]; other site 384676005651 IHF - DNA interface [nucleotide binding]; other site 384676005652 periplasmic folding chaperone; Provisional; Region: PRK10788 384676005653 SurA N-terminal domain; Region: SurA_N_3; pfam13624 384676005654 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 384676005655 hypothetical protein; Provisional; Region: PRK10279 384676005656 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 384676005657 active site 384676005658 nucleophile elbow; other site 384676005659 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 384676005660 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 384676005661 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 384676005662 active site 384676005663 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 384676005664 active site 2 [active] 384676005665 active site 1 [active] 384676005666 Terminase small subunit; Region: Terminase_2; cl01513 384676005667 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 384676005668 dimerization interface [polypeptide binding]; other site 384676005669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676005670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676005671 dimer interface [polypeptide binding]; other site 384676005672 putative CheW interface [polypeptide binding]; other site 384676005673 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 384676005674 active site 384676005675 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 384676005676 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 384676005677 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 384676005678 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676005679 catalytic residue [active] 384676005680 Predicted membrane protein [Function unknown]; Region: COG2259 384676005681 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 384676005682 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 384676005683 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 384676005684 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 384676005685 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 384676005686 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 384676005687 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 384676005688 Walker A/P-loop; other site 384676005689 ATP binding site [chemical binding]; other site 384676005690 Q-loop/lid; other site 384676005691 ABC transporter signature motif; other site 384676005692 Walker B; other site 384676005693 D-loop; other site 384676005694 H-loop/switch region; other site 384676005695 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 384676005696 active site 384676005697 catalytic triad [active] 384676005698 oxyanion hole [active] 384676005699 switch loop; other site 384676005700 L,D-transpeptidase; Provisional; Region: PRK10260 384676005701 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 384676005702 Predicted acetyltransferase [General function prediction only]; Region: COG2388 384676005703 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 384676005704 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 384676005705 PilZ domain; Region: PilZ; pfam07238 384676005706 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 384676005707 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 384676005708 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 384676005709 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 384676005710 Ligand Binding Site [chemical binding]; other site 384676005711 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 384676005712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005713 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 384676005714 substrate binding site [chemical binding]; other site 384676005715 dimerization interface [polypeptide binding]; other site 384676005716 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 384676005717 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 384676005718 Active Sites [active] 384676005719 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 384676005720 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 384676005721 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 384676005722 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 384676005723 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 384676005724 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 384676005725 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 384676005726 Transcriptional regulators [Transcription]; Region: GntR; COG1802 384676005727 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676005728 DNA-binding site [nucleotide binding]; DNA binding site 384676005729 FCD domain; Region: FCD; pfam07729 384676005730 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 384676005731 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 384676005732 tetramer interface [polypeptide binding]; other site 384676005733 active site 384676005734 Mg2+/Mn2+ binding site [ion binding]; other site 384676005735 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 384676005736 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 384676005737 dimer interface [polypeptide binding]; other site 384676005738 active site 384676005739 citrylCoA binding site [chemical binding]; other site 384676005740 oxalacetate/citrate binding site [chemical binding]; other site 384676005741 coenzyme A binding site [chemical binding]; other site 384676005742 catalytic triad [active] 384676005743 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 384676005744 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 384676005745 substrate binding site [chemical binding]; other site 384676005746 ligand binding site [chemical binding]; other site 384676005747 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 384676005748 substrate binding site [chemical binding]; other site 384676005749 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 384676005750 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 384676005751 2-methylcitrate dehydratase; Region: prpD; TIGR02330 384676005752 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 384676005753 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 384676005754 substrate binding site [chemical binding]; other site 384676005755 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 384676005756 substrate binding site [chemical binding]; other site 384676005757 ligand binding site [chemical binding]; other site 384676005758 Predicted Fe-S protein [General function prediction only]; Region: COG3313 384676005759 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 384676005760 active site 384676005761 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 384676005762 Predicted membrane protein [Function unknown]; Region: COG3212 384676005763 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 384676005764 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 384676005765 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676005766 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676005767 active site 384676005768 phosphorylation site [posttranslational modification] 384676005769 intermolecular recognition site; other site 384676005770 dimerization interface [polypeptide binding]; other site 384676005771 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 384676005772 DNA binding site [nucleotide binding] 384676005773 sensor protein PhoQ; Provisional; Region: PRK10815 384676005774 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676005775 ATP binding site [chemical binding]; other site 384676005776 G-X-G motif; other site 384676005777 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 384676005778 HPP family; Region: HPP; pfam04982 384676005779 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 384676005780 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 384676005781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676005782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005783 LysR substrate binding domain; Region: LysR_substrate; pfam03466 384676005784 dimerization interface [polypeptide binding]; other site 384676005785 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 384676005786 Leucine rich repeat; Region: LRR_8; pfam13855 384676005787 Substrate binding site [chemical binding]; other site 384676005788 Leucine rich repeat; Region: LRR_8; pfam13855 384676005789 Protein tyrosine kinase; Region: Pkinase_Tyr; pfam07714 384676005790 Catalytic domain of Protein Kinases; Region: PKc; cd00180 384676005791 active site 384676005792 ATP binding site [chemical binding]; other site 384676005793 substrate binding site [chemical binding]; other site 384676005794 activation loop (A-loop); other site 384676005795 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 384676005796 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 384676005797 acyl-activating enzyme (AAE) consensus motif; other site 384676005798 putative AMP binding site [chemical binding]; other site 384676005799 putative active site [active] 384676005800 putative CoA binding site [chemical binding]; other site 384676005801 Predicted ATPase [General function prediction only]; Region: COG1485 384676005802 Cupin; Region: Cupin_6; pfam12852 384676005803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676005804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676005805 Uncharacterized conserved protein [Function unknown]; Region: COG2128 384676005806 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 384676005807 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676005808 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676005809 active site 384676005810 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 384676005811 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 384676005812 Walker A/P-loop; other site 384676005813 ATP binding site [chemical binding]; other site 384676005814 Q-loop/lid; other site 384676005815 ABC transporter signature motif; other site 384676005816 Walker B; other site 384676005817 D-loop; other site 384676005818 H-loop/switch region; other site 384676005819 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 384676005820 NMT1-like family; Region: NMT1_2; pfam13379 384676005821 NMT1/THI5 like; Region: NMT1; pfam09084 384676005822 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676005823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676005824 dimer interface [polypeptide binding]; other site 384676005825 conserved gate region; other site 384676005826 putative PBP binding loops; other site 384676005827 ABC-ATPase subunit interface; other site 384676005828 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676005829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676005830 Coenzyme A binding pocket [chemical binding]; other site 384676005831 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 384676005832 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 384676005833 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676005834 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005835 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 384676005836 dimerization interface [polypeptide binding]; other site 384676005837 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 384676005838 active site 1 [active] 384676005839 dimer interface [polypeptide binding]; other site 384676005840 hexamer interface [polypeptide binding]; other site 384676005841 active site 2 [active] 384676005842 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 384676005843 classical (c) SDRs; Region: SDR_c; cd05233 384676005844 NAD(P) binding site [chemical binding]; other site 384676005845 active site 384676005846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676005847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676005848 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 384676005849 putative effector binding pocket; other site 384676005850 dimerization interface [polypeptide binding]; other site 384676005851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 384676005852 MOSC domain; Region: MOSC; pfam03473 384676005853 3-alpha domain; Region: 3-alpha; pfam03475 384676005854 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 384676005855 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 384676005856 Bacterial SH3 domain; Region: SH3_3; cl17532 384676005857 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 384676005858 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 384676005859 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 384676005860 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 384676005861 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 384676005862 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 384676005863 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 384676005864 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 384676005865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676005866 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 384676005867 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 384676005868 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 384676005869 non-specific DNA binding site [nucleotide binding]; other site 384676005870 salt bridge; other site 384676005871 sequence-specific DNA binding site [nucleotide binding]; other site 384676005872 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 384676005873 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676005874 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676005875 HD domain; Region: HD_4; pfam13328 384676005876 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 384676005877 DNA-specific endonuclease I; Provisional; Region: PRK15137 384676005878 Protein of unknown function (DUF1654); Region: DUF1654; pfam07867 384676005879 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 384676005880 homodimer interface [polypeptide binding]; other site 384676005881 active site 384676005882 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 384676005883 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 384676005884 ligand binding site [chemical binding]; other site 384676005885 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 384676005886 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 384676005887 Walker A/P-loop; other site 384676005888 ATP binding site [chemical binding]; other site 384676005889 Q-loop/lid; other site 384676005890 ABC transporter signature motif; other site 384676005891 Walker B; other site 384676005892 D-loop; other site 384676005893 H-loop/switch region; other site 384676005894 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 384676005895 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 384676005896 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 384676005897 TM-ABC transporter signature motif; other site 384676005898 Transcriptional regulators [Transcription]; Region: PurR; COG1609 384676005899 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 384676005900 DNA binding site [nucleotide binding] 384676005901 domain linker motif; other site 384676005902 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 384676005903 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 384676005904 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 384676005905 substrate binding site [chemical binding]; other site 384676005906 dimer interface [polypeptide binding]; other site 384676005907 ATP binding site [chemical binding]; other site 384676005908 D-ribose pyranase; Provisional; Region: PRK11797 384676005909 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 384676005910 active site 384676005911 tetramer interface [polypeptide binding]; other site 384676005912 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 384676005913 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 384676005914 DNA-binding site [nucleotide binding]; DNA binding site 384676005915 RNA-binding motif; other site 384676005916 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 384676005917 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 384676005918 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 384676005919 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 384676005920 active site 384676005921 dimer interface [polypeptide binding]; other site 384676005922 motif 1; other site 384676005923 motif 2; other site 384676005924 motif 3; other site 384676005925 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 384676005926 anticodon binding site; other site 384676005927 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 384676005928 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 384676005929 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 384676005930 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 384676005931 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 384676005932 23S rRNA binding site [nucleotide binding]; other site 384676005933 L21 binding site [polypeptide binding]; other site 384676005934 L13 binding site [polypeptide binding]; other site 384676005935 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 384676005936 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 384676005937 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 384676005938 dimer interface [polypeptide binding]; other site 384676005939 motif 1; other site 384676005940 active site 384676005941 motif 2; other site 384676005942 motif 3; other site 384676005943 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 384676005944 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 384676005945 putative tRNA-binding site [nucleotide binding]; other site 384676005946 B3/4 domain; Region: B3_4; pfam03483 384676005947 tRNA synthetase B5 domain; Region: B5; smart00874 384676005948 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 384676005949 dimer interface [polypeptide binding]; other site 384676005950 motif 1; other site 384676005951 motif 3; other site 384676005952 motif 2; other site 384676005953 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 384676005954 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 384676005955 IHF dimer interface [polypeptide binding]; other site 384676005956 IHF - DNA interface [nucleotide binding]; other site 384676005957 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 384676005958 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 384676005959 DNA binding residues [nucleotide binding] 384676005960 Transposase; Region: HTH_Tnp_1; cl17663 384676005961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 384676005962 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 384676005963 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 384676005964 ATP binding site [chemical binding]; other site 384676005965 putative Mg++ binding site [ion binding]; other site 384676005966 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 384676005967 nucleotide binding region [chemical binding]; other site 384676005968 ATP-binding site [chemical binding]; other site 384676005969 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676005970 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 384676005971 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 384676005972 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 384676005973 putative substrate binding site [chemical binding]; other site 384676005974 putative ATP binding site [chemical binding]; other site 384676005975 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 384676005976 N- and C-terminal domain interface [polypeptide binding]; other site 384676005977 D-xylulose kinase; Region: XylB; TIGR01312 384676005978 active site 384676005979 MgATP binding site [chemical binding]; other site 384676005980 catalytic site [active] 384676005981 metal binding site [ion binding]; metal-binding site 384676005982 xylulose binding site [chemical binding]; other site 384676005983 putative homodimer interface [polypeptide binding]; other site 384676005984 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 384676005985 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 384676005986 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 384676005987 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 384676005988 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 384676005989 Walker A/P-loop; other site 384676005990 ATP binding site [chemical binding]; other site 384676005991 Q-loop/lid; other site 384676005992 ABC transporter signature motif; other site 384676005993 Walker B; other site 384676005994 D-loop; other site 384676005995 H-loop/switch region; other site 384676005996 TOBE domain; Region: TOBE; cl01440 384676005997 TOBE domain; Region: TOBE_2; pfam08402 384676005998 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 384676005999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676006000 dimer interface [polypeptide binding]; other site 384676006001 conserved gate region; other site 384676006002 ABC-ATPase subunit interface; other site 384676006003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676006004 dimer interface [polypeptide binding]; other site 384676006005 conserved gate region; other site 384676006006 putative PBP binding loops; other site 384676006007 ABC-ATPase subunit interface; other site 384676006008 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 384676006009 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 384676006010 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676006011 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676006012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676006013 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676006014 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 384676006015 active site 384676006016 substrate binding site [chemical binding]; other site 384676006017 catalytic site [active] 384676006018 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 384676006019 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 384676006020 ATP binding site [chemical binding]; other site 384676006021 putative Mg++ binding site [ion binding]; other site 384676006022 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 384676006023 nucleotide binding region [chemical binding]; other site 384676006024 ATP-binding site [chemical binding]; other site 384676006025 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 384676006026 Part of AAA domain; Region: AAA_19; pfam13245 384676006027 Family description; Region: UvrD_C_2; pfam13538 384676006028 CAAX protease self-immunity; Region: Abi; pfam02517 384676006029 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 384676006030 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676006031 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676006032 Coenzyme A binding pocket [chemical binding]; other site 384676006033 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006034 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676006035 HlyD family secretion protein; Region: HlyD; pfam00529 384676006036 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676006037 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676006038 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676006039 putative substrate translocation pore; other site 384676006040 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 384676006041 active site 384676006042 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676006043 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 384676006044 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 384676006045 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 384676006046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676006047 catalytic residue [active] 384676006048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 384676006049 YheO-like PAS domain; Region: PAS_6; pfam08348 384676006050 HTH domain; Region: HTH_22; pfam13309 384676006051 amidase; Validated; Region: PRK06565 384676006052 Amidase; Region: Amidase; cl11426 384676006053 putative S-transferase; Provisional; Region: PRK11752 384676006054 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 384676006055 C-terminal domain interface [polypeptide binding]; other site 384676006056 GSH binding site (G-site) [chemical binding]; other site 384676006057 dimer interface [polypeptide binding]; other site 384676006058 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 384676006059 dimer interface [polypeptide binding]; other site 384676006060 N-terminal domain interface [polypeptide binding]; other site 384676006061 active site 384676006062 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676006063 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 384676006064 N-terminal plug; other site 384676006065 ligand-binding site [chemical binding]; other site 384676006066 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676006067 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676006068 putative substrate translocation pore; other site 384676006069 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 384676006070 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 384676006071 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 384676006072 dimer interface [polypeptide binding]; other site 384676006073 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 384676006074 active site 384676006075 Fe binding site [ion binding]; other site 384676006076 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676006077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676006078 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006079 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 384676006080 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 384676006081 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 384676006082 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 384676006083 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 384676006084 shikimate binding site; other site 384676006085 NAD(P) binding site [chemical binding]; other site 384676006086 Dehydroquinase class II; Region: DHquinase_II; pfam01220 384676006087 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 384676006088 active site 384676006089 trimer interface [polypeptide binding]; other site 384676006090 dimer interface [polypeptide binding]; other site 384676006091 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676006092 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 384676006093 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676006094 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 384676006095 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006096 PAS fold; Region: PAS_4; pfam08448 384676006097 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676006098 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 384676006099 dimer interface [polypeptide binding]; other site 384676006100 phosphorylation site [posttranslational modification] 384676006101 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676006102 ATP binding site [chemical binding]; other site 384676006103 G-X-G motif; other site 384676006104 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676006105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676006106 active site 384676006107 phosphorylation site [posttranslational modification] 384676006108 intermolecular recognition site; other site 384676006109 dimerization interface [polypeptide binding]; other site 384676006110 PAS fold; Region: PAS_4; pfam08448 384676006111 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 384676006112 GAF domain; Region: GAF; pfam01590 384676006113 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 384676006114 dimer interface [polypeptide binding]; other site 384676006115 phosphorylation site [posttranslational modification] 384676006116 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676006117 ATP binding site [chemical binding]; other site 384676006118 Mg2+ binding site [ion binding]; other site 384676006119 G-X-G motif; other site 384676006120 Response regulator receiver domain; Region: Response_reg; pfam00072 384676006121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676006122 active site 384676006123 phosphorylation site [posttranslational modification] 384676006124 intermolecular recognition site; other site 384676006125 dimerization interface [polypeptide binding]; other site 384676006126 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 384676006127 nudix motif; other site 384676006128 Transcriptional regulators [Transcription]; Region: GntR; COG1802 384676006129 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676006130 DNA-binding site [nucleotide binding]; DNA binding site 384676006131 FCD domain; Region: FCD; pfam07729 384676006132 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 384676006133 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 384676006134 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676006135 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 384676006136 NAD(P) binding site [chemical binding]; other site 384676006137 catalytic residues [active] 384676006138 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 384676006139 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 384676006140 Amino acid synthesis; Region: AA_synth; pfam06684 384676006141 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 384676006142 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 384676006143 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 384676006144 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 384676006145 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676006146 Na binding site [ion binding]; other site 384676006147 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 384676006148 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676006149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676006150 dimer interface [polypeptide binding]; other site 384676006151 putative CheW interface [polypeptide binding]; other site 384676006152 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 384676006153 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676006154 Predicted transcriptional regulator [Transcription]; Region: COG1959 384676006155 Transcriptional regulator; Region: Rrf2; pfam02082 384676006156 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 384676006157 autotransport protein MisL; Provisional; Region: PRK15313 384676006158 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 384676006159 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 384676006160 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 384676006161 active site 384676006162 homodimer interface [polypeptide binding]; other site 384676006163 catalytic site [active] 384676006164 acceptor binding site [chemical binding]; other site 384676006165 trehalose synthase; Region: treS_nterm; TIGR02456 384676006166 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 384676006167 active site 384676006168 catalytic site [active] 384676006169 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 384676006170 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 384676006171 glycogen branching enzyme; Provisional; Region: PRK05402 384676006172 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 384676006173 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 384676006174 active site 384676006175 catalytic site [active] 384676006176 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 384676006177 Autotransporter beta-domain; Region: Autotransporter; smart00869 384676006178 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 384676006179 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 384676006180 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 384676006181 active site 384676006182 catalytic site [active] 384676006183 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 384676006184 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 384676006185 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 384676006186 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 384676006187 active site 384676006188 catalytic site [active] 384676006189 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 384676006190 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 384676006191 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 384676006192 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 384676006193 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 384676006194 catalytic site [active] 384676006195 active site 384676006196 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 384676006197 glycogen synthase; Provisional; Region: glgA; PRK00654 384676006198 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 384676006199 ADP-binding pocket [chemical binding]; other site 384676006200 homodimer interface [polypeptide binding]; other site 384676006201 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 384676006202 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 384676006203 hypothetical protein; Provisional; Region: PRK09256 384676006204 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 384676006205 RES domain; Region: RES; smart00953 384676006206 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 384676006207 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 384676006208 active site 384676006209 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 384676006210 Isochorismatase family; Region: Isochorismatase; pfam00857 384676006211 catalytic triad [active] 384676006212 metal binding site [ion binding]; metal-binding site 384676006213 conserved cis-peptide bond; other site 384676006214 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 384676006215 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 384676006216 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 384676006217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676006218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676006219 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 384676006220 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 384676006221 putative NAD(P) binding site [chemical binding]; other site 384676006222 active site 384676006223 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 384676006224 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 384676006225 putative catalytic residue [active] 384676006226 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 384676006227 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 384676006228 non-specific DNA binding site [nucleotide binding]; other site 384676006229 salt bridge; other site 384676006230 sequence-specific DNA binding site [nucleotide binding]; other site 384676006231 Cupin domain; Region: Cupin_2; pfam07883 384676006232 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 384676006233 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 384676006234 putative heme binding pocket [chemical binding]; other site 384676006235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676006236 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 384676006237 DNA binding residues [nucleotide binding] 384676006238 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 384676006239 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 384676006240 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 384676006241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006242 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 384676006243 dimerization interface [polypeptide binding]; other site 384676006244 substrate binding pocket [chemical binding]; other site 384676006245 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 384676006246 classical (c) SDRs; Region: SDR_c; cd05233 384676006247 NAD(P) binding site [chemical binding]; other site 384676006248 active site 384676006249 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 384676006250 putative catalytic site [active] 384676006251 putative phosphate binding site [ion binding]; other site 384676006252 active site 384676006253 metal binding site A [ion binding]; metal-binding site 384676006254 DNA binding site [nucleotide binding] 384676006255 putative AP binding site [nucleotide binding]; other site 384676006256 putative metal binding site B [ion binding]; other site 384676006257 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 384676006258 Coenzyme A binding pocket [chemical binding]; other site 384676006259 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 384676006260 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676006261 Surface antigen; Region: Bac_surface_Ag; pfam01103 384676006262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 384676006263 Family of unknown function (DUF490); Region: DUF490; pfam04357 384676006264 Family of unknown function (DUF490); Region: DUF490; pfam04357 384676006265 Mor transcription activator family; Region: Mor; cl02360 384676006266 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 384676006267 Penicillin amidase; Region: Penicil_amidase; pfam01804 384676006268 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 384676006269 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 384676006270 active site 384676006271 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 384676006272 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 384676006273 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 384676006274 putative active site [active] 384676006275 putative metal binding site [ion binding]; other site 384676006276 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 384676006277 substrate binding site [chemical binding]; other site 384676006278 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 384676006279 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 384676006280 active site 384676006281 HIGH motif; other site 384676006282 nucleotide binding site [chemical binding]; other site 384676006283 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 384676006284 KMSKS motif; other site 384676006285 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 384676006286 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 384676006287 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 384676006288 active site 384676006289 HIGH motif; other site 384676006290 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 384676006291 KMSKS motif; other site 384676006292 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 384676006293 tRNA binding surface [nucleotide binding]; other site 384676006294 anticodon binding site; other site 384676006295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676006296 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 384676006297 dimerization interface [polypeptide binding]; other site 384676006298 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 384676006299 dimer interface [polypeptide binding]; other site 384676006300 phosphorylation site [posttranslational modification] 384676006301 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676006302 ATP binding site [chemical binding]; other site 384676006303 Mg2+ binding site [ion binding]; other site 384676006304 G-X-G motif; other site 384676006305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676006306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676006307 active site 384676006308 phosphorylation site [posttranslational modification] 384676006309 intermolecular recognition site; other site 384676006310 dimerization interface [polypeptide binding]; other site 384676006311 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 384676006312 DNA binding site [nucleotide binding] 384676006313 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 384676006314 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 384676006315 homodimer interface [polypeptide binding]; other site 384676006316 substrate-cofactor binding pocket; other site 384676006317 catalytic residue [active] 384676006318 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 384676006319 dimer interface [polypeptide binding]; other site 384676006320 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676006321 ligand binding site [chemical binding]; other site 384676006322 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 384676006323 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 384676006324 alpha-gamma subunit interface [polypeptide binding]; other site 384676006325 beta-gamma subunit interface [polypeptide binding]; other site 384676006326 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 384676006327 gamma-beta subunit interface [polypeptide binding]; other site 384676006328 alpha-beta subunit interface [polypeptide binding]; other site 384676006329 urease subunit alpha; Reviewed; Region: ureC; PRK13207 384676006330 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 384676006331 subunit interactions [polypeptide binding]; other site 384676006332 active site 384676006333 flap region; other site 384676006334 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 384676006335 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 384676006336 dimer interface [polypeptide binding]; other site 384676006337 catalytic residues [active] 384676006338 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 384676006339 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 384676006340 UreF; Region: UreF; pfam01730 384676006341 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 384676006342 G1 box; other site 384676006343 GTP/Mg2+ binding site [chemical binding]; other site 384676006344 Switch I region; other site 384676006345 Switch II region; other site 384676006346 G4 box; other site 384676006347 G5 box; other site 384676006348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676006349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006350 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 384676006351 putative substrate binding pocket [chemical binding]; other site 384676006352 dimerization interface [polypeptide binding]; other site 384676006353 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 384676006354 Gram-negative bacterial tonB protein; Region: TonB; cl10048 384676006355 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 384676006356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676006357 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; cl17257 384676006358 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676006359 FecR protein; Region: FecR; pfam04773 384676006360 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 384676006361 type II secretion system protein J; Region: gspJ; TIGR01711 384676006362 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 384676006363 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 384676006364 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 384676006365 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 384676006366 RHS Repeat; Region: RHS_repeat; cl11982 384676006367 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676006368 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676006369 RHS Repeat; Region: RHS_repeat; pfam05593 384676006370 RHS protein; Region: RHS; pfam03527 384676006371 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676006372 GIY-YIG catalytic domain; Region: GIY-YIG; pfam01541 384676006373 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 384676006374 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 384676006375 dimer interface [polypeptide binding]; other site 384676006376 PYR/PP interface [polypeptide binding]; other site 384676006377 TPP binding site [chemical binding]; other site 384676006378 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 384676006379 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 384676006380 TPP-binding site [chemical binding]; other site 384676006381 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676006382 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 384676006383 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 384676006384 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 384676006385 homodimer interface [polypeptide binding]; other site 384676006386 substrate-cofactor binding pocket; other site 384676006387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676006388 catalytic residue [active] 384676006389 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676006390 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 384676006391 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 384676006392 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 384676006393 Cu(I) binding site [ion binding]; other site 384676006394 Cytochrome c; Region: Cytochrom_C; cl11414 384676006395 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 384676006396 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676006397 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 384676006398 protein binding site [polypeptide binding]; other site 384676006399 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 384676006400 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 384676006401 FMN-binding pocket [chemical binding]; other site 384676006402 flavin binding motif; other site 384676006403 phosphate binding motif [ion binding]; other site 384676006404 beta-alpha-beta structure motif; other site 384676006405 NAD binding pocket [chemical binding]; other site 384676006406 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 384676006407 catalytic loop [active] 384676006408 iron binding site [ion binding]; other site 384676006409 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 384676006410 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 384676006411 [2Fe-2S] cluster binding site [ion binding]; other site 384676006412 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 384676006413 putative alpha subunit interface [polypeptide binding]; other site 384676006414 putative active site [active] 384676006415 putative substrate binding site [chemical binding]; other site 384676006416 Fe binding site [ion binding]; other site 384676006417 putative transporter; Provisional; Region: PRK09950 384676006418 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 384676006419 tartrate dehydrogenase; Region: TTC; TIGR02089 384676006420 transcriptional activator TtdR; Provisional; Region: PRK09801 384676006421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006422 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 384676006423 putative effector binding pocket; other site 384676006424 putative dimerization interface [polypeptide binding]; other site 384676006425 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 384676006426 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676006427 Coenzyme A binding pocket [chemical binding]; other site 384676006428 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 384676006429 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 384676006430 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 384676006431 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 384676006432 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 384676006433 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676006434 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676006435 ABC transporter; Region: ABC_tran; pfam00005 384676006436 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 384676006437 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 384676006438 ParB-like nuclease domain; Region: ParBc; cl02129 384676006439 O-methyltransferase; Region: Methyltransf_2; pfam00891 384676006440 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 384676006441 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 384676006442 cation binding site [ion binding]; other site 384676006443 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676006444 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676006445 ATP binding site [chemical binding]; other site 384676006446 Mg2+ binding site [ion binding]; other site 384676006447 G-X-G motif; other site 384676006448 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676006449 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 384676006450 DNA binding residues [nucleotide binding] 384676006451 dimerization interface [polypeptide binding]; other site 384676006452 Condensation domain; Region: Condensation; pfam00668 384676006453 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676006454 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676006455 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676006456 acyl-activating enzyme (AAE) consensus motif; other site 384676006457 AMP binding site [chemical binding]; other site 384676006458 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676006459 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006460 Condensation domain; Region: Condensation; pfam00668 384676006461 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676006462 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676006463 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676006464 acyl-activating enzyme (AAE) consensus motif; other site 384676006465 AMP binding site [chemical binding]; other site 384676006466 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006467 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 384676006468 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 384676006469 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 384676006470 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 384676006471 dimer interface [polypeptide binding]; other site 384676006472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676006473 catalytic residue [active] 384676006474 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 384676006475 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 384676006476 active site 384676006477 Acyl transferase domain; Region: Acyl_transf_1; cl08282 384676006478 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006479 Condensation domain; Region: Condensation; pfam00668 384676006480 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 384676006481 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676006482 acyl-activating enzyme (AAE) consensus motif; other site 384676006483 AMP binding site [chemical binding]; other site 384676006484 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006485 Condensation domain; Region: Condensation; pfam00668 384676006486 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676006487 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676006488 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676006489 acyl-activating enzyme (AAE) consensus motif; other site 384676006490 AMP binding site [chemical binding]; other site 384676006491 Condensation domain; Region: Condensation; pfam00668 384676006492 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676006493 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676006494 AMP binding site [chemical binding]; other site 384676006495 active site 384676006496 acyl-activating enzyme (AAE) consensus motif; other site 384676006497 CoA binding site [chemical binding]; other site 384676006498 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006499 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 384676006500 Cytochrome P450; Region: p450; cl12078 384676006501 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 384676006502 Amidase; Region: Amidase; cl11426 384676006503 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 384676006504 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676006505 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676006506 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676006507 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 384676006508 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006509 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 384676006510 putative dimerization interface [polypeptide binding]; other site 384676006511 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 384676006512 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 384676006513 putative active site [active] 384676006514 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676006515 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676006516 Sporulation related domain; Region: SPOR; cl10051 384676006517 NIPSNAP; Region: NIPSNAP; pfam07978 384676006518 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 384676006519 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 384676006520 XdhC Rossmann domain; Region: XdhC_C; pfam13478 384676006521 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676006522 Cytochrome c; Region: Cytochrom_C; pfam00034 384676006523 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676006524 Cytochrome c; Region: Cytochrom_C; pfam00034 384676006525 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676006526 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 384676006527 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 384676006528 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676006529 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676006530 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 384676006531 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 384676006532 catalytic loop [active] 384676006533 iron binding site [ion binding]; other site 384676006534 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 384676006535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676006536 Coenzyme A binding pocket [chemical binding]; other site 384676006537 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006538 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 384676006539 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 384676006540 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 384676006541 haemagglutination activity domain; Region: Haemagg_act; pfam05860 384676006542 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 384676006543 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 384676006544 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 384676006545 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 384676006546 Predicted membrane protein [Function unknown]; Region: COG3619 384676006547 RibD C-terminal domain; Region: RibD_C; cl17279 384676006548 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 384676006549 enoyl-CoA hydratase; Provisional; Region: PRK06142 384676006550 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 384676006551 substrate binding site [chemical binding]; other site 384676006552 oxyanion hole (OAH) forming residues; other site 384676006553 trimer interface [polypeptide binding]; other site 384676006554 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 384676006555 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 384676006556 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 384676006557 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 384676006558 putative NADH binding site [chemical binding]; other site 384676006559 putative active site [active] 384676006560 nudix motif; other site 384676006561 putative metal binding site [ion binding]; other site 384676006562 hypothetical protein; Provisional; Region: PRK10621 384676006563 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676006564 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676006565 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676006566 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 384676006567 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 384676006568 non-specific DNA binding site [nucleotide binding]; other site 384676006569 salt bridge; other site 384676006570 sequence-specific DNA binding site [nucleotide binding]; other site 384676006571 Cupin domain; Region: Cupin_2; pfam07883 384676006572 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676006573 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676006574 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676006575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006576 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 384676006577 dimerization interface [polypeptide binding]; other site 384676006578 substrate binding pocket [chemical binding]; other site 384676006579 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 384676006580 agmatine deiminase; Region: agmatine_aguA; TIGR03380 384676006581 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676006582 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676006583 DNA topoisomerase III; Provisional; Region: PRK07726 384676006584 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 384676006585 active site 384676006586 putative interdomain interaction site [polypeptide binding]; other site 384676006587 putative metal-binding site [ion binding]; other site 384676006588 putative nucleotide binding site [chemical binding]; other site 384676006589 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 384676006590 domain I; other site 384676006591 DNA binding groove [nucleotide binding] 384676006592 phosphate binding site [ion binding]; other site 384676006593 domain II; other site 384676006594 domain III; other site 384676006595 nucleotide binding site [chemical binding]; other site 384676006596 catalytic site [active] 384676006597 domain IV; other site 384676006598 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 384676006599 nucleophilic elbow; other site 384676006600 catalytic triad; other site 384676006601 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676006602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676006603 Coenzyme A binding pocket [chemical binding]; other site 384676006604 Uncharacterized conserved protein [Function unknown]; Region: COG2850 384676006605 adenylosuccinate lyase; Provisional; Region: PRK09285 384676006606 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 384676006607 tetramer interface [polypeptide binding]; other site 384676006608 active site 384676006609 putative lysogenization regulator; Reviewed; Region: PRK00218 384676006610 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 384676006611 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 384676006612 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 384676006613 nudix motif; other site 384676006614 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 384676006615 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 384676006616 isocitrate dehydrogenase; Validated; Region: PRK07362 384676006617 isocitrate dehydrogenase; Reviewed; Region: PRK07006 384676006618 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 384676006619 DNA-binding site [nucleotide binding]; DNA binding site 384676006620 RNA-binding motif; other site 384676006621 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 384676006622 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 384676006623 Clp amino terminal domain; Region: Clp_N; pfam02861 384676006624 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676006625 Walker A motif; other site 384676006626 ATP binding site [chemical binding]; other site 384676006627 Walker B motif; other site 384676006628 arginine finger; other site 384676006629 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676006630 Walker A motif; other site 384676006631 ATP binding site [chemical binding]; other site 384676006632 Walker B motif; other site 384676006633 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 384676006634 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 384676006635 rRNA binding site [nucleotide binding]; other site 384676006636 predicted 30S ribosome binding site; other site 384676006637 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 384676006638 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 384676006639 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 384676006640 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 384676006641 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 384676006642 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 384676006643 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 384676006644 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 384676006645 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 384676006646 recombination factor protein RarA; Reviewed; Region: PRK13342 384676006647 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676006648 Walker A motif; other site 384676006649 ATP binding site [chemical binding]; other site 384676006650 Walker B motif; other site 384676006651 arginine finger; other site 384676006652 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 384676006653 camphor resistance protein CrcB; Provisional; Region: PRK14234 384676006654 seryl-tRNA synthetase; Provisional; Region: PRK05431 384676006655 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 384676006656 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 384676006657 dimer interface [polypeptide binding]; other site 384676006658 active site 384676006659 motif 1; other site 384676006660 motif 2; other site 384676006661 motif 3; other site 384676006662 siroheme synthase; Provisional; Region: cysG; PRK10637 384676006663 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 384676006664 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 384676006665 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 384676006666 active site 384676006667 SAM binding site [chemical binding]; other site 384676006668 homodimer interface [polypeptide binding]; other site 384676006669 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 384676006670 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 384676006671 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 384676006672 putative dimer interface [polypeptide binding]; other site 384676006673 N-terminal domain interface [polypeptide binding]; other site 384676006674 putative substrate binding pocket (H-site) [chemical binding]; other site 384676006675 hypothetical protein; Validated; Region: PRK09071 384676006676 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 384676006677 DsrC like protein; Region: DsrC; pfam04358 384676006678 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 384676006679 sulfur relay protein TusC; Validated; Region: PRK00211 384676006680 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 384676006681 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 384676006682 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 384676006683 YccA-like proteins; Region: YccA_like; cd10433 384676006684 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 384676006685 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 384676006686 active site 384676006687 DNA binding site [nucleotide binding] 384676006688 Int/Topo IB signature motif; other site 384676006689 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 384676006690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676006691 AAA ATPase domain; Region: AAA_15; pfam13175 384676006692 Walker A/P-loop; other site 384676006693 ATP binding site [chemical binding]; other site 384676006694 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676006695 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 384676006696 DNA binding residues [nucleotide binding] 384676006697 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 384676006698 GAF domain; Region: GAF; pfam01590 384676006699 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676006700 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676006701 metal binding site [ion binding]; metal-binding site 384676006702 active site 384676006703 I-site; other site 384676006704 RNA ligase; Region: RNA_ligase; pfam09414 384676006705 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 384676006706 Zn2+ binding site [ion binding]; other site 384676006707 Mg2+ binding site [ion binding]; other site 384676006708 AAA domain; Region: AAA_33; pfam13671 384676006709 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 384676006710 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 384676006711 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 384676006712 active site 384676006713 metal binding site [ion binding]; metal-binding site 384676006714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676006715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676006716 Coenzyme A binding pocket [chemical binding]; other site 384676006717 Src Homology 3 domain superfamily; Region: SH3; cl17036 384676006718 peptide ligand binding site [polypeptide binding]; other site 384676006719 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 384676006720 Isochorismatase family; Region: Isochorismatase; pfam00857 384676006721 catalytic triad [active] 384676006722 conserved cis-peptide bond; other site 384676006723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676006724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006725 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 384676006726 putative effector binding pocket; other site 384676006727 dimerization interface [polypeptide binding]; other site 384676006728 hypothetical protein; Provisional; Region: PRK10621 384676006729 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676006730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676006731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676006732 metal binding site [ion binding]; metal-binding site 384676006733 active site 384676006734 I-site; other site 384676006735 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 384676006736 Citrate transporter; Region: CitMHS; pfam03600 384676006737 TrkA-C domain; Region: TrkA_C; pfam02080 384676006738 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 384676006739 TrkA-C domain; Region: TrkA_C; pfam02080 384676006740 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 384676006741 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 384676006742 sequence-specific DNA binding site [nucleotide binding]; other site 384676006743 salt bridge; other site 384676006744 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 384676006745 PAS fold; Region: PAS_3; pfam08447 384676006746 putative active site [active] 384676006747 heme pocket [chemical binding]; other site 384676006748 PAS domain S-box; Region: sensory_box; TIGR00229 384676006749 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 384676006750 putative active site [active] 384676006751 heme pocket [chemical binding]; other site 384676006752 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676006753 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 384676006754 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676006755 S-adenosylmethionine binding site [chemical binding]; other site 384676006756 short chain dehydrogenase; Provisional; Region: PRK07035 384676006757 classical (c) SDRs; Region: SDR_c; cd05233 384676006758 NAD(P) binding site [chemical binding]; other site 384676006759 active site 384676006760 Phosphotransferase enzyme family; Region: APH; pfam01636 384676006761 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 384676006762 putative active site [active] 384676006763 putative substrate binding site [chemical binding]; other site 384676006764 ATP binding site [chemical binding]; other site 384676006765 SCP-2 sterol transfer family; Region: SCP2; pfam02036 384676006766 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 384676006767 catalytic core [active] 384676006768 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 384676006769 putative inner membrane peptidase; Provisional; Region: PRK11778 384676006770 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 384676006771 tandem repeat interface [polypeptide binding]; other site 384676006772 oligomer interface [polypeptide binding]; other site 384676006773 active site residues [active] 384676006774 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 384676006775 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 384676006776 Predicted membrane protein [Function unknown]; Region: COG2259 384676006777 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 384676006778 PAS domain; Region: PAS_9; pfam13426 384676006779 putative active site [active] 384676006780 heme pocket [chemical binding]; other site 384676006781 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 384676006782 dimer interface [polypeptide binding]; other site 384676006783 phosphorylation site [posttranslational modification] 384676006784 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676006785 ATP binding site [chemical binding]; other site 384676006786 Mg2+ binding site [ion binding]; other site 384676006787 G-X-G motif; other site 384676006788 circadian clock protein KaiC; Reviewed; Region: PRK09302 384676006789 recA bacterial DNA recombination protein; Region: RecA; cl17211 384676006790 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 384676006791 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 384676006792 Walker A motif; other site 384676006793 Walker A motif; other site 384676006794 ATP binding site [chemical binding]; other site 384676006795 Walker B motif; other site 384676006796 Response regulator receiver domain; Region: Response_reg; pfam00072 384676006797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676006798 active site 384676006799 phosphorylation site [posttranslational modification] 384676006800 intermolecular recognition site; other site 384676006801 dimerization interface [polypeptide binding]; other site 384676006802 carbon storage regulator; Provisional; Region: PRK01712 384676006803 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 384676006804 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 384676006805 active site 384676006806 DNA binding site [nucleotide binding] 384676006807 Int/Topo IB signature motif; other site 384676006808 catalytic residues [active] 384676006809 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 384676006810 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676006811 Walker A/P-loop; other site 384676006812 ATP binding site [chemical binding]; other site 384676006813 Q-loop/lid; other site 384676006814 ABC transporter signature motif; other site 384676006815 Walker B; other site 384676006816 D-loop; other site 384676006817 H-loop/switch region; other site 384676006818 TOBE domain; Region: TOBE; pfam03459 384676006819 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 384676006820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676006821 dimer interface [polypeptide binding]; other site 384676006822 conserved gate region; other site 384676006823 putative PBP binding loops; other site 384676006824 ABC-ATPase subunit interface; other site 384676006825 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 384676006826 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676006827 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 384676006828 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 384676006829 FMN binding site [chemical binding]; other site 384676006830 substrate binding site [chemical binding]; other site 384676006831 putative catalytic residue [active] 384676006832 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 384676006833 Cytochrome c553 [Energy production and conversion]; Region: COG2863 384676006834 Cytochrome c; Region: Cytochrom_C; cl11414 384676006835 Cytochrome c [Energy production and conversion]; Region: COG3258 384676006836 Cytochrome c; Region: Cytochrom_C; pfam00034 384676006837 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 384676006838 active site 384676006839 tetramer interface; other site 384676006840 glutathione reductase; Validated; Region: PRK06116 384676006841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676006842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676006843 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 384676006844 peroxiredoxin; Region: AhpC; TIGR03137 384676006845 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 384676006846 dimer interface [polypeptide binding]; other site 384676006847 decamer (pentamer of dimers) interface [polypeptide binding]; other site 384676006848 catalytic triad [active] 384676006849 peroxidatic and resolving cysteines [active] 384676006850 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 384676006851 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 384676006852 catalytic residue [active] 384676006853 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 384676006854 catalytic residues [active] 384676006855 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676006856 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676006857 Protein of unknown function, DUF480; Region: DUF480; pfam04337 384676006858 serine/threonine transporter SstT; Provisional; Region: PRK13628 384676006859 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 384676006860 putative arabinose transporter; Provisional; Region: PRK03545 384676006861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676006862 putative substrate translocation pore; other site 384676006863 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006864 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676006865 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676006866 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676006867 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676006868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676006869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006870 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 384676006871 putative effector binding pocket; other site 384676006872 dimerization interface [polypeptide binding]; other site 384676006873 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 384676006874 FMN binding site [chemical binding]; other site 384676006875 dimer interface [polypeptide binding]; other site 384676006876 Predicted acetyltransferase [General function prediction only]; Region: COG5628 384676006877 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 384676006878 PAS domain; Region: PAS_9; pfam13426 384676006879 putative active site [active] 384676006880 heme pocket [chemical binding]; other site 384676006881 PAS fold; Region: PAS_4; pfam08448 384676006882 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 384676006883 putative active site [active] 384676006884 heme pocket [chemical binding]; other site 384676006885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676006886 metal binding site [ion binding]; metal-binding site 384676006887 active site 384676006888 I-site; other site 384676006889 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 384676006890 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 384676006891 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 384676006892 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676006893 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676006894 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676006895 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 384676006896 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 384676006897 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 384676006898 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 384676006899 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 384676006900 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 384676006901 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 384676006902 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 384676006903 type II secretion system protein D; Region: type_II_gspD; TIGR02517 384676006904 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676006905 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676006906 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676006907 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676006908 type II secretion system protein E; Region: type_II_gspE; TIGR02533 384676006909 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 384676006910 Walker A motif; other site 384676006911 ATP binding site [chemical binding]; other site 384676006912 Walker B motif; other site 384676006913 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 384676006914 type II secretion system protein F; Region: GspF; TIGR02120 384676006915 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676006916 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676006917 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 384676006918 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 384676006919 conserved cys residue [active] 384676006920 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676006921 NAD-dependent deacetylase; Provisional; Region: PRK00481 384676006922 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 384676006923 NAD+ binding site [chemical binding]; other site 384676006924 substrate binding site [chemical binding]; other site 384676006925 Zn binding site [ion binding]; other site 384676006926 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 384676006927 homotrimer interaction site [polypeptide binding]; other site 384676006928 putative active site [active] 384676006929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676006930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676006931 metal binding site [ion binding]; metal-binding site 384676006932 active site 384676006933 I-site; other site 384676006934 outer membrane porin, OprD family; Region: OprD; pfam03573 384676006935 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 384676006936 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 384676006937 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 384676006938 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 384676006939 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676006940 acyl-activating enzyme (AAE) consensus motif; other site 384676006941 AMP binding site [chemical binding]; other site 384676006942 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676006943 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 384676006944 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 384676006945 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676006946 active site 384676006947 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 384676006948 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 384676006949 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 384676006950 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 384676006951 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676006952 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 384676006953 N-terminal plug; other site 384676006954 ligand-binding site [chemical binding]; other site 384676006955 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 384676006956 ligand binding site [chemical binding]; other site 384676006957 dimer interface [polypeptide binding]; other site 384676006958 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676006959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 384676006960 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 384676006961 dimer interface [polypeptide binding]; other site 384676006962 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 384676006963 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 384676006964 N-terminal plug; other site 384676006965 ligand-binding site [chemical binding]; other site 384676006966 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 384676006967 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 384676006968 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 384676006969 FeS/SAM binding site; other site 384676006970 malate:quinone oxidoreductase; Validated; Region: PRK05257 384676006971 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 384676006972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676006973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006974 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 384676006975 substrate binding pocket [chemical binding]; other site 384676006976 dimerization interface [polypeptide binding]; other site 384676006977 Uncharacterized conserved protein [Function unknown]; Region: COG1359 384676006978 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 384676006979 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 384676006980 potential catalytic triad [active] 384676006981 conserved cys residue [active] 384676006982 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 384676006983 lipoprotein signal peptidase; Provisional; Region: PRK14787 384676006984 Methyltransferase domain; Region: Methyltransf_31; pfam13847 384676006985 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676006986 S-adenosylmethionine binding site [chemical binding]; other site 384676006987 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 384676006988 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 384676006989 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 384676006990 dimer interface [polypeptide binding]; other site 384676006991 active site 384676006992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676006993 catalytic residues [active] 384676006994 substrate binding site [chemical binding]; other site 384676006995 hypothetical protein; Provisional; Region: PRK12378 384676006996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676006997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676006998 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 384676006999 substrate binding pocket [chemical binding]; other site 384676007000 dimerization interface [polypeptide binding]; other site 384676007001 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 384676007002 tyrosine decarboxylase; Region: PLN02880 384676007003 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676007004 catalytic residue [active] 384676007005 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 384676007006 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 384676007007 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 384676007008 dimer interface [polypeptide binding]; other site 384676007009 active site 384676007010 heme binding site [chemical binding]; other site 384676007011 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 384676007012 heme binding site [chemical binding]; other site 384676007013 SCP-2 sterol transfer family; Region: SCP2; pfam02036 384676007014 Cupin-like domain; Region: Cupin_8; pfam13621 384676007015 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 384676007016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676007017 DNA-binding site [nucleotide binding]; DNA binding site 384676007018 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 384676007019 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676007020 homodimer interface [polypeptide binding]; other site 384676007021 catalytic residue [active] 384676007022 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007023 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 384676007024 putative substrate translocation pore; other site 384676007025 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 384676007026 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 384676007027 active site 384676007028 substrate binding site [chemical binding]; other site 384676007029 Mg2+ binding site [ion binding]; other site 384676007030 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676007031 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 384676007032 N-terminal plug; other site 384676007033 ligand-binding site [chemical binding]; other site 384676007034 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 384676007035 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 384676007036 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 384676007037 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 384676007038 inhibitor site; inhibition site 384676007039 active site 384676007040 dimer interface [polypeptide binding]; other site 384676007041 catalytic residue [active] 384676007042 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 384676007043 intersubunit interface [polypeptide binding]; other site 384676007044 active site 384676007045 Zn2+ binding site [ion binding]; other site 384676007046 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 384676007047 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 384676007048 sequence-specific DNA binding site [nucleotide binding]; other site 384676007049 salt bridge; other site 384676007050 Cupin domain; Region: Cupin_2; pfam07883 384676007051 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 384676007052 homotrimer interaction site [polypeptide binding]; other site 384676007053 putative active site [active] 384676007054 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 384676007055 Family of unknown function (DUF633); Region: DUF633; pfam04816 384676007056 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 384676007057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007058 putative substrate translocation pore; other site 384676007059 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 384676007060 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007062 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 384676007063 putative effector binding pocket; other site 384676007064 dimerization interface [polypeptide binding]; other site 384676007065 outer membrane porin, OprD family; Region: OprD; pfam03573 384676007066 Predicted membrane protein [Function unknown]; Region: COG3503 384676007067 Protein of unknown function (DUF4225); Region: DUF4225; pfam13988 384676007068 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676007069 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 384676007070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676007071 DNA-binding site [nucleotide binding]; DNA binding site 384676007072 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 384676007073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676007074 homodimer interface [polypeptide binding]; other site 384676007075 catalytic residue [active] 384676007076 Amino acid permease; Region: AA_permease_2; pfam13520 384676007077 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 384676007078 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676007079 S-adenosylmethionine binding site [chemical binding]; other site 384676007080 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 384676007081 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 384676007082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007083 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 384676007084 dimerization interface [polypeptide binding]; other site 384676007085 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 384676007086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007087 putative substrate translocation pore; other site 384676007088 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676007089 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676007090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676007091 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 384676007092 dimer interface [polypeptide binding]; other site 384676007093 phosphorylation site [posttranslational modification] 384676007094 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676007095 ATP binding site [chemical binding]; other site 384676007096 Mg2+ binding site [ion binding]; other site 384676007097 G-X-G motif; other site 384676007098 osmolarity response regulator; Provisional; Region: ompR; PRK09468 384676007099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676007100 active site 384676007101 phosphorylation site [posttranslational modification] 384676007102 intermolecular recognition site; other site 384676007103 dimerization interface [polypeptide binding]; other site 384676007104 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 384676007105 DNA binding site [nucleotide binding] 384676007106 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 384676007107 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 384676007108 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676007109 catalytic residues [active] 384676007110 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 384676007111 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 384676007112 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 384676007113 putative molybdopterin cofactor binding site [chemical binding]; other site 384676007114 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 384676007115 putative molybdopterin cofactor binding site; other site 384676007116 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 384676007117 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 384676007118 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 384676007119 LexA repressor; Provisional; Region: PRK12423 384676007120 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 384676007121 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 384676007122 Catalytic site [active] 384676007123 Cell division inhibitor SulA; Region: SulA; cl01880 384676007124 DNA Polymerase Y-family; Region: PolY_like; cd03468 384676007125 active site 384676007126 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 384676007127 DNA binding site [nucleotide binding] 384676007128 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 384676007129 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 384676007130 putative active site [active] 384676007131 putative PHP Thumb interface [polypeptide binding]; other site 384676007132 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 384676007133 generic binding surface I; other site 384676007134 generic binding surface II; other site 384676007135 sensor protein ZraS; Provisional; Region: PRK10364 384676007136 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 384676007137 dimer interface [polypeptide binding]; other site 384676007138 phosphorylation site [posttranslational modification] 384676007139 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676007140 ATP binding site [chemical binding]; other site 384676007141 Mg2+ binding site [ion binding]; other site 384676007142 G-X-G motif; other site 384676007143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676007144 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 384676007145 dimer interface [polypeptide binding]; other site 384676007146 phosphorylation site [posttranslational modification] 384676007147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676007148 ATP binding site [chemical binding]; other site 384676007149 Mg2+ binding site [ion binding]; other site 384676007150 G-X-G motif; other site 384676007151 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676007152 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676007153 active site 384676007154 phosphorylation site [posttranslational modification] 384676007155 intermolecular recognition site; other site 384676007156 dimerization interface [polypeptide binding]; other site 384676007157 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676007158 Walker A motif; other site 384676007159 ATP binding site [chemical binding]; other site 384676007160 Walker B motif; other site 384676007161 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676007162 GntP family permease; Region: GntP_permease; pfam02447 384676007163 fructuronate transporter; Provisional; Region: PRK10034; cl15264 384676007164 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 384676007165 AAA domain; Region: AAA_33; pfam13671 384676007166 ATP-binding site [chemical binding]; other site 384676007167 Gluconate-6-phosphate binding site [chemical binding]; other site 384676007168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 384676007169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 384676007170 DNA binding site [nucleotide binding] 384676007171 domain linker motif; other site 384676007172 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 384676007173 putative ligand binding site [chemical binding]; other site 384676007174 putative dimerization interface [polypeptide binding]; other site 384676007175 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 384676007176 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 384676007177 putative active site [active] 384676007178 heme pocket [chemical binding]; other site 384676007179 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 384676007180 putative active site [active] 384676007181 heme pocket [chemical binding]; other site 384676007182 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676007183 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676007184 dimer interface [polypeptide binding]; other site 384676007185 putative CheW interface [polypeptide binding]; other site 384676007186 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 384676007187 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 384676007188 substrate binding pocket [chemical binding]; other site 384676007189 membrane-bound complex binding site; other site 384676007190 hinge residues; other site 384676007191 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 384676007192 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676007193 substrate binding pocket [chemical binding]; other site 384676007194 membrane-bound complex binding site; other site 384676007195 hinge residues; other site 384676007196 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676007197 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 384676007198 dimer interface [polypeptide binding]; other site 384676007199 phosphorylation site [posttranslational modification] 384676007200 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676007201 ATP binding site [chemical binding]; other site 384676007202 Mg2+ binding site [ion binding]; other site 384676007203 G-X-G motif; other site 384676007204 Response regulator receiver domain; Region: Response_reg; pfam00072 384676007205 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676007206 active site 384676007207 phosphorylation site [posttranslational modification] 384676007208 intermolecular recognition site; other site 384676007209 dimerization interface [polypeptide binding]; other site 384676007210 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 384676007211 putative binding surface; other site 384676007212 active site 384676007213 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676007214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676007215 active site 384676007216 phosphorylation site [posttranslational modification] 384676007217 intermolecular recognition site; other site 384676007218 dimerization interface [polypeptide binding]; other site 384676007219 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 384676007220 DNA binding residues [nucleotide binding] 384676007221 dimerization interface [polypeptide binding]; other site 384676007222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 384676007223 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 384676007224 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 384676007225 active site 384676007226 SAM binding site [chemical binding]; other site 384676007227 homodimer interface [polypeptide binding]; other site 384676007228 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 384676007229 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 384676007230 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 384676007231 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 384676007232 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 384676007233 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 384676007234 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 384676007235 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 384676007236 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 384676007237 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 384676007238 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 384676007239 metal ion-dependent adhesion site (MIDAS); other site 384676007240 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676007241 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676007242 Walker A motif; other site 384676007243 ATP binding site [chemical binding]; other site 384676007244 Walker B motif; other site 384676007245 arginine finger; other site 384676007246 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676007247 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 384676007248 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 384676007249 NAD binding site [chemical binding]; other site 384676007250 homodimer interface [polypeptide binding]; other site 384676007251 active site 384676007252 substrate binding site [chemical binding]; other site 384676007253 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 384676007254 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 384676007255 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 384676007256 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 384676007257 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676007258 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 384676007259 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 384676007260 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 384676007261 trimer interface [polypeptide binding]; other site 384676007262 active site 384676007263 substrate binding site [chemical binding]; other site 384676007264 CoA binding site [chemical binding]; other site 384676007265 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 384676007266 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 384676007267 active site 384676007268 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 384676007269 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 384676007270 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 384676007271 trimer interface [polypeptide binding]; other site 384676007272 active site 384676007273 substrate binding site [chemical binding]; other site 384676007274 CoA binding site [chemical binding]; other site 384676007275 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 384676007276 Protein of unknown function (DUF535); Region: DUF535; pfam04393 384676007277 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 384676007278 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676007279 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 384676007280 putative ADP-binding pocket [chemical binding]; other site 384676007281 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676007282 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676007283 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 384676007284 DXD motif; other site 384676007285 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 384676007286 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 384676007287 Bacterial sugar transferase; Region: Bac_transf; pfam02397 384676007288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007289 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676007290 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 384676007291 dimerization interface [polypeptide binding]; other site 384676007292 substrate binding pocket [chemical binding]; other site 384676007293 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 384676007294 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 384676007295 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 384676007296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007297 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007298 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 384676007299 putative dimerization interface [polypeptide binding]; other site 384676007300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676007301 conserved gate region; other site 384676007302 ABC-ATPase subunit interface; other site 384676007303 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676007304 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 384676007305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676007306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676007307 metal binding site [ion binding]; metal-binding site 384676007308 active site 384676007309 I-site; other site 384676007310 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 384676007311 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676007312 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676007313 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 384676007314 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 384676007315 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 384676007316 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676007317 catalytic residue [active] 384676007318 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 384676007319 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 384676007320 active site 384676007321 catalytic tetrad [active] 384676007322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007324 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 384676007325 putative dimerization interface [polypeptide binding]; other site 384676007326 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 384676007327 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 384676007328 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 384676007329 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 384676007330 Substrate binding site; other site 384676007331 Mg++ binding site; other site 384676007332 metal-binding site 384676007333 Mg++ binding site; other site 384676007334 metal-binding site 384676007335 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 384676007336 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 384676007337 Radical SAM superfamily; Region: Radical_SAM; pfam04055 384676007338 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 384676007339 FeS/SAM binding site; other site 384676007340 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 384676007341 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676007342 S-adenosylmethionine binding site [chemical binding]; other site 384676007343 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676007344 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 384676007345 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 384676007346 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676007347 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 384676007348 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 384676007349 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 384676007350 inhibitor-cofactor binding pocket; inhibition site 384676007351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676007352 catalytic residue [active] 384676007353 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics; Region: DOIS; cd08197 384676007354 active site 384676007355 dimer interface [polypeptide binding]; other site 384676007356 metal binding site [ion binding]; metal-binding site 384676007357 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 384676007358 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 384676007359 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 384676007360 active site 384676007361 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 384676007362 Ligand Binding Site [chemical binding]; other site 384676007363 Molecular Tunnel; other site 384676007364 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 384676007365 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 384676007366 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 384676007367 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 384676007368 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 384676007369 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 384676007370 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 384676007371 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 384676007372 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 384676007373 N-terminal plug; other site 384676007374 ligand-binding site [chemical binding]; other site 384676007375 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676007376 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676007377 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676007378 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 384676007379 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 384676007380 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 384676007381 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 384676007382 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 384676007383 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 384676007384 Patatin-like phospholipase; Region: Patatin; pfam01734 384676007385 active site 384676007386 nucleophile elbow; other site 384676007387 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 384676007388 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676007389 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 384676007390 N-terminal plug; other site 384676007391 ligand-binding site [chemical binding]; other site 384676007392 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 384676007393 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 384676007394 putative ligand binding residues [chemical binding]; other site 384676007395 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 384676007396 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 384676007397 Walker A/P-loop; other site 384676007398 ATP binding site [chemical binding]; other site 384676007399 Q-loop/lid; other site 384676007400 ABC transporter signature motif; other site 384676007401 Walker B; other site 384676007402 D-loop; other site 384676007403 H-loop/switch region; other site 384676007404 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 384676007405 ABC-ATPase subunit interface; other site 384676007406 dimer interface [polypeptide binding]; other site 384676007407 putative PBP binding regions; other site 384676007408 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 384676007409 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 384676007410 ABC-ATPase subunit interface; other site 384676007411 dimer interface [polypeptide binding]; other site 384676007412 putative PBP binding regions; other site 384676007413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 384676007414 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676007415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676007416 Walker A/P-loop; other site 384676007417 ATP binding site [chemical binding]; other site 384676007418 Q-loop/lid; other site 384676007419 ABC transporter signature motif; other site 384676007420 Walker B; other site 384676007421 D-loop; other site 384676007422 H-loop/switch region; other site 384676007423 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 384676007424 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676007425 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676007426 Walker A/P-loop; other site 384676007427 ATP binding site [chemical binding]; other site 384676007428 Q-loop/lid; other site 384676007429 ABC transporter signature motif; other site 384676007430 Walker B; other site 384676007431 D-loop; other site 384676007432 H-loop/switch region; other site 384676007433 RNA polymerase sigma factor; Provisional; Region: PRK12528 384676007434 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676007435 DNA binding residues [nucleotide binding] 384676007436 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 384676007437 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007438 Condensation domain; Region: Condensation; pfam00668 384676007439 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676007440 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 384676007441 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676007442 Condensation domain; Region: Condensation; pfam00668 384676007443 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676007444 Nonribosomal peptide synthase; Region: NRPS; pfam08415 384676007445 Condensation domain; Region: Condensation; pfam00668 384676007446 Nonribosomal peptide synthase; Region: NRPS; pfam08415 384676007447 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 384676007448 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676007449 acyl-activating enzyme (AAE) consensus motif; other site 384676007450 AMP binding site [chemical binding]; other site 384676007451 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007452 isochorismate synthase EntC; Provisional; Region: PRK15016 384676007453 chorismate binding enzyme; Region: Chorismate_bind; cl10555 384676007454 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 384676007455 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 384676007456 acyl-activating enzyme (AAE) consensus motif; other site 384676007457 active site 384676007458 AMP binding site [chemical binding]; other site 384676007459 substrate binding site [chemical binding]; other site 384676007460 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 384676007461 histidine decarboxylase; Provisional; Region: PRK02769 384676007462 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676007463 catalytic residue [active] 384676007464 isochorismate-pyruvate lyase; Reviewed; Region: PRK07075 384676007465 RHS Repeat; Region: RHS_repeat; pfam05593 384676007466 RHS Repeat; Region: RHS_repeat; pfam05593 384676007467 RHS Repeat; Region: RHS_repeat; pfam05593 384676007468 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676007469 RHS Repeat; Region: RHS_repeat; pfam05593 384676007470 RHS Repeat; Region: RHS_repeat; cl11982 384676007471 RHS protein; Region: RHS; pfam03527 384676007472 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676007473 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 384676007474 ParB-like nuclease domain; Region: ParB; smart00470 384676007475 multidrug efflux protein NorA; Provisional; Region: PRK00187 384676007476 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 384676007477 cation binding site [ion binding]; other site 384676007478 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 384676007479 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 384676007480 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 384676007481 FeS/SAM binding site; other site 384676007482 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 384676007483 GTP cyclohydrolase I; Provisional; Region: PLN03044 384676007484 active site 384676007485 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 384676007486 active site 384676007487 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK06843 384676007488 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 384676007489 active site 384676007490 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676007491 active site 384676007492 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 384676007493 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 384676007494 nudix motif; other site 384676007495 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676007496 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 384676007497 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 384676007498 N-terminal plug; other site 384676007499 ligand-binding site [chemical binding]; other site 384676007500 fec operon regulator FecR; Reviewed; Region: PRK09774 384676007501 FecR protein; Region: FecR; pfam04773 384676007502 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 384676007503 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676007504 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 384676007505 DNA binding residues [nucleotide binding] 384676007506 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676007507 Protein of unknown function (DUF533); Region: DUF533; pfam04391 384676007508 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 384676007509 putative metal binding site [ion binding]; other site 384676007510 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 384676007511 putative active site [active] 384676007512 heme pocket [chemical binding]; other site 384676007513 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 384676007514 DNA binding residues [nucleotide binding] 384676007515 dimerization interface [polypeptide binding]; other site 384676007516 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 384676007517 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 384676007518 active site 384676007519 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 384676007520 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676007521 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 384676007522 acyl-activating enzyme (AAE) consensus motif; other site 384676007523 acyl-activating enzyme (AAE) consensus motif; other site 384676007524 putative AMP binding site [chemical binding]; other site 384676007525 putative active site [active] 384676007526 putative CoA binding site [chemical binding]; other site 384676007527 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676007528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007529 putative substrate translocation pore; other site 384676007530 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676007531 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676007532 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676007533 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676007534 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676007535 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 384676007536 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 384676007537 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 384676007538 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 384676007539 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 384676007540 Methylamine utilisation protein MauE; Region: MauE; pfam07291 384676007541 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 384676007542 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676007543 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 384676007544 Cytochrome c; Region: Cytochrom_C; cl11414 384676007545 Cytochrome c; Region: Cytochrom_C; cl11414 384676007546 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 384676007547 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676007548 enoyl-CoA hydratase; Provisional; Region: PRK06688 384676007549 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 384676007550 substrate binding site [chemical binding]; other site 384676007551 oxyanion hole (OAH) forming residues; other site 384676007552 trimer interface [polypeptide binding]; other site 384676007553 MltA-interacting protein MipA; Region: MipA; cl01504 384676007554 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 384676007555 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676007556 active site 384676007557 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 384676007558 B1 nucleotide binding pocket [chemical binding]; other site 384676007559 B2 nucleotide binding pocket [chemical binding]; other site 384676007560 CAS motifs; other site 384676007561 active site 384676007562 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676007563 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676007564 Chitin binding domain; Region: Chitin_bind_3; pfam03067 384676007565 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 384676007566 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 384676007567 putative active site [active] 384676007568 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 384676007569 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 384676007570 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676007571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676007572 AlkA N-terminal domain; Region: AlkA_N; pfam06029 384676007573 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 384676007574 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 384676007575 minor groove reading motif; other site 384676007576 helix-hairpin-helix signature motif; other site 384676007577 active site 384676007578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 384676007579 ACT domain; Region: ACT_3; pfam10000 384676007580 Family description; Region: ACT_7; pfam13840 384676007581 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 384676007582 dimer interface [polypeptide binding]; other site 384676007583 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676007584 metal binding site [ion binding]; metal-binding site 384676007585 SGNH_hydrolase, or GDSL_hydrolase, is 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 active site closely...; Region: SGNH_hydrolase; cl01053 384676007586 catalytic triad [active] 384676007587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007589 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 384676007590 putative substrate binding pocket [chemical binding]; other site 384676007591 putative dimerization interface [polypeptide binding]; other site 384676007592 Cytochrome c; Region: Cytochrom_C; pfam00034 384676007593 The Phox Homology domain, a phosphoinositide binding module; Region: PX_domain; cl02563 384676007594 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676007595 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 384676007596 dimer interface [polypeptide binding]; other site 384676007597 [2Fe-2S] cluster binding site [ion binding]; other site 384676007598 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 384676007599 choline dehydrogenase; Validated; Region: PRK02106 384676007600 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 384676007601 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007603 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 384676007604 dimerization interface [polypeptide binding]; other site 384676007605 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 384676007606 active site 384676007607 intersubunit interface [polypeptide binding]; other site 384676007608 Zn2+ binding site [ion binding]; other site 384676007609 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676007610 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 384676007611 NAD(P) binding site [chemical binding]; other site 384676007612 catalytic residues [active] 384676007613 catalytic residues [active] 384676007614 short chain dehydrogenase; Provisional; Region: PRK12937 384676007615 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 384676007616 NADP binding site [chemical binding]; other site 384676007617 homodimer interface [polypeptide binding]; other site 384676007618 active site 384676007619 substrate binding site [chemical binding]; other site 384676007620 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 384676007621 NADH(P)-binding; Region: NAD_binding_10; pfam13460 384676007622 NADP binding site [chemical binding]; other site 384676007623 active site 384676007624 steroid binding site; other site 384676007625 short chain dehydrogenase; Provisional; Region: PRK12744 384676007626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676007627 NAD(P) binding site [chemical binding]; other site 384676007628 active site 384676007629 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 384676007630 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 384676007631 TrkA-N domain; Region: TrkA_N; pfam02254 384676007632 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 384676007633 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 384676007634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007635 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 384676007636 dimerization interface [polypeptide binding]; other site 384676007637 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 384676007638 Cupin domain; Region: Cupin_2; pfam07883 384676007639 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 384676007640 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 384676007641 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 384676007642 maleylacetoacetate isomerase; Region: maiA; TIGR01262 384676007643 C-terminal domain interface [polypeptide binding]; other site 384676007644 GSH binding site (G-site) [chemical binding]; other site 384676007645 putative dimer interface [polypeptide binding]; other site 384676007646 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 384676007647 dimer interface [polypeptide binding]; other site 384676007648 N-terminal domain interface [polypeptide binding]; other site 384676007649 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 384676007650 salicylate hydroxylase; Provisional; Region: PRK08163 384676007651 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 384676007652 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007654 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 384676007655 putative substrate binding pocket [chemical binding]; other site 384676007656 dimerization interface [polypeptide binding]; other site 384676007657 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676007658 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 384676007659 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676007660 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676007661 dimer interface [polypeptide binding]; other site 384676007662 conserved gate region; other site 384676007663 putative PBP binding loops; other site 384676007664 ABC-ATPase subunit interface; other site 384676007665 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676007666 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 384676007667 Walker A/P-loop; other site 384676007668 ATP binding site [chemical binding]; other site 384676007669 Q-loop/lid; other site 384676007670 ABC transporter signature motif; other site 384676007671 Walker B; other site 384676007672 D-loop; other site 384676007673 H-loop/switch region; other site 384676007674 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 384676007675 active sites [active] 384676007676 tetramer interface [polypeptide binding]; other site 384676007677 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 384676007678 active site 384676007679 metal binding site [ion binding]; metal-binding site 384676007680 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676007681 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676007682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676007683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676007684 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 384676007685 putative homotetramer interface [polypeptide binding]; other site 384676007686 putative homodimer-homodimer interface [polypeptide binding]; other site 384676007687 putative allosteric switch controlling residues; other site 384676007688 putative metal binding site [ion binding]; other site 384676007689 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 384676007690 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 384676007691 substrate binding site [chemical binding]; other site 384676007692 catalytic Zn binding site [ion binding]; other site 384676007693 NAD binding site [chemical binding]; other site 384676007694 structural Zn binding site [ion binding]; other site 384676007695 dimer interface [polypeptide binding]; other site 384676007696 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 384676007697 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 384676007698 S-formylglutathione hydrolase; Region: PLN02442 384676007699 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 384676007700 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676007701 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 384676007702 putative metal binding site [ion binding]; other site 384676007703 putative homodimer interface [polypeptide binding]; other site 384676007704 putative homotetramer interface [polypeptide binding]; other site 384676007705 putative homodimer-homodimer interface [polypeptide binding]; other site 384676007706 putative allosteric switch controlling residues; other site 384676007707 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 384676007708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676007709 Walker A/P-loop; other site 384676007710 ATP binding site [chemical binding]; other site 384676007711 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 384676007712 Q-loop/lid; other site 384676007713 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676007714 ABC transporter signature motif; other site 384676007715 Walker B; other site 384676007716 D-loop; other site 384676007717 H-loop/switch region; other site 384676007718 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676007719 Walker A/P-loop; other site 384676007720 ATP binding site [chemical binding]; other site 384676007721 Q-loop/lid; other site 384676007722 ABC transporter signature motif; other site 384676007723 Walker B; other site 384676007724 D-loop; other site 384676007725 H-loop/switch region; other site 384676007726 malate dehydrogenase; Reviewed; Region: PRK06223 384676007727 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 384676007728 NAD(P) binding site [chemical binding]; other site 384676007729 dimer interface [polypeptide binding]; other site 384676007730 tetramer (dimer of dimers) interface [polypeptide binding]; other site 384676007731 substrate binding site [chemical binding]; other site 384676007732 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 384676007733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007734 putative substrate translocation pore; other site 384676007735 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 384676007736 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 384676007737 tetramer interface [polypeptide binding]; other site 384676007738 active site 384676007739 Mg2+/Mn2+ binding site [ion binding]; other site 384676007740 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676007741 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676007742 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 384676007743 putative substrate binding pocket [chemical binding]; other site 384676007744 putative dimerization interface [polypeptide binding]; other site 384676007745 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 384676007746 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 384676007747 putative NAD(P) binding site [chemical binding]; other site 384676007748 Uncharacterized conserved protein [Function unknown]; Region: COG3379 384676007749 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 384676007750 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 384676007751 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 384676007752 TatD related DNase; Region: TatD_DNase; pfam01026 384676007753 active site 384676007754 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 384676007755 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 384676007756 active site 384676007757 metal binding site [ion binding]; metal-binding site 384676007758 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 384676007759 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 384676007760 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 384676007761 DEAD_2; Region: DEAD_2; pfam06733 384676007762 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 384676007763 phosphoglucomutase; Validated; Region: PRK07564 384676007764 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 384676007765 active site 384676007766 substrate binding site [chemical binding]; other site 384676007767 metal binding site [ion binding]; metal-binding site 384676007768 Pirin-related protein [General function prediction only]; Region: COG1741 384676007769 Pirin; Region: Pirin; pfam02678 384676007770 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 384676007771 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 384676007772 homotrimer interaction site [polypeptide binding]; other site 384676007773 putative active site [active] 384676007774 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 384676007775 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676007776 Uncharacterized conserved protein [Function unknown]; Region: COG3342 384676007777 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 384676007778 acetylornithine deacetylase; Provisional; Region: PRK07522 384676007779 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 384676007780 metal binding site [ion binding]; metal-binding site 384676007781 putative dimer interface [polypeptide binding]; other site 384676007782 Protein of unknown function (DUF998); Region: DUF998; pfam06197 384676007783 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676007784 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676007785 DNA-binding site [nucleotide binding]; DNA binding site 384676007786 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 384676007787 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 384676007788 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 384676007789 dimer interface [polypeptide binding]; other site 384676007790 NADP binding site [chemical binding]; other site 384676007791 catalytic residues [active] 384676007792 galactarate dehydratase; Region: galactar-dH20; TIGR03248 384676007793 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 384676007794 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 384676007795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007796 D-galactonate transporter; Region: 2A0114; TIGR00893 384676007797 putative substrate translocation pore; other site 384676007798 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 384676007799 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 384676007800 putative active site [active] 384676007801 catalytic residue [active] 384676007802 Peptidase C26; Region: Peptidase_C26; pfam07722 384676007803 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 384676007804 catalytic triad [active] 384676007805 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676007806 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676007807 Walker A/P-loop; other site 384676007808 ATP binding site [chemical binding]; other site 384676007809 Q-loop/lid; other site 384676007810 ABC transporter signature motif; other site 384676007811 Walker B; other site 384676007812 D-loop; other site 384676007813 H-loop/switch region; other site 384676007814 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676007815 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676007816 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676007817 dimer interface [polypeptide binding]; other site 384676007818 putative PBP binding loops; other site 384676007819 ABC-ATPase subunit interface; other site 384676007820 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676007821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676007822 dimer interface [polypeptide binding]; other site 384676007823 conserved gate region; other site 384676007824 putative PBP binding loops; other site 384676007825 ABC-ATPase subunit interface; other site 384676007826 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 384676007827 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 384676007828 substrate binding pocket [chemical binding]; other site 384676007829 membrane-bound complex binding site; other site 384676007830 hinge residues; other site 384676007831 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 384676007832 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 384676007833 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 384676007834 putative active site [active] 384676007835 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 384676007836 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 384676007837 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 384676007838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676007839 homodimer interface [polypeptide binding]; other site 384676007840 catalytic residue [active] 384676007841 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 384676007842 serine transporter; Region: stp; TIGR00814 384676007843 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 384676007844 dimer interface [polypeptide binding]; other site 384676007845 catalytic triad [active] 384676007846 peroxidatic and resolving cysteines [active] 384676007847 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676007848 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676007849 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 384676007850 Protein export membrane protein; Region: SecD_SecF; cl14618 384676007851 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 384676007852 Protein export membrane protein; Region: SecD_SecF; cl14618 384676007853 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676007854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007855 putative substrate translocation pore; other site 384676007856 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 384676007857 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 384676007858 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 384676007859 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 384676007860 putative NAD(P) binding site [chemical binding]; other site 384676007861 putative substrate binding site [chemical binding]; other site 384676007862 catalytic Zn binding site [ion binding]; other site 384676007863 structural Zn binding site [ion binding]; other site 384676007864 dimer interface [polypeptide binding]; other site 384676007865 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 384676007866 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 384676007867 Cl binding site [ion binding]; other site 384676007868 oligomer interface [polypeptide binding]; other site 384676007869 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 384676007870 active site 384676007871 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; cd07040 384676007872 catalytic core [active] 384676007873 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 384676007874 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 384676007875 HflC protein; Region: hflC; TIGR01932 384676007876 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 384676007877 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 384676007878 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 384676007879 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 384676007880 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676007881 Soluble P-type ATPase [General function prediction only]; Region: COG4087 384676007882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676007883 NAD(P) binding site [chemical binding]; other site 384676007884 active site 384676007885 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 384676007886 dimerization interface [polypeptide binding]; other site 384676007887 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 384676007888 dimer interface [polypeptide binding]; other site 384676007889 phosphorylation site [posttranslational modification] 384676007890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676007891 ATP binding site [chemical binding]; other site 384676007892 Mg2+ binding site [ion binding]; other site 384676007893 G-X-G motif; other site 384676007894 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676007895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676007896 active site 384676007897 phosphorylation site [posttranslational modification] 384676007898 intermolecular recognition site; other site 384676007899 dimerization interface [polypeptide binding]; other site 384676007900 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 384676007901 DNA binding site [nucleotide binding] 384676007902 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676007903 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676007904 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 384676007905 dimer interface [polypeptide binding]; other site 384676007906 ligand binding site [chemical binding]; other site 384676007907 Cache domain; Region: Cache_1; pfam02743 384676007908 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676007909 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676007910 metal binding site [ion binding]; metal-binding site 384676007911 active site 384676007912 I-site; other site 384676007913 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 384676007914 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 384676007915 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676007916 S-adenosylmethionine binding site [chemical binding]; other site 384676007917 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 384676007918 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 384676007919 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676007920 short chain dehydrogenase; Provisional; Region: PRK06101 384676007921 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676007922 NAD(P) binding site [chemical binding]; other site 384676007923 active site 384676007924 SnoaL-like domain; Region: SnoaL_2; pfam12680 384676007925 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676007926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676007927 putative substrate translocation pore; other site 384676007928 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 384676007929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676007930 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676007931 Predicted transcriptional regulators [Transcription]; Region: COG1733 384676007932 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 384676007933 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676007934 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 384676007935 DNA binding site [nucleotide binding] 384676007936 Predicted integral membrane protein [Function unknown]; Region: COG5616 384676007937 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 384676007938 binding surface 384676007939 TPR motif; other site 384676007940 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 384676007941 TPR motif; other site 384676007942 TPR repeat; Region: TPR_11; pfam13414 384676007943 binding surface 384676007944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676007945 NADH(P)-binding; Region: NAD_binding_10; pfam13460 384676007946 NAD(P) binding site [chemical binding]; other site 384676007947 active site 384676007948 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 384676007949 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 384676007950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676007951 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 384676007952 NAD(P) binding site [chemical binding]; other site 384676007953 active site 384676007954 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676007955 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676007956 acyl-activating enzyme (AAE) consensus motif; other site 384676007957 AMP binding site [chemical binding]; other site 384676007958 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007959 Condensation domain; Region: Condensation; pfam00668 384676007960 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676007961 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676007962 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676007963 acyl-activating enzyme (AAE) consensus motif; other site 384676007964 AMP binding site [chemical binding]; other site 384676007965 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007966 Condensation domain; Region: Condensation; pfam00668 384676007967 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676007968 Nonribosomal peptide synthase; Region: NRPS; pfam08415 384676007969 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 384676007970 acyl-activating enzyme (AAE) consensus motif; other site 384676007971 AMP binding site [chemical binding]; other site 384676007972 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007973 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 384676007974 putative FMN binding site [chemical binding]; other site 384676007975 NADPH bind site [chemical binding]; other site 384676007976 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 384676007977 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676007978 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676007979 acyl-activating enzyme (AAE) consensus motif; other site 384676007980 AMP binding site [chemical binding]; other site 384676007981 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007982 Thioesterase domain; Region: Thioesterase; pfam00975 384676007983 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 384676007984 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676007985 acyl-activating enzyme (AAE) consensus motif; other site 384676007986 AMP binding site [chemical binding]; other site 384676007987 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007988 Condensation domain; Region: Condensation; pfam00668 384676007989 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676007990 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676007991 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676007992 acyl-activating enzyme (AAE) consensus motif; other site 384676007993 AMP binding site [chemical binding]; other site 384676007994 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676007995 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 384676007996 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 384676007997 active site 384676007998 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 384676007999 putative NADP binding site [chemical binding]; other site 384676008000 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 384676008001 active site 384676008002 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008003 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 384676008004 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 384676008005 GSCFA family; Region: GSCFA; pfam08885 384676008006 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 384676008007 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 384676008008 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 384676008009 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 384676008010 TMP-binding site; other site 384676008011 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 384676008012 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 384676008013 putative NAD(P) binding site [chemical binding]; other site 384676008014 dimer interface [polypeptide binding]; other site 384676008015 Uncharacterized conserved protein [Function unknown]; Region: COG1359 384676008016 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676008017 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 384676008018 C-terminal domain interface [polypeptide binding]; other site 384676008019 GSH binding site (G-site) [chemical binding]; other site 384676008020 dimer interface [polypeptide binding]; other site 384676008021 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 384676008022 dimer interface [polypeptide binding]; other site 384676008023 N-terminal domain interface [polypeptide binding]; other site 384676008024 putative substrate binding pocket (H-site) [chemical binding]; other site 384676008025 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 384676008026 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 384676008027 catalytic residues [active] 384676008028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008030 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 384676008031 putative effector binding pocket; other site 384676008032 dimerization interface [polypeptide binding]; other site 384676008033 C factor cell-cell signaling protein; Provisional; Region: PRK09009 384676008034 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 384676008035 NADP binding site [chemical binding]; other site 384676008036 homodimer interface [polypeptide binding]; other site 384676008037 active site 384676008038 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 384676008039 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 384676008040 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 384676008041 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 384676008042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676008043 catalytic residue [active] 384676008044 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 384676008045 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 384676008046 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 384676008047 methionine synthase; Provisional; Region: PRK01207 384676008048 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 384676008049 substrate binding site [chemical binding]; other site 384676008050 THF binding site; other site 384676008051 zinc-binding site [ion binding]; other site 384676008052 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 384676008053 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 384676008054 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676008055 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676008056 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 384676008057 N-terminal plug; other site 384676008058 ligand-binding site [chemical binding]; other site 384676008059 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 384676008060 Thermostable hemolysin; Region: T_hemolysin; pfam12261 384676008061 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 384676008062 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 384676008063 acyl-activating enzyme (AAE) consensus motif; other site 384676008064 putative AMP binding site [chemical binding]; other site 384676008065 putative active site [active] 384676008066 putative CoA binding site [chemical binding]; other site 384676008067 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 384676008068 heme binding pocket [chemical binding]; other site 384676008069 heme ligand [chemical binding]; other site 384676008070 short chain dehydrogenase; Provisional; Region: PRK09072 384676008071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676008072 NAD(P) binding site [chemical binding]; other site 384676008073 active site 384676008074 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 384676008075 TPR motif; other site 384676008076 binding surface 384676008077 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 384676008078 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008079 active site 384676008080 phosphorylation site [posttranslational modification] 384676008081 intermolecular recognition site; other site 384676008082 dimerization interface [polypeptide binding]; other site 384676008083 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 384676008084 DNA binding site [nucleotide binding] 384676008085 sensor protein QseC; Provisional; Region: PRK10337 384676008086 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 384676008087 dimer interface [polypeptide binding]; other site 384676008088 phosphorylation site [posttranslational modification] 384676008089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008090 ATP binding site [chemical binding]; other site 384676008091 Mg2+ binding site [ion binding]; other site 384676008092 G-X-G motif; other site 384676008093 oxidoreductase; Provisional; Region: PRK06128 384676008094 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 384676008095 NAD binding site [chemical binding]; other site 384676008096 metal binding site [ion binding]; metal-binding site 384676008097 active site 384676008098 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 384676008099 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 384676008100 putative DNA binding site [nucleotide binding]; other site 384676008101 putative homodimer interface [polypeptide binding]; other site 384676008102 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 384676008103 active site 384676008104 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676008105 S-adenosylmethionine binding site [chemical binding]; other site 384676008106 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 384676008107 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676008108 active site 384676008109 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 384676008110 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 384676008111 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 384676008112 active site 384676008113 DNA binding site [nucleotide binding] 384676008114 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 384676008115 DNA binding site [nucleotide binding] 384676008116 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 384676008117 nucleotide binding site [chemical binding]; other site 384676008118 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 384676008119 transcription termination factor Rho; Provisional; Region: PRK12678 384676008120 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 384676008121 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676008122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008123 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 384676008124 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676008125 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 384676008126 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 384676008127 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676008128 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008129 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 384676008130 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676008131 Evidence 2b : Function of strongly homologous gene 384676008132 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 384676008133 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 384676008134 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 384676008135 dimerization interface [polypeptide binding]; other site 384676008136 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676008137 dimer interface [polypeptide binding]; other site 384676008138 putative CheW interface [polypeptide binding]; other site 384676008139 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676008140 Fatty acid desaturase; Region: FA_desaturase; pfam00487 384676008141 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 384676008142 putative di-iron ligands [ion binding]; other site 384676008143 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676008144 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676008145 PaaX-like protein; Region: PaaX; pfam07848 384676008146 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 384676008147 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 384676008148 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 384676008149 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 384676008150 putative trimer interface [polypeptide binding]; other site 384676008151 putative metal binding site [ion binding]; other site 384676008152 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 384676008153 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 384676008154 substrate binding site [chemical binding]; other site 384676008155 oxyanion hole (OAH) forming residues; other site 384676008156 trimer interface [polypeptide binding]; other site 384676008157 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 384676008158 enoyl-CoA hydratase; Provisional; Region: PRK08140 384676008159 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 384676008160 substrate binding site [chemical binding]; other site 384676008161 oxyanion hole (OAH) forming residues; other site 384676008162 trimer interface [polypeptide binding]; other site 384676008163 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 384676008164 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 384676008165 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 384676008166 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 384676008167 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 384676008168 CoenzymeA binding site [chemical binding]; other site 384676008169 subunit interaction site [polypeptide binding]; other site 384676008170 PHB binding site; other site 384676008171 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 384676008172 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 384676008173 dimer interface [polypeptide binding]; other site 384676008174 active site 384676008175 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 384676008176 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 384676008177 active site 384676008178 AMP binding site [chemical binding]; other site 384676008179 homodimer interface [polypeptide binding]; other site 384676008180 acyl-activating enzyme (AAE) consensus motif; other site 384676008181 CoA binding site [chemical binding]; other site 384676008182 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 384676008183 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 384676008184 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 384676008185 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 384676008186 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 384676008187 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 384676008188 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 384676008189 FAD binding pocket [chemical binding]; other site 384676008190 FAD binding motif [chemical binding]; other site 384676008191 phosphate binding motif [ion binding]; other site 384676008192 beta-alpha-beta structure motif; other site 384676008193 NAD(p) ribose binding residues [chemical binding]; other site 384676008194 NAD binding pocket [chemical binding]; other site 384676008195 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 384676008196 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 384676008197 catalytic loop [active] 384676008198 iron binding site [ion binding]; other site 384676008199 Protein of unknown function, DUF485; Region: DUF485; pfam04341 384676008200 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 384676008201 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 384676008202 Na binding site [ion binding]; other site 384676008203 outer membrane porin, OprD family; Region: OprD; pfam03573 384676008204 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 384676008205 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 384676008206 substrate binding site [chemical binding]; other site 384676008207 dimer interface [polypeptide binding]; other site 384676008208 NADP binding site [chemical binding]; other site 384676008209 catalytic residues [active] 384676008210 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 384676008211 substrate binding site [chemical binding]; other site 384676008212 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 384676008213 nucleophilic elbow; other site 384676008214 catalytic triad; other site 384676008215 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 384676008216 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 384676008217 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 384676008218 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 384676008219 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 384676008220 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 384676008221 tetramer interface [polypeptide binding]; other site 384676008222 heme binding pocket [chemical binding]; other site 384676008223 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 384676008224 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 384676008225 potential catalytic triad [active] 384676008226 conserved cys residue [active] 384676008227 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 384676008228 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 384676008229 DNA binding residues [nucleotide binding] 384676008230 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676008231 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676008232 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676008233 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 384676008234 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 384676008235 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 384676008236 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 384676008237 active site 384676008238 catalytic residues [active] 384676008239 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 384676008240 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676008241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676008242 Walker A/P-loop; other site 384676008243 ATP binding site [chemical binding]; other site 384676008244 Q-loop/lid; other site 384676008245 ABC transporter signature motif; other site 384676008246 Walker B; other site 384676008247 D-loop; other site 384676008248 H-loop/switch region; other site 384676008249 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 384676008250 GAF domain; Region: GAF; pfam01590 384676008251 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 384676008252 putative active site [active] 384676008253 heme pocket [chemical binding]; other site 384676008254 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676008255 Walker A motif; other site 384676008256 ATP binding site [chemical binding]; other site 384676008257 Walker B motif; other site 384676008258 arginine finger; other site 384676008259 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676008260 Curlin associated repeat; Region: Curlin_rpt; pfam07012 384676008261 Curlin associated repeat; Region: Curlin_rpt; pfam07012 384676008262 major curlin subunit; Provisional; Region: csgA; PRK10051 384676008263 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 384676008264 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 384676008265 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 384676008266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008268 LysR substrate binding domain; Region: LysR_substrate; pfam03466 384676008269 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 384676008270 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 384676008271 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 384676008272 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 384676008273 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 384676008274 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 384676008275 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 384676008276 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 384676008277 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 384676008278 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 384676008279 Surface antigen; Region: Bac_surface_Ag; pfam01103 384676008280 Transposase domain (DUF772); Region: DUF772; pfam05598 384676008281 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 384676008282 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 384676008283 curli assembly protein CsgE; Provisional; Region: PRK10386 384676008284 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 384676008285 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 384676008286 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 384676008287 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 384676008288 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 384676008289 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 384676008290 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 384676008291 binding surface 384676008292 TPR motif; other site 384676008293 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 384676008294 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676008295 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676008296 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676008297 Pilus assembly protein, PilO; Region: PilO; cl01234 384676008298 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 384676008299 Type II/IV secretion system protein; Region: T2SE; pfam00437 384676008300 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 384676008301 Walker A motif; other site 384676008302 ATP binding site [chemical binding]; other site 384676008303 Walker B motif; other site 384676008304 Response regulator receiver domain; Region: Response_reg; pfam00072 384676008305 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008306 active site 384676008307 phosphorylation site [posttranslational modification] 384676008308 intermolecular recognition site; other site 384676008309 dimerization interface [polypeptide binding]; other site 384676008310 SurA N-terminal domain; Region: SurA_N_3; cl07813 384676008311 Cytochrome c; Region: Cytochrom_C; pfam00034 384676008312 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 384676008313 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 384676008314 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 384676008315 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 384676008316 Cu(I) binding site [ion binding]; other site 384676008317 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 384676008318 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 384676008319 Cu(I) binding site [ion binding]; other site 384676008320 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 384676008321 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 384676008322 structural tetrad; other site 384676008323 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676008324 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 384676008325 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 384676008326 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 384676008327 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676008328 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676008329 metal binding site [ion binding]; metal-binding site 384676008330 active site 384676008331 I-site; other site 384676008332 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 384676008333 Transposase, Mutator family; Region: Transposase_mut; pfam00872 384676008334 MULE transposase domain; Region: MULE; pfam10551 384676008335 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008336 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008337 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 384676008338 dimerization interface [polypeptide binding]; other site 384676008339 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 384676008340 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 384676008341 NAD(P) binding site [chemical binding]; other site 384676008342 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 384676008343 Autoinducer binding domain; Region: Autoind_bind; pfam03472 384676008344 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 384676008345 DNA binding residues [nucleotide binding] 384676008346 dimerization interface [polypeptide binding]; other site 384676008347 chaperone protein HchA; Provisional; Region: PRK04155 384676008348 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 384676008349 conserved cys residue [active] 384676008350 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 384676008351 Ligand binding site; other site 384676008352 metal-binding site 384676008353 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 384676008354 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 384676008355 XdhC Rossmann domain; Region: XdhC_C; pfam13478 384676008356 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676008357 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676008358 Cytochrome c; Region: Cytochrom_C; pfam00034 384676008359 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 384676008360 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 384676008361 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 384676008362 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 384676008363 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676008364 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 384676008365 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 384676008366 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676008367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676008368 metal binding site [ion binding]; metal-binding site 384676008369 active site 384676008370 I-site; other site 384676008371 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 384676008372 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 384676008373 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 384676008374 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 384676008375 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 384676008376 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 384676008377 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 384676008378 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676008379 putative substrate translocation pore; other site 384676008380 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 384676008381 homodimer interface [polypeptide binding]; other site 384676008382 homotetramer interface [polypeptide binding]; other site 384676008383 active site pocket [active] 384676008384 cleavage site 384676008385 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676008386 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676008387 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 384676008388 DNA binding residues [nucleotide binding] 384676008389 dimerization interface [polypeptide binding]; other site 384676008390 putative aminotransferase; Provisional; Region: PRK12403 384676008391 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 384676008392 inhibitor-cofactor binding pocket; inhibition site 384676008393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676008394 catalytic residue [active] 384676008395 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676008396 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 384676008397 NAD(P) binding site [chemical binding]; other site 384676008398 catalytic residues [active] 384676008399 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676008400 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 384676008401 DNA binding residues [nucleotide binding] 384676008402 dimerization interface [polypeptide binding]; other site 384676008403 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 384676008404 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 384676008405 substrate binding site [chemical binding]; other site 384676008406 oxyanion hole (OAH) forming residues; other site 384676008407 trimer interface [polypeptide binding]; other site 384676008408 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 384676008409 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676008410 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676008411 active site 384676008412 universal stress protein UspE; Provisional; Region: PRK11175 384676008413 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 384676008414 Ligand Binding Site [chemical binding]; other site 384676008415 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 384676008416 Ligand Binding Site [chemical binding]; other site 384676008417 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 384676008418 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 384676008419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008421 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 384676008422 putative dimerization interface [polypeptide binding]; other site 384676008423 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 384676008424 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 384676008425 NAD(P) binding site [chemical binding]; other site 384676008426 catalytic residues [active] 384676008427 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 384676008428 oligomerization interface [polypeptide binding]; other site 384676008429 active site 384676008430 metal binding site [ion binding]; metal-binding site 384676008431 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 384676008432 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 384676008433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676008434 homodimer interface [polypeptide binding]; other site 384676008435 catalytic residue [active] 384676008436 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676008437 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676008438 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676008439 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676008440 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676008441 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676008442 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676008443 Predicted transcriptional regulator [Transcription]; Region: COG2944 384676008444 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 384676008445 non-specific DNA binding site [nucleotide binding]; other site 384676008446 salt bridge; other site 384676008447 sequence-specific DNA binding site [nucleotide binding]; other site 384676008448 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 384676008449 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 384676008450 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 384676008451 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 384676008452 Membrane transport protein; Region: Mem_trans; cl09117 384676008453 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 384676008454 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 384676008455 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 384676008456 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 384676008457 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 384676008458 conserved cys residue [active] 384676008459 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676008460 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008461 LysE type translocator; Region: LysE; cl00565 384676008462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008464 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 384676008465 putative effector binding pocket; other site 384676008466 dimerization interface [polypeptide binding]; other site 384676008467 Cupin domain; Region: Cupin_2; cl17218 384676008468 multidrug efflux protein; Reviewed; Region: PRK01766 384676008469 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 384676008470 cation binding site [ion binding]; other site 384676008471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676008472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676008473 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 384676008474 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 384676008475 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 384676008476 Trp docking motif [polypeptide binding]; other site 384676008477 putative active site [active] 384676008478 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676008479 Methyltransferase domain; Region: Methyltransf_31; pfam13847 384676008480 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676008481 S-adenosylmethionine binding site [chemical binding]; other site 384676008482 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676008483 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676008484 S-adenosylmethionine binding site [chemical binding]; other site 384676008485 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 384676008486 hypothetical protein; Provisional; Region: PRK11171 384676008487 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 384676008488 Cupin domain; Region: Cupin_2; pfam07883 384676008489 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 384676008490 putative lipid binding site [chemical binding]; other site 384676008491 major facilitator superfamily transporter; Provisional; Region: PRK05122 384676008492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676008493 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 384676008494 azoreductase; Reviewed; Region: PRK00170 384676008495 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676008496 LysR family transcriptional regulator; Provisional; Region: PRK14997 384676008497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008498 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 384676008499 putative effector binding pocket; other site 384676008500 putative dimerization interface [polypeptide binding]; other site 384676008501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 384676008502 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 384676008503 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 384676008504 Cache domain; Region: Cache_2; pfam08269 384676008505 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 384676008506 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 384676008507 dimerization interface [polypeptide binding]; other site 384676008508 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676008509 dimer interface [polypeptide binding]; other site 384676008510 putative CheW interface [polypeptide binding]; other site 384676008511 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 384676008512 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 384676008513 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 384676008514 AAA domain; Region: AAA_28; pfam13521 384676008515 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 384676008516 putative active site [active] 384676008517 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 384676008518 Sulfatase; Region: Sulfatase; pfam00884 384676008519 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 384676008520 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 384676008521 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 384676008522 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 384676008523 Protein of unknown function (DUF563); Region: DUF563; pfam04577 384676008524 CHASE domain; Region: CHASE; cl01369 384676008525 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676008526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676008527 metal binding site [ion binding]; metal-binding site 384676008528 active site 384676008529 I-site; other site 384676008530 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 384676008531 Leucine rich repeat; Region: LRR_8; pfam13855 384676008532 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 384676008533 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676008534 tetrameric interface [polypeptide binding]; other site 384676008535 activator binding site; other site 384676008536 NADP binding site [chemical binding]; other site 384676008537 substrate binding site [chemical binding]; other site 384676008538 catalytic residues [active] 384676008539 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 384676008540 putative dimer interface [polypeptide binding]; other site 384676008541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676008542 putative alcohol dehydrogenase; Provisional; Region: PRK09860 384676008543 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 384676008544 dimer interface [polypeptide binding]; other site 384676008545 active site 384676008546 metal binding site [ion binding]; metal-binding site 384676008547 threonine dehydratase; Reviewed; Region: PRK12483 384676008548 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 384676008549 tetramer interface [polypeptide binding]; other site 384676008550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676008551 catalytic residue [active] 384676008552 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 384676008553 putative Ile/Val binding site [chemical binding]; other site 384676008554 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 384676008555 putative Ile/Val binding site [chemical binding]; other site 384676008556 Predicted membrane protein [Function unknown]; Region: COG4125 384676008557 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 384676008558 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 384676008559 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 384676008560 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 384676008561 active site 384676008562 homodimer interface [polypeptide binding]; other site 384676008563 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 384676008564 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 384676008565 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 384676008566 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 384676008567 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 384676008568 hypothetical protein; Provisional; Region: PRK09936 384676008569 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676008570 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676008571 metal binding site [ion binding]; metal-binding site 384676008572 active site 384676008573 I-site; other site 384676008574 sensor protein RstB; Provisional; Region: PRK10604 384676008575 HAMP domain; Region: HAMP; pfam00672 384676008576 dimerization interface [polypeptide binding]; other site 384676008577 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 384676008578 dimer interface [polypeptide binding]; other site 384676008579 phosphorylation site [posttranslational modification] 384676008580 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008581 ATP binding site [chemical binding]; other site 384676008582 Mg2+ binding site [ion binding]; other site 384676008583 G-X-G motif; other site 384676008584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676008585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008586 active site 384676008587 phosphorylation site [posttranslational modification] 384676008588 intermolecular recognition site; other site 384676008589 dimerization interface [polypeptide binding]; other site 384676008590 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 384676008591 DNA binding site [nucleotide binding] 384676008592 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 384676008593 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 384676008594 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676008595 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 384676008596 Protein export membrane protein; Region: SecD_SecF; cl14618 384676008597 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 384676008598 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 384676008599 GTP binding site; other site 384676008600 acyl-CoA synthetase; Provisional; Region: PRK12583 384676008601 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676008602 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 384676008603 acyl-activating enzyme (AAE) consensus motif; other site 384676008604 putative AMP binding site [chemical binding]; other site 384676008605 putative active site [active] 384676008606 putative CoA binding site [chemical binding]; other site 384676008607 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 384676008608 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 384676008609 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 384676008610 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 384676008611 FeS/SAM binding site; other site 384676008612 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 384676008613 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 384676008614 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 384676008615 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 384676008616 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 384676008617 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 384676008618 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676008619 NAD(P) binding site [chemical binding]; other site 384676008620 catalytic residues [active] 384676008621 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 384676008622 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676008623 substrate binding pocket [chemical binding]; other site 384676008624 membrane-bound complex binding site; other site 384676008625 hinge residues; other site 384676008626 Serine hydrolase; Region: Ser_hydrolase; cl17834 384676008627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676008628 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 384676008629 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 384676008630 DNA binding residues [nucleotide binding] 384676008631 putative dimer interface [polypeptide binding]; other site 384676008632 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 384676008633 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 384676008634 active site 384676008635 catalytic residues [active] 384676008636 metal binding site [ion binding]; metal-binding site 384676008637 MgtC family; Region: MgtC; pfam02308 384676008638 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 384676008639 4Fe-4S binding domain; Region: Fer4_5; pfam12801 384676008640 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 384676008641 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 384676008642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676008643 DNA-binding site [nucleotide binding]; DNA binding site 384676008644 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 384676008645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676008646 homodimer interface [polypeptide binding]; other site 384676008647 catalytic residue [active] 384676008648 PAS fold; Region: PAS_4; pfam08448 384676008649 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 384676008650 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008651 ATP binding site [chemical binding]; other site 384676008652 Mg2+ binding site [ion binding]; other site 384676008653 G-X-G motif; other site 384676008654 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676008655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008656 active site 384676008657 phosphorylation site [posttranslational modification] 384676008658 intermolecular recognition site; other site 384676008659 dimerization interface [polypeptide binding]; other site 384676008660 short chain dehydrogenase; Provisional; Region: PRK06123 384676008661 classical (c) SDRs; Region: SDR_c; cd05233 384676008662 NAD(P) binding site [chemical binding]; other site 384676008663 active site 384676008664 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676008665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676008666 putative substrate translocation pore; other site 384676008667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676008668 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 384676008669 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676008670 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676008671 MarR family; Region: MarR_2; cl17246 384676008672 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 384676008673 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676008674 FecR protein; Region: FecR; pfam04773 384676008675 Predicted permease [General function prediction only]; Region: COG2056 384676008676 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 384676008677 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 384676008678 dimerization interface [polypeptide binding]; other site 384676008679 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676008680 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676008681 dimer interface [polypeptide binding]; other site 384676008682 putative CheW interface [polypeptide binding]; other site 384676008683 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 384676008684 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 384676008685 active site 384676008686 Int/Topo IB signature motif; other site 384676008687 DNA binding site [nucleotide binding] 384676008688 NnrS protein; Region: NnrS; pfam05940 384676008689 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 384676008690 aspartate aminotransferase; Provisional; Region: PRK05764 384676008691 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 384676008692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676008693 homodimer interface [polypeptide binding]; other site 384676008694 catalytic residue [active] 384676008695 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 384676008696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676008697 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 384676008698 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676008699 putative substrate translocation pore; other site 384676008700 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676008701 Choline/Carnitine o-acyltransferase; Region: Carn_acyltransf; pfam00755 384676008702 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 384676008703 Pirin-related protein [General function prediction only]; Region: COG1741 384676008704 Pirin; Region: Pirin; pfam02678 384676008705 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676008706 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008707 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676008708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008709 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 384676008710 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 384676008711 active site 384676008712 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676008713 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 384676008714 DNA binding residues [nucleotide binding] 384676008715 dimerization interface [polypeptide binding]; other site 384676008716 haloacid dehalogenase-like hydrolase family protein; Region: PLN02770 384676008717 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 384676008718 motif II; other site 384676008719 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 384676008720 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 384676008721 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 384676008722 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 384676008723 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 384676008724 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676008725 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 384676008726 putative C-terminal domain interface [polypeptide binding]; other site 384676008727 putative GSH binding site (G-site) [chemical binding]; other site 384676008728 putative dimer interface [polypeptide binding]; other site 384676008729 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 384676008730 N-terminal domain interface [polypeptide binding]; other site 384676008731 dimer interface [polypeptide binding]; other site 384676008732 substrate binding pocket (H-site) [chemical binding]; other site 384676008733 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 384676008734 heme-binding site [chemical binding]; other site 384676008735 Uncharacterized conserved protein [Function unknown]; Region: COG0393 384676008736 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 384676008737 EamA-like transporter family; Region: EamA; pfam00892 384676008738 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 384676008739 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676008740 Na binding site [ion binding]; other site 384676008741 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 384676008742 catalytic triad [active] 384676008743 putative active site [active] 384676008744 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676008745 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 384676008746 Autotransporter beta-domain; Region: Autotransporter; pfam03797 384676008747 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 384676008748 catalytic triad [active] 384676008749 putative active site [active] 384676008750 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 384676008751 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 384676008752 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 384676008753 Autotransporter beta-domain; Region: Autotransporter; smart00869 384676008754 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 384676008755 Chromate transporter; Region: Chromate_transp; pfam02417 384676008756 PBP superfamily domain; Region: PBP_like_2; cl17296 384676008757 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676008758 ligand binding site [chemical binding]; other site 384676008759 HAMP domain; Region: HAMP; pfam00672 384676008760 dimerization interface [polypeptide binding]; other site 384676008761 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 384676008762 dimer interface [polypeptide binding]; other site 384676008763 phosphorylation site [posttranslational modification] 384676008764 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008765 ATP binding site [chemical binding]; other site 384676008766 Mg2+ binding site [ion binding]; other site 384676008767 G-X-G motif; other site 384676008768 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676008769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008770 active site 384676008771 phosphorylation site [posttranslational modification] 384676008772 intermolecular recognition site; other site 384676008773 dimerization interface [polypeptide binding]; other site 384676008774 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 384676008775 DNA binding site [nucleotide binding] 384676008776 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 384676008777 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 384676008778 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 384676008779 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK12485 384676008780 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 384676008781 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 384676008782 dimerization interface [polypeptide binding]; other site 384676008783 active site 384676008784 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 384676008785 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 384676008786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676008787 dimer interface [polypeptide binding]; other site 384676008788 conserved gate region; other site 384676008789 putative PBP binding loops; other site 384676008790 ABC-ATPase subunit interface; other site 384676008791 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676008792 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676008793 dimer interface [polypeptide binding]; other site 384676008794 conserved gate region; other site 384676008795 putative PBP binding loops; other site 384676008796 ABC-ATPase subunit interface; other site 384676008797 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 384676008798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676008799 Walker A/P-loop; other site 384676008800 ATP binding site [chemical binding]; other site 384676008801 Q-loop/lid; other site 384676008802 ABC transporter signature motif; other site 384676008803 Walker B; other site 384676008804 D-loop; other site 384676008805 H-loop/switch region; other site 384676008806 TOBE domain; Region: TOBE_2; pfam08402 384676008807 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 384676008808 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 384676008809 Walker A/P-loop; other site 384676008810 ATP binding site [chemical binding]; other site 384676008811 Q-loop/lid; other site 384676008812 ABC transporter signature motif; other site 384676008813 Walker B; other site 384676008814 D-loop; other site 384676008815 H-loop/switch region; other site 384676008816 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 384676008817 FtsX-like permease family; Region: FtsX; pfam02687 384676008818 macrolide transporter subunit MacA; Provisional; Region: PRK11578 384676008819 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676008820 Condensation domain; Region: Condensation; pfam00668 384676008821 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 384676008822 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008823 acyl-activating enzyme (AAE) consensus motif; other site 384676008824 AMP binding site [chemical binding]; other site 384676008825 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008826 Condensation domain; Region: Condensation; pfam00668 384676008827 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676008828 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676008829 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008830 acyl-activating enzyme (AAE) consensus motif; other site 384676008831 AMP binding site [chemical binding]; other site 384676008832 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008833 Condensation domain; Region: Condensation; pfam00668 384676008834 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676008835 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676008836 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008837 acyl-activating enzyme (AAE) consensus motif; other site 384676008838 AMP binding site [chemical binding]; other site 384676008839 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008840 Condensation domain; Region: Condensation; pfam00668 384676008841 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 384676008842 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008843 acyl-activating enzyme (AAE) consensus motif; other site 384676008844 AMP binding site [chemical binding]; other site 384676008845 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008846 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 384676008847 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 384676008848 Condensation domain; Region: Condensation; pfam00668 384676008849 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008850 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008851 acyl-activating enzyme (AAE) consensus motif; other site 384676008852 AMP binding site [chemical binding]; other site 384676008853 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008854 Condensation domain; Region: Condensation; pfam00668 384676008855 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 384676008856 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008857 acyl-activating enzyme (AAE) consensus motif; other site 384676008858 AMP binding site [chemical binding]; other site 384676008859 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008860 Condensation domain; Region: Condensation; pfam00668 384676008861 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008862 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008863 acyl-activating enzyme (AAE) consensus motif; other site 384676008864 AMP binding site [chemical binding]; other site 384676008865 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008866 Condensation domain; Region: Condensation; pfam00668 384676008867 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008868 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008869 acyl-activating enzyme (AAE) consensus motif; other site 384676008870 AMP binding site [chemical binding]; other site 384676008871 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008872 Condensation domain; Region: Condensation; pfam00668 384676008873 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 384676008874 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008875 acyl-activating enzyme (AAE) consensus motif; other site 384676008876 AMP binding site [chemical binding]; other site 384676008877 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008878 Condensation domain; Region: Condensation; pfam00668 384676008879 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008880 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008881 acyl-activating enzyme (AAE) consensus motif; other site 384676008882 AMP binding site [chemical binding]; other site 384676008883 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008884 Condensation domain; Region: Condensation; pfam00668 384676008885 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008886 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008887 acyl-activating enzyme (AAE) consensus motif; other site 384676008888 AMP binding site [chemical binding]; other site 384676008889 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008890 Condensation domain; Region: Condensation; pfam00668 384676008891 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676008892 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676008893 acyl-activating enzyme (AAE) consensus motif; other site 384676008894 AMP binding site [chemical binding]; other site 384676008895 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676008896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008898 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 384676008899 dimerization interface [polypeptide binding]; other site 384676008900 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 384676008901 active site 384676008902 nucleophile elbow; other site 384676008903 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 384676008904 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676008905 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 384676008906 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 384676008907 Cupin domain; Region: Cupin_2; cl17218 384676008908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676008909 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 384676008910 TPR motif; other site 384676008911 binding surface 384676008912 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 384676008913 binding surface 384676008914 TPR motif; other site 384676008915 PAS domain; Region: PAS_9; pfam13426 384676008916 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676008917 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 384676008918 putative active site [active] 384676008919 heme pocket [chemical binding]; other site 384676008920 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008921 ATP binding site [chemical binding]; other site 384676008922 Mg2+ binding site [ion binding]; other site 384676008923 G-X-G motif; other site 384676008924 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676008925 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008926 active site 384676008927 phosphorylation site [posttranslational modification] 384676008928 intermolecular recognition site; other site 384676008929 dimerization interface [polypeptide binding]; other site 384676008930 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 384676008931 nucleoside/Zn binding site; other site 384676008932 dimer interface [polypeptide binding]; other site 384676008933 catalytic motif [active] 384676008934 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 384676008935 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 384676008936 potential catalytic triad [active] 384676008937 conserved cys residue [active] 384676008938 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 384676008939 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 384676008940 dimer interface [polypeptide binding]; other site 384676008941 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 384676008942 active site 384676008943 Fe binding site [ion binding]; other site 384676008944 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 384676008945 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 384676008946 Predicted permeases [General function prediction only]; Region: RarD; COG2962 384676008947 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 384676008948 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 384676008949 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 384676008950 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 384676008951 Transporter associated domain; Region: CorC_HlyC; smart01091 384676008952 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 384676008953 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 384676008954 Peptidase family U32; Region: Peptidase_U32; pfam01136 384676008955 Collagenase; Region: DUF3656; pfam12392 384676008956 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676008957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676008958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676008959 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 384676008960 putative effector binding pocket; other site 384676008961 dimerization interface [polypeptide binding]; other site 384676008962 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 384676008963 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 384676008964 Predicted transcriptional regulators [Transcription]; Region: COG1733 384676008965 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 384676008966 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 384676008967 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 384676008968 Walker A/P-loop; other site 384676008969 ATP binding site [chemical binding]; other site 384676008970 Q-loop/lid; other site 384676008971 ABC transporter signature motif; other site 384676008972 Walker B; other site 384676008973 D-loop; other site 384676008974 H-loop/switch region; other site 384676008975 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 384676008976 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 384676008977 putative ligand binding residues [chemical binding]; other site 384676008978 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 384676008979 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 384676008980 dimer interface [polypeptide binding]; other site 384676008981 putative PBP binding regions; other site 384676008982 ABC-ATPase subunit interface; other site 384676008983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676008984 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 384676008985 dimer interface [polypeptide binding]; other site 384676008986 phosphorylation site [posttranslational modification] 384676008987 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676008988 ATP binding site [chemical binding]; other site 384676008989 Mg2+ binding site [ion binding]; other site 384676008990 G-X-G motif; other site 384676008991 Response regulator receiver domain; Region: Response_reg; pfam00072 384676008992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008993 active site 384676008994 phosphorylation site [posttranslational modification] 384676008995 intermolecular recognition site; other site 384676008996 dimerization interface [polypeptide binding]; other site 384676008997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676008998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676008999 active site 384676009000 phosphorylation site [posttranslational modification] 384676009001 intermolecular recognition site; other site 384676009002 dimerization interface [polypeptide binding]; other site 384676009003 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 384676009004 DNA binding residues [nucleotide binding] 384676009005 dimerization interface [polypeptide binding]; other site 384676009006 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676009007 RHS Repeat; Region: RHS_repeat; cl11982 384676009008 RHS Repeat; Region: RHS_repeat; cl11982 384676009009 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676009010 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676009011 RHS Repeat; Region: RHS_repeat; pfam05593 384676009012 RHS Repeat; Region: RHS_repeat; pfam05593 384676009013 RHS protein; Region: RHS; pfam03527 384676009014 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676009015 Colicin D; Region: Colicin_D; pfam11429 384676009016 Bacterial self-protective colicin-like immunity; Region: Colicin_immun; pfam09204 384676009017 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676009018 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 384676009019 active site 384676009020 Low affinity iron permease; Region: Iron_permease; pfam04120 384676009021 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 384676009022 putative catalytic site [active] 384676009023 putative metal binding site [ion binding]; other site 384676009024 putative phosphate binding site [ion binding]; other site 384676009025 cardiolipin synthase 2; Provisional; Region: PRK11263 384676009026 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 384676009027 putative active site [active] 384676009028 catalytic site [active] 384676009029 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 384676009030 putative active site [active] 384676009031 catalytic site [active] 384676009032 Predicted integral membrane protein [Function unknown]; Region: COG0392 384676009033 carboxylate-amine ligase; Provisional; Region: PRK13515 384676009034 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 384676009035 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 384676009036 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676009037 S-adenosylmethionine binding site [chemical binding]; other site 384676009038 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 384676009039 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 384676009040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676009041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676009042 MarR family; Region: MarR_2; cl17246 384676009043 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 384676009044 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 384676009045 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676009046 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009047 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 384676009048 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 384676009049 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 384676009050 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 384676009051 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 384676009052 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 384676009053 NAD binding site [chemical binding]; other site 384676009054 catalytic residues [active] 384676009055 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 384676009056 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 384676009057 putative active site [active] 384676009058 putative metal binding site [ion binding]; other site 384676009059 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 384676009060 putative substrate binding pocket [chemical binding]; other site 384676009061 trimer interface [polypeptide binding]; other site 384676009062 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 384676009063 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 384676009064 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676009065 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676009066 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 384676009067 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 384676009068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009069 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 384676009070 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676009071 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 384676009072 Transcriptional regulators [Transcription]; Region: MarR; COG1846 384676009073 HemN C-terminal domain; Region: HemN_C; pfam06969 384676009074 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 384676009075 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676009076 Flavin binding site [chemical binding]; other site 384676009077 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 384676009078 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 384676009079 NAD(P) binding site [chemical binding]; other site 384676009080 catalytic residues [active] 384676009081 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676009082 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 384676009083 DNA binding residues [nucleotide binding] 384676009084 dimerization interface [polypeptide binding]; other site 384676009085 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 384676009086 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 384676009087 classical (c) SDRs; Region: SDR_c; cd05233 384676009088 NAD(P) binding site [chemical binding]; other site 384676009089 active site 384676009090 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 384676009091 classical (c) SDRs; Region: SDR_c; cd05233 384676009092 NAD(P) binding site [chemical binding]; other site 384676009093 active site 384676009094 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 384676009095 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 384676009096 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 384676009097 Sodium Bile acid symporter family; Region: SBF; cl17470 384676009098 beta-carotene hydroxylase; Region: PLN02601 384676009099 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676009100 magnesium transport protein MgtC; Provisional; Region: PRK15385 384676009101 MgtC family; Region: MgtC; pfam02308 384676009102 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 384676009103 dihydroorotase; Reviewed; Region: PRK09236 384676009104 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 384676009105 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 384676009106 active site 384676009107 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 384676009108 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 384676009109 trimer interface [polypeptide binding]; other site 384676009110 active site 384676009111 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 384676009112 Cache domain; Region: Cache_1; pfam02743 384676009113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676009114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676009115 metal binding site [ion binding]; metal-binding site 384676009116 active site 384676009117 I-site; other site 384676009118 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 384676009119 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 384676009120 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676009121 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676009122 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676009123 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 384676009124 iron-sulfur cluster [ion binding]; other site 384676009125 [2Fe-2S] cluster binding site [ion binding]; other site 384676009126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 384676009127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676009128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676009129 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 384676009130 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 384676009131 active site 384676009132 catalytic tetrad [active] 384676009133 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676009134 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 384676009135 FMN binding site [chemical binding]; other site 384676009136 active site 384676009137 substrate binding site [chemical binding]; other site 384676009138 catalytic residue [active] 384676009139 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009141 LysR family transcriptional regulator; Provisional; Region: PRK14997 384676009142 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 384676009143 putative effector binding pocket; other site 384676009144 dimerization interface [polypeptide binding]; other site 384676009145 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 384676009146 outer membrane porin, OprD family; Region: OprD; pfam03573 384676009147 benzoate transporter; Region: benE; TIGR00843 384676009148 Benzoate membrane transport protein; Region: BenE; pfam03594 384676009149 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 384676009150 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 384676009151 dimer interface [polypeptide binding]; other site 384676009152 active site 384676009153 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 384676009154 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 384676009155 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 384676009156 octamer interface [polypeptide binding]; other site 384676009157 active site 384676009158 benzoate transport; Region: 2A0115; TIGR00895 384676009159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009160 putative substrate translocation pore; other site 384676009161 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 384676009162 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 384676009163 putative NAD(P) binding site [chemical binding]; other site 384676009164 active site 384676009165 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 384676009166 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 384676009167 catalytic loop [active] 384676009168 iron binding site [ion binding]; other site 384676009169 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 384676009170 FAD binding pocket [chemical binding]; other site 384676009171 FAD binding motif [chemical binding]; other site 384676009172 phosphate binding motif [ion binding]; other site 384676009173 beta-alpha-beta structure motif; other site 384676009174 NAD binding pocket [chemical binding]; other site 384676009175 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 384676009176 inter-subunit interface; other site 384676009177 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 384676009178 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 384676009179 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 384676009180 putative alpha subunit interface [polypeptide binding]; other site 384676009181 putative active site [active] 384676009182 putative substrate binding site [chemical binding]; other site 384676009183 Fe binding site [ion binding]; other site 384676009184 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 384676009185 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 384676009186 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 384676009187 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 384676009188 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 384676009189 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 384676009190 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 384676009191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676009192 dimer interface [polypeptide binding]; other site 384676009193 conserved gate region; other site 384676009194 putative PBP binding loops; other site 384676009195 ABC-ATPase subunit interface; other site 384676009196 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 384676009197 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676009198 dimer interface [polypeptide binding]; other site 384676009199 conserved gate region; other site 384676009200 putative PBP binding loops; other site 384676009201 ABC-ATPase subunit interface; other site 384676009202 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 384676009203 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676009204 Walker B motif; other site 384676009205 arginine finger; other site 384676009206 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676009207 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 384676009208 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 384676009209 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 384676009210 NAD binding site [chemical binding]; other site 384676009211 homotetramer interface [polypeptide binding]; other site 384676009212 homodimer interface [polypeptide binding]; other site 384676009213 substrate binding site [chemical binding]; other site 384676009214 active site 384676009215 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 384676009216 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 384676009217 acyl-activating enzyme (AAE) consensus motif; other site 384676009218 putative AMP binding site [chemical binding]; other site 384676009219 putative active site [active] 384676009220 putative CoA binding site [chemical binding]; other site 384676009221 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 384676009222 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 384676009223 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 384676009224 Autotransporter beta-domain; Region: Autotransporter; smart00869 384676009225 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009226 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676009227 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676009228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009229 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009230 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 384676009231 active site 384676009232 metal binding site [ion binding]; metal-binding site 384676009233 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 384676009234 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 384676009235 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 384676009236 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 384676009237 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 384676009238 DNA binding site [nucleotide binding] 384676009239 active site 384676009240 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 384676009241 META domain; Region: META; pfam03724 384676009242 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 384676009243 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 384676009244 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676009245 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676009246 Walker A/P-loop; other site 384676009247 ATP binding site [chemical binding]; other site 384676009248 ABC transporter signature motif; other site 384676009249 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676009250 Walker B; other site 384676009251 ABC transporter; Region: ABC_tran_2; pfam12848 384676009252 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676009253 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 384676009254 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 384676009255 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 384676009256 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 384676009257 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 384676009258 Cache domain; Region: Cache_1; pfam02743 384676009259 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676009260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676009261 metal binding site [ion binding]; metal-binding site 384676009262 active site 384676009263 I-site; other site 384676009264 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 384676009265 FAD binding domain; Region: FAD_binding_4; pfam01565 384676009266 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 384676009267 FAD binding domain; Region: FAD_binding_4; pfam01565 384676009268 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 384676009269 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 384676009270 Cysteine-rich domain; Region: CCG; pfam02754 384676009271 Cysteine-rich domain; Region: CCG; pfam02754 384676009272 Domain of unknown function (DUF336); Region: DUF336; cl01249 384676009273 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 384676009274 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 384676009275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676009276 DNA-binding site [nucleotide binding]; DNA binding site 384676009277 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 384676009278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676009279 homodimer interface [polypeptide binding]; other site 384676009280 catalytic residue [active] 384676009281 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 384676009282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009283 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 384676009284 nucleoside/Zn binding site; other site 384676009285 dimer interface [polypeptide binding]; other site 384676009286 catalytic motif [active] 384676009287 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 384676009288 Uncharacterized conserved protein [Function unknown]; Region: COG2128 384676009289 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676009290 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676009291 SurA N-terminal domain; Region: SurA_N; pfam09312 384676009292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009293 beta-ketothiolase; Provisional; Region: PRK09051 384676009294 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 384676009295 dimer interface [polypeptide binding]; other site 384676009296 active site 384676009297 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 384676009298 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 384676009299 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 384676009300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676009301 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676009302 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009304 active site 384676009305 phosphorylation site [posttranslational modification] 384676009306 intermolecular recognition site; other site 384676009307 dimerization interface [polypeptide binding]; other site 384676009308 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009310 active site 384676009311 phosphorylation site [posttranslational modification] 384676009312 intermolecular recognition site; other site 384676009313 dimerization interface [polypeptide binding]; other site 384676009314 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676009315 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 384676009316 dimer interface [polypeptide binding]; other site 384676009317 phosphorylation site [posttranslational modification] 384676009318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676009319 ATP binding site [chemical binding]; other site 384676009320 Mg2+ binding site [ion binding]; other site 384676009321 G-X-G motif; other site 384676009322 CheB methylesterase; Region: CheB_methylest; pfam01339 384676009323 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 384676009324 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 384676009325 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 384676009326 CHASE3 domain; Region: CHASE3; pfam05227 384676009327 GAF domain; Region: GAF; cl17456 384676009328 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 384676009329 dimer interface [polypeptide binding]; other site 384676009330 phosphorylation site [posttranslational modification] 384676009331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676009332 ATP binding site [chemical binding]; other site 384676009333 Mg2+ binding site [ion binding]; other site 384676009334 G-X-G motif; other site 384676009335 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009337 active site 384676009338 phosphorylation site [posttranslational modification] 384676009339 intermolecular recognition site; other site 384676009340 dimerization interface [polypeptide binding]; other site 384676009341 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009343 active site 384676009344 phosphorylation site [posttranslational modification] 384676009345 intermolecular recognition site; other site 384676009346 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009348 active site 384676009349 phosphorylation site [posttranslational modification] 384676009350 intermolecular recognition site; other site 384676009351 dimerization interface [polypeptide binding]; other site 384676009352 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009354 active site 384676009355 phosphorylation site [posttranslational modification] 384676009356 intermolecular recognition site; other site 384676009357 dimerization interface [polypeptide binding]; other site 384676009358 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 384676009359 active site 384676009360 SAM binding site [chemical binding]; other site 384676009361 homodimer interface [polypeptide binding]; other site 384676009362 outer membrane porin, OprD family; Region: OprD; pfam03573 384676009363 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 384676009364 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676009365 dimer interface [polypeptide binding]; other site 384676009366 active site 384676009367 metal binding site [ion binding]; metal-binding site 384676009368 glutathione binding site [chemical binding]; other site 384676009369 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 384676009370 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 384676009371 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 384676009372 shikimate binding site; other site 384676009373 NAD(P) binding site [chemical binding]; other site 384676009374 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676009375 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 384676009376 Coenzyme A binding pocket [chemical binding]; other site 384676009377 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 384676009378 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 384676009379 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 384676009380 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 384676009381 active site 384676009382 dimer interface [polypeptide binding]; other site 384676009383 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 384676009384 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 384676009385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676009386 catalytic residue [active] 384676009387 Uncharacterized conserved protein [Function unknown]; Region: COG1262 384676009388 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 384676009389 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 384676009390 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 384676009391 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 384676009392 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676009393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676009394 Walker A/P-loop; other site 384676009395 ATP binding site [chemical binding]; other site 384676009396 Q-loop/lid; other site 384676009397 ABC transporter signature motif; other site 384676009398 Walker B; other site 384676009399 D-loop; other site 384676009400 H-loop/switch region; other site 384676009401 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676009402 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 384676009403 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 384676009404 N-terminal plug; other site 384676009405 ligand-binding site [chemical binding]; other site 384676009406 Transposase IS200 like; Region: Y1_Tnp; pfam01797 384676009407 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 384676009408 peptide synthase; Provisional; Region: PRK12467 384676009409 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009410 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009411 acyl-activating enzyme (AAE) consensus motif; other site 384676009412 AMP binding site [chemical binding]; other site 384676009413 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009414 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009415 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009416 acyl-activating enzyme (AAE) consensus motif; other site 384676009417 AMP binding site [chemical binding]; other site 384676009418 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009419 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 384676009420 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009421 acyl-activating enzyme (AAE) consensus motif; other site 384676009422 AMP binding site [chemical binding]; other site 384676009423 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009424 Condensation domain; Region: Condensation; pfam00668 384676009425 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009426 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009427 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 384676009428 acyl-activating enzyme (AAE) consensus motif; other site 384676009429 AMP binding site [chemical binding]; other site 384676009430 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009431 Condensation domain; Region: Condensation; pfam00668 384676009432 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009433 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009434 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009435 acyl-activating enzyme (AAE) consensus motif; other site 384676009436 AMP binding site [chemical binding]; other site 384676009437 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009438 Condensation domain; Region: Condensation; pfam00668 384676009439 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009440 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009441 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009442 acyl-activating enzyme (AAE) consensus motif; other site 384676009443 AMP binding site [chemical binding]; other site 384676009444 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009445 Condensation domain; Region: Condensation; pfam00668 384676009446 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009447 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 384676009448 Condensation domain; Region: Condensation; pfam00668 384676009449 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009450 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 384676009451 acyl-activating enzyme (AAE) consensus motif; other site 384676009452 AMP binding site [chemical binding]; other site 384676009453 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009454 Condensation domain; Region: Condensation; pfam00668 384676009455 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009456 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676009457 acyl-activating enzyme (AAE) consensus motif; other site 384676009458 AMP binding site [chemical binding]; other site 384676009459 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009460 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 384676009461 Condensation domain; Region: Condensation; pfam00668 384676009462 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009463 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009464 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Saframycin A gene cluster from Streptomyces lavendulae; Region: A_NRPS_Sfm_like; cd12115 384676009465 acyl-activating enzyme (AAE) consensus motif; other site 384676009466 AMP binding site [chemical binding]; other site 384676009467 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009468 Condensation domain; Region: Condensation; pfam00668 384676009469 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009470 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 384676009471 Condensation domain; Region: Condensation; pfam00668 384676009472 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009473 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009474 acyl-activating enzyme (AAE) consensus motif; other site 384676009475 AMP binding site [chemical binding]; other site 384676009476 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009477 Condensation domain; Region: Condensation; pfam00668 384676009478 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 384676009479 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 384676009480 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 384676009481 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 384676009482 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 384676009483 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676009484 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 384676009485 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 384676009486 intersubunit interface [polypeptide binding]; other site 384676009487 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 384676009488 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 384676009489 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 384676009490 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; cl00462 384676009491 ABC-ATPase subunit interface; other site 384676009492 dimer interface [polypeptide binding]; other site 384676009493 putative PBP binding regions; other site 384676009494 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 384676009495 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 384676009496 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009497 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009498 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 384676009499 putative substrate binding pocket [chemical binding]; other site 384676009500 putative dimerization interface [polypeptide binding]; other site 384676009501 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 384676009502 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676009503 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 384676009504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676009505 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 384676009506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009508 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 384676009509 putative effector binding pocket; other site 384676009510 dimerization interface [polypeptide binding]; other site 384676009511 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676009512 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009513 putative substrate translocation pore; other site 384676009514 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 384676009515 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 384676009516 acyl-CoA binding pocket [chemical binding]; other site 384676009517 CoA binding site [chemical binding]; other site 384676009518 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 384676009519 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 384676009520 homodimer interface [polypeptide binding]; other site 384676009521 active site 384676009522 FMN binding site [chemical binding]; other site 384676009523 substrate binding site [chemical binding]; other site 384676009524 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 384676009525 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 384676009526 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 384676009527 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676009528 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676009529 phenylhydantoinase; Validated; Region: PRK08323 384676009530 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 384676009531 tetramer interface [polypeptide binding]; other site 384676009532 active site 384676009533 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 384676009534 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676009535 Na binding site [ion binding]; other site 384676009536 putative substrate binding site [chemical binding]; other site 384676009537 allantoate amidohydrolase; Reviewed; Region: PRK12893 384676009538 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 384676009539 active site 384676009540 metal binding site [ion binding]; metal-binding site 384676009541 dimer interface [polypeptide binding]; other site 384676009542 topology modulation protein; Reviewed; Region: PRK08118 384676009543 AAA domain; Region: AAA_17; pfam13207 384676009544 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 384676009545 Isochorismatase family; Region: Isochorismatase; pfam00857 384676009546 catalytic triad [active] 384676009547 conserved cis-peptide bond; other site 384676009548 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676009549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009550 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 384676009551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009553 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 384676009554 putative effector binding pocket; other site 384676009555 dimerization interface [polypeptide binding]; other site 384676009556 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 384676009557 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 384676009558 active site 384676009559 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; cl00234 384676009560 Predicted integral membrane protein [Function unknown]; Region: COG5616 384676009561 PAS domain S-box; Region: sensory_box; TIGR00229 384676009562 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 384676009563 putative active site [active] 384676009564 heme pocket [chemical binding]; other site 384676009565 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676009566 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676009567 metal binding site [ion binding]; metal-binding site 384676009568 active site 384676009569 I-site; other site 384676009570 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 384676009571 RNA polymerase sigma factor; Provisional; Region: PRK12536 384676009572 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676009573 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 384676009574 DNA binding residues [nucleotide binding] 384676009575 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 384676009576 hypothetical protein; Provisional; Region: PRK05409 384676009577 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 384676009578 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 384676009579 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 384676009580 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 384676009581 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 384676009582 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 384676009583 substrate binding pocket [chemical binding]; other site 384676009584 membrane-bound complex binding site; other site 384676009585 hinge residues; other site 384676009586 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676009587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676009588 dimer interface [polypeptide binding]; other site 384676009589 conserved gate region; other site 384676009590 putative PBP binding loops; other site 384676009591 ABC-ATPase subunit interface; other site 384676009592 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676009593 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676009594 dimer interface [polypeptide binding]; other site 384676009595 conserved gate region; other site 384676009596 putative PBP binding loops; other site 384676009597 ABC-ATPase subunit interface; other site 384676009598 Predicted deacylase [General function prediction only]; Region: COG3608 384676009599 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 384676009600 active site 384676009601 Zn binding site [ion binding]; other site 384676009602 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 384676009603 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676009604 Walker A/P-loop; other site 384676009605 ATP binding site [chemical binding]; other site 384676009606 Q-loop/lid; other site 384676009607 ABC transporter signature motif; other site 384676009608 Walker B; other site 384676009609 D-loop; other site 384676009610 H-loop/switch region; other site 384676009611 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 384676009612 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 384676009613 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 384676009614 putative active site [active] 384676009615 active site 1 [active] 384676009616 dimer interface [polypeptide binding]; other site 384676009617 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 384676009618 hexamer interface [polypeptide binding]; other site 384676009619 active site 2 [active] 384676009620 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676009621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009622 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 384676009623 dimerization interface [polypeptide binding]; other site 384676009624 substrate binding pocket [chemical binding]; other site 384676009625 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 384676009626 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 384676009627 putative NAD(P) binding site [chemical binding]; other site 384676009628 putative active site [active] 384676009629 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 384676009630 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676009631 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 384676009632 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 384676009633 DNA binding residues [nucleotide binding] 384676009634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676009635 S-adenosylmethionine binding site [chemical binding]; other site 384676009636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676009637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676009638 Coenzyme A binding pocket [chemical binding]; other site 384676009639 YcaO domain protein; Region: TIGR03549 384676009640 OsmC-like protein; Region: OsmC; pfam02566 384676009641 YcaO-like family; Region: YcaO; pfam02624 384676009642 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 384676009643 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 384676009644 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009645 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676009646 acyl-activating enzyme (AAE) consensus motif; other site 384676009647 AMP binding site [chemical binding]; other site 384676009648 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009649 Acyltransferase family; Region: Acyl_transf_3; pfam01757 384676009650 topology modulation protein; Reviewed; Region: PRK08118 384676009651 AAA domain; Region: AAA_17; pfam13207 384676009652 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 384676009653 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 384676009654 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 384676009655 dimerization interface [polypeptide binding]; other site 384676009656 putative DNA binding site [nucleotide binding]; other site 384676009657 putative Zn2+ binding site [ion binding]; other site 384676009658 arsenical pump membrane protein; Provisional; Region: PRK15445 384676009659 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 384676009660 transmembrane helices; other site 384676009661 Low molecular weight phosphatase family; Region: LMWPc; cd00115 384676009662 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 384676009663 active site 384676009664 gp32 DNA binding protein like; Region: gp32; cl17537 384676009665 Cupin domain; Region: Cupin_2; cl17218 384676009666 Domain of unknown function (DUF336); Region: DUF336; cl01249 384676009667 glutaminase; Provisional; Region: PRK00971 384676009668 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 384676009669 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676009670 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676009671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009672 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 384676009673 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 384676009674 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 384676009675 dimer interface [polypeptide binding]; other site 384676009676 active site 384676009677 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676009678 substrate binding site [chemical binding]; other site 384676009679 catalytic residue [active] 384676009680 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 384676009681 FAD binding domain; Region: FAD_binding_4; pfam01565 384676009682 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 384676009683 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 384676009684 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 384676009685 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 384676009686 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 384676009687 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 384676009688 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 384676009689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009690 putative substrate translocation pore; other site 384676009691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009693 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 384676009694 dimerization interface [polypeptide binding]; other site 384676009695 substrate binding pocket [chemical binding]; other site 384676009696 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 384676009697 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 384676009698 Isochorismatase family; Region: Isochorismatase; pfam00857 384676009699 catalytic triad [active] 384676009700 dimer interface [polypeptide binding]; other site 384676009701 conserved cis-peptide bond; other site 384676009702 CdtB, the catalytic DNase I-like subunit of cytolethal distending toxin (CDT) protein; Region: CdtB; cd09081 384676009703 putative catalytic site [active] 384676009704 CdtC interface [polypeptide binding]; other site 384676009705 heterotrimer interface [polypeptide binding]; other site 384676009706 CdtA interface [polypeptide binding]; other site 384676009707 putative metal binding site [ion binding]; other site 384676009708 putative phosphate binding site [ion binding]; other site 384676009709 Thioesterase domain; Region: Thioesterase; pfam00975 384676009710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 384676009711 LysE type translocator; Region: LysE; cl00565 384676009712 Condensation domain; Region: Condensation; pfam00668 384676009713 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009714 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676009715 acyl-activating enzyme (AAE) consensus motif; other site 384676009716 AMP binding site [chemical binding]; other site 384676009717 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009718 Condensation domain; Region: Condensation; pfam00668 384676009719 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 384676009720 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 384676009721 acyl-activating enzyme (AAE) consensus motif; other site 384676009722 AMP binding site [chemical binding]; other site 384676009723 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676009724 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676009725 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 384676009726 DNA binding residues [nucleotide binding] 384676009727 dimerization interface [polypeptide binding]; other site 384676009728 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676009729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009730 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676009731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009732 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 384676009733 Predicted membrane protein [Function unknown]; Region: COG2259 384676009734 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009735 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676009736 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 384676009737 putative DNA binding site [nucleotide binding]; other site 384676009738 putative Zn2+ binding site [ion binding]; other site 384676009739 AsnC family; Region: AsnC_trans_reg; pfam01037 384676009740 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 384676009741 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676009742 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676009743 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 384676009744 FAD binding site [chemical binding]; other site 384676009745 substrate binding site [chemical binding]; other site 384676009746 catalytic base [active] 384676009747 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 384676009748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009749 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 384676009750 substrate binding pocket [chemical binding]; other site 384676009751 dimerization interface [polypeptide binding]; other site 384676009752 YecR-like lipoprotein; Region: YecR; pfam13992 384676009753 Uncharacterized conserved protein [Function unknown]; Region: COG3268 384676009754 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 384676009755 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 384676009756 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 384676009757 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676009758 catalytic residue [active] 384676009759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009760 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 384676009761 putative dimerization interface [polypeptide binding]; other site 384676009762 EamA-like transporter family; Region: EamA; pfam00892 384676009763 EamA-like transporter family; Region: EamA; pfam00892 384676009764 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 384676009765 hypothetical protein; Provisional; Region: PRK05409 384676009766 EF-hand domain pair; Region: EF_hand_5; pfam13499 384676009767 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 384676009768 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 384676009769 Leucine rich repeat; Region: LRR_8; pfam13855 384676009770 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 384676009771 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 384676009772 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 384676009773 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 384676009774 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 384676009775 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676009776 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 384676009777 putative NAD(P) binding site [chemical binding]; other site 384676009778 active site 384676009779 putative substrate binding site [chemical binding]; other site 384676009780 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 384676009781 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 384676009782 active site 384676009783 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 384676009784 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 384676009785 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 384676009786 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 384676009787 DNA polymerase II; Reviewed; Region: PRK05762 384676009788 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 384676009789 active site 384676009790 catalytic site [active] 384676009791 substrate binding site [chemical binding]; other site 384676009792 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 384676009793 active site 384676009794 metal-binding site 384676009795 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 384676009796 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009797 putative substrate translocation pore; other site 384676009798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676009799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009800 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 384676009801 putative effector binding pocket; other site 384676009802 putative dimerization interface [polypeptide binding]; other site 384676009803 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676009804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676009805 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 384676009806 dimerization interface [polypeptide binding]; other site 384676009807 YqcI/YcgG family; Region: YqcI_YcgG; pfam08892 384676009808 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676009809 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 384676009810 Predicted membrane protein [Function unknown]; Region: COG4392 384676009811 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 384676009812 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676009813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009814 Protein of unknown function (DUF461); Region: DUF461; pfam04314 384676009815 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 384676009816 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 384676009817 Cu(I) binding site [ion binding]; other site 384676009818 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 384676009819 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 384676009820 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 384676009821 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 384676009822 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 384676009823 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 384676009824 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 384676009825 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 384676009826 substrate binding pocket [chemical binding]; other site 384676009827 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 384676009828 B12 binding site [chemical binding]; other site 384676009829 cobalt ligand [ion binding]; other site 384676009830 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 384676009831 Phosphopantetheine attachment site; Region: PP-binding; cl09936 384676009832 AMP-binding domain protein; Validated; Region: PRK08315 384676009833 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676009834 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 384676009835 acyl-activating enzyme (AAE) consensus motif; other site 384676009836 putative AMP binding site [chemical binding]; other site 384676009837 putative active site [active] 384676009838 putative CoA binding site [chemical binding]; other site 384676009839 isovaleryl-CoA dehydrogenase; Region: PLN02519 384676009840 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 384676009841 substrate binding site [chemical binding]; other site 384676009842 FAD binding site [chemical binding]; other site 384676009843 catalytic base [active] 384676009844 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 384676009845 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 384676009846 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 384676009847 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 384676009848 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 384676009849 substrate binding site [chemical binding]; other site 384676009850 oxyanion hole (OAH) forming residues; other site 384676009851 trimer interface [polypeptide binding]; other site 384676009852 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 384676009853 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 384676009854 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 384676009855 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 384676009856 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 384676009857 carboxyltransferase (CT) interaction site; other site 384676009858 biotinylation site [posttranslational modification]; other site 384676009859 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 384676009860 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 384676009861 non-specific DNA binding site [nucleotide binding]; other site 384676009862 salt bridge; other site 384676009863 sequence-specific DNA binding site [nucleotide binding]; other site 384676009864 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 384676009865 Catalytic site [active] 384676009866 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 384676009867 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 384676009868 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 384676009869 active site 384676009870 Zn binding site [ion binding]; other site 384676009871 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009872 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009873 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 384676009874 PapC N-terminal domain; Region: PapC_N; pfam13954 384676009875 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 384676009876 PapC C-terminal domain; Region: PapC_C; pfam13953 384676009877 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 384676009878 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 384676009879 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 384676009880 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009881 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009882 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009883 Spore Coat Protein U domain; Region: SCPU; pfam05229 384676009884 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 384676009885 GAF domain; Region: GAF; pfam01590 384676009886 Phytochrome region; Region: PHY; pfam00360 384676009887 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 384676009888 dimer interface [polypeptide binding]; other site 384676009889 phosphorylation site [posttranslational modification] 384676009890 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676009891 ATP binding site [chemical binding]; other site 384676009892 Mg2+ binding site [ion binding]; other site 384676009893 G-X-G motif; other site 384676009894 Response regulator receiver domain; Region: Response_reg; pfam00072 384676009895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009896 active site 384676009897 phosphorylation site [posttranslational modification] 384676009898 intermolecular recognition site; other site 384676009899 dimerization interface [polypeptide binding]; other site 384676009900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676009901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009902 active site 384676009903 phosphorylation site [posttranslational modification] 384676009904 intermolecular recognition site; other site 384676009905 dimerization interface [polypeptide binding]; other site 384676009906 PAS fold; Region: PAS_3; pfam08447 384676009907 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 384676009908 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 384676009909 putative active site [active] 384676009910 heme pocket [chemical binding]; other site 384676009911 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 384676009912 dimer interface [polypeptide binding]; other site 384676009913 phosphorylation site [posttranslational modification] 384676009914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676009915 ATP binding site [chemical binding]; other site 384676009916 Mg2+ binding site [ion binding]; other site 384676009917 G-X-G motif; other site 384676009918 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676009919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676009920 active site 384676009921 phosphorylation site [posttranslational modification] 384676009922 intermolecular recognition site; other site 384676009923 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_13; cd06324 384676009924 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 384676009925 putative ligand binding site [chemical binding]; other site 384676009926 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 384676009927 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 384676009928 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 384676009929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 384676009930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009931 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676009932 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676009933 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 384676009934 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 384676009935 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 384676009936 active site 384676009937 catalytic tetrad [active] 384676009938 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676009939 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676009940 putative substrate translocation pore; other site 384676009941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 384676009942 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 384676009943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 384676009944 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 384676009945 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 384676009946 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676009947 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 384676009948 Walker A motif; other site 384676009949 ATP binding site [chemical binding]; other site 384676009950 Walker B motif; other site 384676009951 arginine finger; other site 384676009952 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 384676009953 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676009954 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 384676009955 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 384676009956 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 384676009957 Uncharacterized conserved protein [Function unknown]; Region: COG3791 384676009958 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 384676009959 active site 384676009960 Zn2+ binding site [ion binding]; other site 384676009961 intersubunit interface [polypeptide binding]; other site 384676009962 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 384676009963 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 384676009964 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 384676009965 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676009966 active site 384676009967 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676009968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676009969 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 384676009970 Walker A/P-loop; other site 384676009971 ATP binding site [chemical binding]; other site 384676009972 Q-loop/lid; other site 384676009973 ABC transporter signature motif; other site 384676009974 Walker B; other site 384676009975 D-loop; other site 384676009976 H-loop/switch region; other site 384676009977 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676009978 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 384676009979 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 384676009980 Walker A/P-loop; other site 384676009981 ATP binding site [chemical binding]; other site 384676009982 Q-loop/lid; other site 384676009983 ABC transporter signature motif; other site 384676009984 Walker B; other site 384676009985 D-loop; other site 384676009986 H-loop/switch region; other site 384676009987 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 384676009988 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 384676009989 active site 384676009990 dimer interface [polypeptide binding]; other site 384676009991 non-prolyl cis peptide bond; other site 384676009992 insertion regions; other site 384676009993 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 384676009994 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676009995 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 384676009996 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 384676009997 active site flap/lid [active] 384676009998 nucleophilic elbow; other site 384676009999 catalytic triad [active] 384676010000 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 384676010001 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676010002 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676010003 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676010004 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676010005 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 384676010006 N-terminal plug; other site 384676010007 ligand-binding site [chemical binding]; other site 384676010008 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676010009 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 384676010010 N-terminal plug; other site 384676010011 ligand-binding site [chemical binding]; other site 384676010012 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676010013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676010014 dimer interface [polypeptide binding]; other site 384676010015 conserved gate region; other site 384676010016 putative PBP binding loops; other site 384676010017 ABC-ATPase subunit interface; other site 384676010018 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 384676010019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676010020 dimer interface [polypeptide binding]; other site 384676010021 conserved gate region; other site 384676010022 putative PBP binding loops; other site 384676010023 ABC-ATPase subunit interface; other site 384676010024 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 384676010025 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 384676010026 Walker A/P-loop; other site 384676010027 ATP binding site [chemical binding]; other site 384676010028 Q-loop/lid; other site 384676010029 ABC transporter signature motif; other site 384676010030 Walker B; other site 384676010031 D-loop; other site 384676010032 H-loop/switch region; other site 384676010033 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 384676010034 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 384676010035 Autotransporter beta-domain; Region: Autotransporter; smart00869 384676010036 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676010037 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676010038 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 384676010039 binding surface 384676010040 Tetratricopeptide repeat; Region: TPR_16; pfam13432 384676010041 TPR motif; other site 384676010042 chromosome condensation membrane protein; Provisional; Region: PRK14196 384676010043 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 384676010044 short chain dehydrogenase; Provisional; Region: PRK07478 384676010045 classical (c) SDRs; Region: SDR_c; cd05233 384676010046 NAD(P) binding site [chemical binding]; other site 384676010047 active site 384676010048 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 384676010049 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 384676010050 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 384676010051 GIY-YIG motif/motif A; other site 384676010052 active site 384676010053 catalytic site [active] 384676010054 putative DNA binding site [nucleotide binding]; other site 384676010055 metal binding site [ion binding]; metal-binding site 384676010056 UvrB/uvrC motif; Region: UVR; pfam02151 384676010057 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 384676010058 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 384676010059 DNA binding site [nucleotide binding] 384676010060 response regulator; Provisional; Region: PRK09483 384676010061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010062 active site 384676010063 phosphorylation site [posttranslational modification] 384676010064 intermolecular recognition site; other site 384676010065 dimerization interface [polypeptide binding]; other site 384676010066 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 384676010067 DNA binding residues [nucleotide binding] 384676010068 dimerization interface [polypeptide binding]; other site 384676010069 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 384676010070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676010071 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 384676010072 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 384676010073 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676010074 active site 384676010075 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 384676010076 PilZ domain; Region: PilZ; pfam07238 384676010077 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 384676010078 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 384676010079 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 384676010080 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 384676010081 active site 384676010082 Right handed beta helix region; Region: Beta_helix; pfam13229 384676010083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676010084 Coenzyme A binding pocket [chemical binding]; other site 384676010085 Uncharacterized conserved protein [Function unknown]; Region: COG3189 384676010086 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 384676010087 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 384676010088 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676010089 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 384676010090 C-terminal domain interface [polypeptide binding]; other site 384676010091 GSH binding site (G-site) [chemical binding]; other site 384676010092 dimer interface [polypeptide binding]; other site 384676010093 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 384676010094 dimer interface [polypeptide binding]; other site 384676010095 N-terminal domain interface [polypeptide binding]; other site 384676010096 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 384676010097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676010098 Coenzyme A binding pocket [chemical binding]; other site 384676010099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676010100 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676010101 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676010102 ligand binding site [chemical binding]; other site 384676010103 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 384676010104 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 384676010105 CoenzymeA binding site [chemical binding]; other site 384676010106 subunit interaction site [polypeptide binding]; other site 384676010107 PHB binding site; other site 384676010108 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 384676010109 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676010110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676010111 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 384676010112 dimerization interface [polypeptide binding]; other site 384676010113 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 384676010114 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 384676010115 inhibitor-cofactor binding pocket; inhibition site 384676010116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676010117 catalytic residue [active] 384676010118 elongation factor G; Reviewed; Region: PRK00007 384676010119 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 384676010120 G1 box; other site 384676010121 putative GEF interaction site [polypeptide binding]; other site 384676010122 GTP/Mg2+ binding site [chemical binding]; other site 384676010123 Switch I region; other site 384676010124 G2 box; other site 384676010125 G3 box; other site 384676010126 Switch II region; other site 384676010127 G4 box; other site 384676010128 G5 box; other site 384676010129 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 384676010130 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 384676010131 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 384676010132 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 384676010133 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 384676010134 Sulfate transporter family; Region: Sulfate_transp; pfam00916 384676010135 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 384676010136 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676010137 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676010138 isocitrate lyase; Provisional; Region: PRK15063 384676010139 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 384676010140 tetramer interface [polypeptide binding]; other site 384676010141 active site 384676010142 Mg2+/Mn2+ binding site [ion binding]; other site 384676010143 YhhN-like protein; Region: YhhN; pfam07947 384676010144 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 384676010145 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 384676010146 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 384676010147 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 384676010148 NADH dehydrogenase subunit D; Validated; Region: PRK06075 384676010149 NADH dehydrogenase subunit E; Validated; Region: PRK07539 384676010150 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 384676010151 putative dimer interface [polypeptide binding]; other site 384676010152 [2Fe-2S] cluster binding site [ion binding]; other site 384676010153 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 384676010154 SLBB domain; Region: SLBB; pfam10531 384676010155 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 384676010156 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 384676010157 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 384676010158 catalytic loop [active] 384676010159 iron binding site [ion binding]; other site 384676010160 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 384676010161 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 384676010162 [4Fe-4S] binding site [ion binding]; other site 384676010163 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 384676010164 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 384676010165 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 384676010166 4Fe-4S binding domain; Region: Fer4; pfam00037 384676010167 4Fe-4S binding domain; Region: Fer4; pfam00037 384676010168 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 384676010169 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 384676010170 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 384676010171 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 384676010172 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 384676010173 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 384676010174 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 384676010175 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 384676010176 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 384676010177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 384676010178 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 384676010179 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 384676010180 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 384676010181 Domain of unknown function DUF20; Region: UPF0118; pfam01594 384676010182 putative protease; Provisional; Region: PRK15452 384676010183 Peptidase family U32; Region: Peptidase_U32; pfam01136 384676010184 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 384676010185 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 384676010186 Multicopper oxidase; Region: Cu-oxidase; pfam00394 384676010187 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 384676010188 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 384676010189 Protein of unknown function, DUF; Region: DUF411; cl01142 384676010190 Predicted membrane protein [Function unknown]; Region: COG1238 384676010191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 384676010192 DinB superfamily; Region: DinB_2; pfam12867 384676010193 Predicted ATPase [General function prediction only]; Region: COG1485 384676010194 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 384676010195 Walker A motif; other site 384676010196 ATP binding site [chemical binding]; other site 384676010197 Walker B motif; other site 384676010198 arginine finger; other site 384676010199 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 384676010200 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 384676010201 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 384676010202 agmatinase; Region: agmatinase; TIGR01230 384676010203 oligomer interface [polypeptide binding]; other site 384676010204 putative active site [active] 384676010205 Mn binding site [ion binding]; other site 384676010206 1,3-beta-galactosyl-N-acetylhexosamine phosphorylase; Region: TIGR02336 384676010207 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676010208 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 384676010209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676010210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676010211 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 384676010212 dimerization interface [polypeptide binding]; other site 384676010213 Water Stress and Hypersensitive response; Region: WHy; smart00769 384676010214 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 384676010215 Predicted amidohydrolase [General function prediction only]; Region: COG0388 384676010216 putative active site [active] 384676010217 catalytic triad [active] 384676010218 putative dimer interface [polypeptide binding]; other site 384676010219 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 384676010220 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 384676010221 active site 384676010222 dinuclear metal binding site [ion binding]; other site 384676010223 dimerization interface [polypeptide binding]; other site 384676010224 threonine and homoserine efflux system; Provisional; Region: PRK10532 384676010225 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 384676010226 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 384676010227 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 384676010228 active site 384676010229 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 384676010230 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 384676010231 DNA binding residues [nucleotide binding] 384676010232 dimer interface [polypeptide binding]; other site 384676010233 [2Fe-2S] cluster binding site [ion binding]; other site 384676010234 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 384676010235 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 384676010236 non-specific DNA binding site [nucleotide binding]; other site 384676010237 salt bridge; other site 384676010238 sequence-specific DNA binding site [nucleotide binding]; other site 384676010239 Cupin domain; Region: Cupin_2; pfam07883 384676010240 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 384676010241 EamA-like transporter family; Region: EamA; pfam00892 384676010242 EamA-like transporter family; Region: EamA; cl17759 384676010243 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 384676010244 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 384676010245 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 384676010246 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 384676010247 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 384676010248 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 384676010249 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 384676010250 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 384676010251 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 384676010252 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 384676010253 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676010254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676010255 dimer interface [polypeptide binding]; other site 384676010256 putative CheW interface [polypeptide binding]; other site 384676010257 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 384676010258 enoyl-CoA hydratase; Provisional; Region: PRK05862 384676010259 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 384676010260 substrate binding site [chemical binding]; other site 384676010261 oxyanion hole (OAH) forming residues; other site 384676010262 trimer interface [polypeptide binding]; other site 384676010263 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676010264 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 384676010265 FAD binding site [chemical binding]; other site 384676010266 homotetramer interface [polypeptide binding]; other site 384676010267 substrate binding pocket [chemical binding]; other site 384676010268 catalytic base [active] 384676010269 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 384676010270 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 384676010271 dimer interface [polypeptide binding]; other site 384676010272 active site 384676010273 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 384676010274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676010275 NAD(P) binding site [chemical binding]; other site 384676010276 active site 384676010277 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 384676010278 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 384676010279 acyl-activating enzyme (AAE) consensus motif; other site 384676010280 AMP binding site [chemical binding]; other site 384676010281 active site 384676010282 CoA binding site [chemical binding]; other site 384676010283 Leucine rich repeat; Region: LRR_8; pfam13855 384676010284 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676010285 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676010286 SurA N-terminal domain; Region: SurA_N; pfam09312 384676010287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676010288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676010289 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 384676010290 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 384676010291 dimerization interface [polypeptide binding]; other site 384676010292 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 384676010293 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676010294 catalytic residue [active] 384676010295 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 384676010296 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 384676010297 motif II; other site 384676010298 Predicted flavoprotein [General function prediction only]; Region: COG0431 384676010299 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676010300 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 384676010301 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 384676010302 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 384676010303 homodimer interface [polypeptide binding]; other site 384676010304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676010305 catalytic residue [active] 384676010306 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 384676010307 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 384676010308 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 384676010309 active site 384676010310 catalytic site [active] 384676010311 substrate binding site [chemical binding]; other site 384676010312 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 384676010313 RNA/DNA hybrid binding site [nucleotide binding]; other site 384676010314 active site 384676010315 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676010316 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 384676010317 MltD lipid attachment motif; Region: MLTD_N; pfam06474 384676010318 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 384676010319 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 384676010320 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676010321 catalytic residue [active] 384676010322 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676010323 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676010324 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 384676010325 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 384676010326 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 384676010327 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 384676010328 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 384676010329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676010330 dimer interface [polypeptide binding]; other site 384676010331 conserved gate region; other site 384676010332 putative PBP binding loops; other site 384676010333 ABC-ATPase subunit interface; other site 384676010334 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 384676010335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676010336 dimer interface [polypeptide binding]; other site 384676010337 conserved gate region; other site 384676010338 putative PBP binding loops; other site 384676010339 ABC-ATPase subunit interface; other site 384676010340 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 384676010341 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 384676010342 Walker A/P-loop; other site 384676010343 ATP binding site [chemical binding]; other site 384676010344 Q-loop/lid; other site 384676010345 ABC transporter signature motif; other site 384676010346 Walker B; other site 384676010347 D-loop; other site 384676010348 H-loop/switch region; other site 384676010349 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 384676010350 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 384676010351 Walker A/P-loop; other site 384676010352 ATP binding site [chemical binding]; other site 384676010353 Q-loop/lid; other site 384676010354 ABC transporter signature motif; other site 384676010355 Walker B; other site 384676010356 D-loop; other site 384676010357 H-loop/switch region; other site 384676010358 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 384676010359 AAA ATPase domain; Region: AAA_15; pfam13175 384676010360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676010361 Walker A/P-loop; other site 384676010362 ATP binding site [chemical binding]; other site 384676010363 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 384676010364 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676010365 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676010366 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676010367 Coenzyme A binding pocket [chemical binding]; other site 384676010368 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 384676010369 amino acid transporter; Region: 2A0306; TIGR00909 384676010370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676010371 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 384676010372 DNA binding residues [nucleotide binding] 384676010373 dimerization interface [polypeptide binding]; other site 384676010374 Predicted amidohydrolase [General function prediction only]; Region: COG0388 384676010375 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 384676010376 putative active site [active] 384676010377 catalytic triad [active] 384676010378 putative dimer interface [polypeptide binding]; other site 384676010379 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676010380 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676010381 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676010382 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676010383 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676010384 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 384676010385 DNA binding residues [nucleotide binding] 384676010386 dimerization interface [polypeptide binding]; other site 384676010387 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676010388 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 384676010389 N-terminal plug; other site 384676010390 ligand-binding site [chemical binding]; other site 384676010391 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676010392 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676010393 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676010394 RHS Repeat; Region: RHS_repeat; pfam05593 384676010395 RHS protein; Region: RHS; pfam03527 384676010396 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676010397 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676010398 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676010399 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676010400 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 384676010401 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 384676010402 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676010403 Low molecular weight phosphatase family; Region: LMWPc; cl00105 384676010404 active site 384676010405 cytosine deaminase; Provisional; Region: PRK05985 384676010406 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 384676010407 active site 384676010408 cyanate hydratase; Validated; Region: PRK02866 384676010409 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 384676010410 oligomer interface [polypeptide binding]; other site 384676010411 active site 384676010412 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 384676010413 active site clefts [active] 384676010414 zinc binding site [ion binding]; other site 384676010415 dimer interface [polypeptide binding]; other site 384676010416 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 384676010417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676010418 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 384676010419 dimerization interface [polypeptide binding]; other site 384676010420 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 384676010421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676010422 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 384676010423 dimerization interface [polypeptide binding]; other site 384676010424 diaminopimelate decarboxylase; Provisional; Region: PRK11165 384676010425 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 384676010426 active site 384676010427 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676010428 substrate binding site [chemical binding]; other site 384676010429 catalytic residues [active] 384676010430 dimer interface [polypeptide binding]; other site 384676010431 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 384676010432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010433 active site 384676010434 phosphorylation site [posttranslational modification] 384676010435 intermolecular recognition site; other site 384676010436 dimerization interface [polypeptide binding]; other site 384676010437 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 384676010438 DNA binding site [nucleotide binding] 384676010439 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 384676010440 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 384676010441 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 384676010442 Ligand Binding Site [chemical binding]; other site 384676010443 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 384676010444 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 384676010445 dimer interface [polypeptide binding]; other site 384676010446 phosphorylation site [posttranslational modification] 384676010447 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010448 ATP binding site [chemical binding]; other site 384676010449 Mg2+ binding site [ion binding]; other site 384676010450 G-X-G motif; other site 384676010451 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 384676010452 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 384676010453 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676010454 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676010455 Soluble P-type ATPase [General function prediction only]; Region: COG4087 384676010456 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 384676010457 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 384676010458 pyrimidine utilization protein D; Region: RutD; TIGR03611 384676010459 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676010460 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 384676010461 catalytic core [active] 384676010462 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 384676010463 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 384676010464 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 384676010465 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 384676010466 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676010467 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 384676010468 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 384676010469 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 384676010470 dimerization interface [polypeptide binding]; other site 384676010471 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 384676010472 dimer interface [polypeptide binding]; other site 384676010473 phosphorylation site [posttranslational modification] 384676010474 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010475 ATP binding site [chemical binding]; other site 384676010476 Mg2+ binding site [ion binding]; other site 384676010477 G-X-G motif; other site 384676010478 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676010479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010480 active site 384676010481 phosphorylation site [posttranslational modification] 384676010482 intermolecular recognition site; other site 384676010483 dimerization interface [polypeptide binding]; other site 384676010484 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 384676010485 active site 1 [active] 384676010486 dimer interface [polypeptide binding]; other site 384676010487 active site 2 [active] 384676010488 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 384676010489 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 384676010490 dimer interface [polypeptide binding]; other site 384676010491 active site 384676010492 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 384676010493 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 384676010494 dimerization interface [polypeptide binding]; other site 384676010495 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676010496 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676010497 dimer interface [polypeptide binding]; other site 384676010498 putative CheW interface [polypeptide binding]; other site 384676010499 Amidohydrolase; Region: Amidohydro_2; pfam04909 384676010500 Pirin-related protein [General function prediction only]; Region: COG1741 384676010501 Pirin; Region: Pirin; pfam02678 384676010502 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 384676010503 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 384676010504 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676010505 heat shock protein 90; Provisional; Region: PRK05218 384676010506 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010507 ATP binding site [chemical binding]; other site 384676010508 Mg2+ binding site [ion binding]; other site 384676010509 G-X-G motif; other site 384676010510 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 384676010511 CoenzymeA binding site [chemical binding]; other site 384676010512 subunit interaction site [polypeptide binding]; other site 384676010513 PHB binding site; other site 384676010514 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 384676010515 CoenzymeA binding site [chemical binding]; other site 384676010516 subunit interaction site [polypeptide binding]; other site 384676010517 PHB binding site; other site 384676010518 Predicted membrane protein [Function unknown]; Region: COG3821 384676010519 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 384676010520 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 384676010521 CoA binding domain; Region: CoA_binding; pfam02629 384676010522 CoA-ligase; Region: Ligase_CoA; pfam00549 384676010523 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 384676010524 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 384676010525 CoA-ligase; Region: Ligase_CoA; pfam00549 384676010526 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 384676010527 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676010528 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 384676010529 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 384676010530 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 384676010531 E3 interaction surface; other site 384676010532 lipoyl attachment site [posttranslational modification]; other site 384676010533 e3 binding domain; Region: E3_binding; pfam02817 384676010534 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 384676010535 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 384676010536 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 384676010537 TPP-binding site [chemical binding]; other site 384676010538 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 384676010539 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 384676010540 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 384676010541 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 384676010542 L-aspartate oxidase; Provisional; Region: PRK06175 384676010543 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 384676010544 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 384676010545 SdhC subunit interface [polypeptide binding]; other site 384676010546 proximal heme binding site [chemical binding]; other site 384676010547 cardiolipin binding site; other site 384676010548 Iron-sulfur protein interface; other site 384676010549 proximal quinone binding site [chemical binding]; other site 384676010550 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 384676010551 Iron-sulfur protein interface; other site 384676010552 proximal quinone binding site [chemical binding]; other site 384676010553 SdhD (CybS) interface [polypeptide binding]; other site 384676010554 proximal heme binding site [chemical binding]; other site 384676010555 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 384676010556 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 384676010557 dimer interface [polypeptide binding]; other site 384676010558 active site 384676010559 citrylCoA binding site [chemical binding]; other site 384676010560 NADH binding [chemical binding]; other site 384676010561 cationic pore residues; other site 384676010562 oxalacetate/citrate binding site [chemical binding]; other site 384676010563 coenzyme A binding site [chemical binding]; other site 384676010564 catalytic triad [active] 384676010565 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 384676010566 putative lipid binding site [chemical binding]; other site 384676010567 Flagellin N-methylase; Region: FliB; cl00497 384676010568 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 384676010569 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676010570 DNA-binding site [nucleotide binding]; DNA binding site 384676010571 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 384676010572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676010573 homodimer interface [polypeptide binding]; other site 384676010574 catalytic residue [active] 384676010575 Helix-turn-helix domain; Region: HTH_28; pfam13518 384676010576 putative transposase OrfB; Reviewed; Region: PHA02517 384676010577 Homeodomain-like domain; Region: HTH_32; pfam13565 384676010578 Integrase core domain; Region: rve; pfam00665 384676010579 Integrase core domain; Region: rve_3; pfam13683 384676010580 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676010581 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676010582 ligand binding site [chemical binding]; other site 384676010583 hypothetical protein; Provisional; Region: PRK04081 384676010584 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 384676010585 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676010586 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676010587 substrate binding pocket [chemical binding]; other site 384676010588 membrane-bound complex binding site; other site 384676010589 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 384676010590 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 384676010591 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 384676010592 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 384676010593 Ligand binding site [chemical binding]; other site 384676010594 Electron transfer flavoprotein domain; Region: ETF; pfam01012 384676010595 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 384676010596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676010597 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 384676010598 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676010599 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 384676010600 RNA polymerase sigma factor; Reviewed; Region: PRK12527 384676010601 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676010602 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 384676010603 DNA binding residues [nucleotide binding] 384676010604 macrolide transporter subunit MacA; Provisional; Region: PRK11578 384676010605 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 384676010606 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676010607 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 384676010608 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 384676010609 Walker A/P-loop; other site 384676010610 ATP binding site [chemical binding]; other site 384676010611 Q-loop/lid; other site 384676010612 ABC transporter signature motif; other site 384676010613 Walker B; other site 384676010614 D-loop; other site 384676010615 H-loop/switch region; other site 384676010616 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 384676010617 FtsX-like permease family; Region: FtsX; pfam02687 384676010618 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676010619 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 384676010620 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 384676010621 FAD binding pocket [chemical binding]; other site 384676010622 FAD binding motif [chemical binding]; other site 384676010623 phosphate binding motif [ion binding]; other site 384676010624 NAD binding pocket [chemical binding]; other site 384676010625 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06938 384676010626 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 384676010627 inhibitor-cofactor binding pocket; inhibition site 384676010628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676010629 catalytic residue [active] 384676010630 sensor protein QseC; Provisional; Region: PRK10337 384676010631 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 384676010632 dimer interface [polypeptide binding]; other site 384676010633 phosphorylation site [posttranslational modification] 384676010634 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010635 ATP binding site [chemical binding]; other site 384676010636 G-X-G motif; other site 384676010637 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676010638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010639 active site 384676010640 phosphorylation site [posttranslational modification] 384676010641 intermolecular recognition site; other site 384676010642 dimerization interface [polypeptide binding]; other site 384676010643 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 384676010644 DNA binding site [nucleotide binding] 384676010645 Uncharacterized conserved protein [Function unknown]; Region: COG3791 384676010646 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 384676010647 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 384676010648 nudix motif; other site 384676010649 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 384676010650 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 384676010651 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 384676010652 Magnesium ion binding site [ion binding]; other site 384676010653 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 384676010654 Magnesium ion binding site [ion binding]; other site 384676010655 SIR2-like domain; Region: SIR2_2; pfam13289 384676010656 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676010657 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 384676010658 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 384676010659 FMN binding site [chemical binding]; other site 384676010660 active site 384676010661 catalytic residues [active] 384676010662 substrate binding site [chemical binding]; other site 384676010663 transaldolase-like protein; Provisional; Region: PTZ00411 384676010664 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 384676010665 active site 384676010666 dimer interface [polypeptide binding]; other site 384676010667 catalytic residue [active] 384676010668 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 384676010669 metal binding site [ion binding]; metal-binding site 384676010670 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 384676010671 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 384676010672 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 384676010673 anti sigma factor interaction site; other site 384676010674 regulatory phosphorylation site [posttranslational modification]; other site 384676010675 Response regulator receiver domain; Region: Response_reg; pfam00072 384676010676 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010677 active site 384676010678 phosphorylation site [posttranslational modification] 384676010679 intermolecular recognition site; other site 384676010680 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 384676010681 dimerization interface [polypeptide binding]; other site 384676010682 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 384676010683 PilZ domain; Region: PilZ; pfam07238 384676010684 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 384676010685 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 384676010686 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 384676010687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 384676010688 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 384676010689 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 384676010690 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 384676010691 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 384676010692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010693 active site 384676010694 phosphorylation site [posttranslational modification] 384676010695 intermolecular recognition site; other site 384676010696 dimerization interface [polypeptide binding]; other site 384676010697 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 384676010698 DNA binding site [nucleotide binding] 384676010699 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 384676010700 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 384676010701 dimerization interface [polypeptide binding]; other site 384676010702 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 384676010703 dimer interface [polypeptide binding]; other site 384676010704 phosphorylation site [posttranslational modification] 384676010705 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010706 ATP binding site [chemical binding]; other site 384676010707 Mg2+ binding site [ion binding]; other site 384676010708 G-X-G motif; other site 384676010709 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 384676010710 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 384676010711 FtsX-like permease family; Region: FtsX; pfam02687 384676010712 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 384676010713 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 384676010714 Walker A/P-loop; other site 384676010715 ATP binding site [chemical binding]; other site 384676010716 Q-loop/lid; other site 384676010717 ABC transporter signature motif; other site 384676010718 Walker B; other site 384676010719 D-loop; other site 384676010720 H-loop/switch region; other site 384676010721 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 384676010722 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 384676010723 FtsX-like permease family; Region: FtsX; pfam02687 384676010724 PilZ domain; Region: PilZ; pfam07238 384676010725 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 384676010726 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 384676010727 active site 384676010728 catalytic site [active] 384676010729 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 384676010730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676010731 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 384676010732 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 384676010733 ApbE family; Region: ApbE; pfam02424 384676010734 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 384676010735 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 384676010736 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 384676010737 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 384676010738 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 384676010739 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 384676010740 ATP binding site [chemical binding]; other site 384676010741 putative Mg++ binding site [ion binding]; other site 384676010742 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 384676010743 nucleotide binding region [chemical binding]; other site 384676010744 ATP-binding site [chemical binding]; other site 384676010745 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 384676010746 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 384676010747 Uncharacterized conserved protein [Function unknown]; Region: COG4279 384676010748 SWIM zinc finger; Region: SWIM; pfam04434 384676010749 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 384676010750 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 384676010751 ATP binding site [chemical binding]; other site 384676010752 putative Mg++ binding site [ion binding]; other site 384676010753 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 384676010754 nucleotide binding region [chemical binding]; other site 384676010755 ATP-binding site [chemical binding]; other site 384676010756 beta-hexosaminidase; Provisional; Region: PRK05337 384676010757 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 384676010758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 384676010759 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 384676010760 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676010761 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676010762 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 384676010763 LexA repressor; Validated; Region: PRK00215 384676010764 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 384676010765 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 384676010766 Catalytic site [active] 384676010767 Cell division inhibitor SulA; Region: SulA; cl01880 384676010768 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 384676010769 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 384676010770 active site 384676010771 interdomain interaction site; other site 384676010772 putative metal-binding site [ion binding]; other site 384676010773 nucleotide binding site [chemical binding]; other site 384676010774 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 384676010775 domain I; other site 384676010776 DNA binding groove [nucleotide binding] 384676010777 phosphate binding site [ion binding]; other site 384676010778 domain II; other site 384676010779 domain III; other site 384676010780 nucleotide binding site [chemical binding]; other site 384676010781 catalytic site [active] 384676010782 domain IV; other site 384676010783 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 384676010784 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 384676010785 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 384676010786 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 384676010787 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 384676010788 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 384676010789 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 384676010790 dimer interface [polypeptide binding]; other site 384676010791 active site 384676010792 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 384676010793 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 384676010794 substrate binding site [chemical binding]; other site 384676010795 oxyanion hole (OAH) forming residues; other site 384676010796 trimer interface [polypeptide binding]; other site 384676010797 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 384676010798 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 384676010799 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 384676010800 Ligand Binding Site [chemical binding]; other site 384676010801 ABC transporter ATPase component; Reviewed; Region: PRK11147 384676010802 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676010803 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676010804 ABC transporter; Region: ABC_tran_2; pfam12848 384676010805 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 384676010806 lytic murein transglycosylase; Provisional; Region: PRK11619 384676010807 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 384676010808 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676010809 catalytic residue [active] 384676010810 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 384676010811 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 384676010812 MOSC domain; Region: MOSC; pfam03473 384676010813 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 384676010814 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 384676010815 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010816 active site 384676010817 phosphorylation site [posttranslational modification] 384676010818 intermolecular recognition site; other site 384676010819 dimerization interface [polypeptide binding]; other site 384676010820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 384676010821 Histidine kinase; Region: HisKA_3; pfam07730 384676010822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010823 ATP binding site [chemical binding]; other site 384676010824 Mg2+ binding site [ion binding]; other site 384676010825 G-X-G motif; other site 384676010826 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676010827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010828 active site 384676010829 phosphorylation site [posttranslational modification] 384676010830 intermolecular recognition site; other site 384676010831 dimerization interface [polypeptide binding]; other site 384676010832 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 384676010833 DNA binding residues [nucleotide binding] 384676010834 dimerization interface [polypeptide binding]; other site 384676010835 lipid kinase; Reviewed; Region: PRK13054 384676010836 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 384676010837 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 384676010838 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 384676010839 Substrate binding site; other site 384676010840 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 384676010841 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676010842 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 384676010843 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 384676010844 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 384676010845 dimer interface [polypeptide binding]; other site 384676010846 putative functional site; other site 384676010847 putative MPT binding site; other site 384676010848 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 384676010849 MPT binding site; other site 384676010850 trimer interface [polypeptide binding]; other site 384676010851 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 384676010852 malate:quinone oxidoreductase; Validated; Region: PRK05257 384676010853 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 384676010854 HAMP domain; Region: HAMP; pfam00672 384676010855 dimerization interface [polypeptide binding]; other site 384676010856 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676010857 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676010858 dimer interface [polypeptide binding]; other site 384676010859 putative CheW interface [polypeptide binding]; other site 384676010860 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 384676010861 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676010862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676010863 Walker A/P-loop; other site 384676010864 ATP binding site [chemical binding]; other site 384676010865 Q-loop/lid; other site 384676010866 ABC transporter signature motif; other site 384676010867 Walker B; other site 384676010868 D-loop; other site 384676010869 H-loop/switch region; other site 384676010870 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 384676010871 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 384676010872 ligand binding site [chemical binding]; other site 384676010873 NAD binding site [chemical binding]; other site 384676010874 catalytic site [active] 384676010875 homodimer interface [polypeptide binding]; other site 384676010876 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 384676010877 CPxP motif; other site 384676010878 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 384676010879 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 384676010880 aconitate hydratase; Validated; Region: PRK09277 384676010881 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 384676010882 substrate binding site [chemical binding]; other site 384676010883 ligand binding site [chemical binding]; other site 384676010884 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 384676010885 substrate binding site [chemical binding]; other site 384676010886 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 384676010887 PAS domain; Region: PAS_9; pfam13426 384676010888 putative active site [active] 384676010889 heme pocket [chemical binding]; other site 384676010890 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676010891 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676010892 dimer interface [polypeptide binding]; other site 384676010893 putative CheW interface [polypeptide binding]; other site 384676010894 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 384676010895 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 384676010896 probable active site [active] 384676010897 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 384676010898 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 384676010899 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 384676010900 Predicted membrane protein [Function unknown]; Region: COG5393 384676010901 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 384676010902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 384676010903 Zn2+ binding site [ion binding]; other site 384676010904 Mg2+ binding site [ion binding]; other site 384676010905 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676010906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010907 active site 384676010908 phosphorylation site [posttranslational modification] 384676010909 intermolecular recognition site; other site 384676010910 dimerization interface [polypeptide binding]; other site 384676010911 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 384676010912 DNA binding residues [nucleotide binding] 384676010913 dimerization interface [polypeptide binding]; other site 384676010914 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 384676010915 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 384676010916 substrate binding pocket [chemical binding]; other site 384676010917 membrane-bound complex binding site; other site 384676010918 hinge residues; other site 384676010919 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 384676010920 substrate binding pocket [chemical binding]; other site 384676010921 membrane-bound complex binding site; other site 384676010922 hinge residues; other site 384676010923 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 384676010924 putative active site [active] 384676010925 heme pocket [chemical binding]; other site 384676010926 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 384676010927 dimer interface [polypeptide binding]; other site 384676010928 phosphorylation site [posttranslational modification] 384676010929 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676010930 ATP binding site [chemical binding]; other site 384676010931 Mg2+ binding site [ion binding]; other site 384676010932 G-X-G motif; other site 384676010933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010934 active site 384676010935 phosphorylation site [posttranslational modification] 384676010936 intermolecular recognition site; other site 384676010937 dimerization interface [polypeptide binding]; other site 384676010938 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 384676010939 putative binding surface; other site 384676010940 active site 384676010941 hypothetical protein; Provisional; Region: PRK11702 384676010942 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 384676010943 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 384676010944 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 384676010945 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 384676010946 putative ligand binding site [chemical binding]; other site 384676010947 NAD binding site [chemical binding]; other site 384676010948 catalytic site [active] 384676010949 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 384676010950 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 384676010951 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 384676010952 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 384676010953 binding surface 384676010954 TPR motif; other site 384676010955 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 384676010956 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 384676010957 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676010958 catalytic residues [active] 384676010959 central insert; other site 384676010960 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 384676010961 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 384676010962 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 384676010963 heme exporter protein CcmC; Region: ccmC; TIGR01191 384676010964 CcmB protein; Region: CcmB; cl17444 384676010965 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 384676010966 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 384676010967 Walker A/P-loop; other site 384676010968 ATP binding site [chemical binding]; other site 384676010969 Q-loop/lid; other site 384676010970 ABC transporter signature motif; other site 384676010971 Walker B; other site 384676010972 D-loop; other site 384676010973 H-loop/switch region; other site 384676010974 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 384676010975 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 384676010976 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 384676010977 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 384676010978 putative CheA interaction surface; other site 384676010979 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 384676010980 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 384676010981 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 384676010982 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 384676010983 Magnesium ion binding site [ion binding]; other site 384676010984 flagellar motor protein MotD; Reviewed; Region: PRK09038 384676010985 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 384676010986 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676010987 ligand binding site [chemical binding]; other site 384676010988 flagellar motor protein; Reviewed; Region: motC; PRK09109 384676010989 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 384676010990 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 384676010991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676010992 active site 384676010993 phosphorylation site [posttranslational modification] 384676010994 intermolecular recognition site; other site 384676010995 dimerization interface [polypeptide binding]; other site 384676010996 CheB methylesterase; Region: CheB_methylest; pfam01339 384676010997 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 384676010998 putative binding surface; other site 384676010999 active site 384676011000 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 384676011001 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 384676011002 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676011003 ATP binding site [chemical binding]; other site 384676011004 Mg2+ binding site [ion binding]; other site 384676011005 G-X-G motif; other site 384676011006 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 384676011007 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 384676011008 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 384676011009 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011010 active site 384676011011 phosphorylation site [posttranslational modification] 384676011012 intermolecular recognition site; other site 384676011013 dimerization interface [polypeptide binding]; other site 384676011014 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 384676011015 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676011016 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 384676011017 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 384676011018 DNA binding residues [nucleotide binding] 384676011019 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 384676011020 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 384676011021 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 384676011022 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 384676011023 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 384676011024 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 384676011025 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 384676011026 FHIPEP family; Region: FHIPEP; pfam00771 384676011027 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 384676011028 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 384676011029 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 384676011030 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 384676011031 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 384676011032 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 384676011033 flagellar motor switch protein; Validated; Region: fliN; PRK05698 384676011034 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 384676011035 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 384676011036 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 384676011037 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 384676011038 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 384676011039 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 384676011040 putative binding surface; other site 384676011041 active site 384676011042 Response regulator receiver domain; Region: Response_reg; pfam00072 384676011043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011044 active site 384676011045 phosphorylation site [posttranslational modification] 384676011046 intermolecular recognition site; other site 384676011047 dimerization interface [polypeptide binding]; other site 384676011048 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 384676011049 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 384676011050 anti sigma factor interaction site; other site 384676011051 regulatory phosphorylation site [posttranslational modification]; other site 384676011052 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 384676011053 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 384676011054 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 384676011055 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 384676011056 Walker A motif/ATP binding site; other site 384676011057 Walker B motif; other site 384676011058 flagellar assembly protein H; Validated; Region: fliH; PRK05687 384676011059 Flagellar assembly protein FliH; Region: FliH; pfam02108 384676011060 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 384676011061 MgtE intracellular N domain; Region: MgtE_N; cl15244 384676011062 FliG C-terminal domain; Region: FliG_C; pfam01706 384676011063 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 384676011064 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 384676011065 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 384676011066 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 384676011067 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676011068 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011069 active site 384676011070 phosphorylation site [posttranslational modification] 384676011071 intermolecular recognition site; other site 384676011072 dimerization interface [polypeptide binding]; other site 384676011073 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676011074 Walker A motif; other site 384676011075 ATP binding site [chemical binding]; other site 384676011076 Walker B motif; other site 384676011077 arginine finger; other site 384676011078 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 384676011079 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 384676011080 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 384676011081 putative active site [active] 384676011082 heme pocket [chemical binding]; other site 384676011083 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 384676011084 dimer interface [polypeptide binding]; other site 384676011085 phosphorylation site [posttranslational modification] 384676011086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676011087 ATP binding site [chemical binding]; other site 384676011088 Mg2+ binding site [ion binding]; other site 384676011089 G-X-G motif; other site 384676011090 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676011091 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 384676011092 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676011093 Walker A motif; other site 384676011094 ATP binding site [chemical binding]; other site 384676011095 Walker B motif; other site 384676011096 arginine finger; other site 384676011097 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 384676011098 flagellar protein FliS; Validated; Region: fliS; PRK05685 384676011099 flagellar capping protein; Reviewed; Region: fliD; PRK08032 384676011100 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 384676011101 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 384676011102 FlaG protein; Region: FlaG; pfam03646 384676011103 flagellin; Provisional; Region: PRK12802 384676011104 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 384676011105 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 384676011106 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 384676011107 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 384676011108 dimer interface [polypeptide binding]; other site 384676011109 active site 384676011110 CoA binding pocket [chemical binding]; other site 384676011111 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676011112 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 384676011113 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 384676011114 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 384676011115 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 384676011116 active site 384676011117 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 384676011118 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 384676011119 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 384676011120 active site 384676011121 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676011122 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 384676011123 active site 384676011124 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676011125 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 384676011126 flagellar hook-associated protein FlgL; Provisional; Region: flgL; PRK12717 384676011127 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 384676011128 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 384676011129 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 384676011130 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 384676011131 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 384676011132 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 384676011133 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 384676011134 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 384676011135 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 384676011136 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 384676011137 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 384676011138 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 384676011139 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 384676011140 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 384676011141 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 384676011142 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 384676011143 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 384676011144 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 384676011145 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 384676011146 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 384676011147 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 384676011148 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 384676011149 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 384676011150 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 384676011151 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 384676011152 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 384676011153 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 384676011154 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 384676011155 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 384676011156 Autotransporter beta-domain; Region: Autotransporter; pfam03797 384676011157 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 384676011158 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 384676011159 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676011160 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 384676011161 Response regulator receiver domain; Region: Response_reg; pfam00072 384676011162 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011163 active site 384676011164 phosphorylation site [posttranslational modification] 384676011165 intermolecular recognition site; other site 384676011166 dimerization interface [polypeptide binding]; other site 384676011167 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 384676011168 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 384676011169 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 384676011170 FlgN protein; Region: FlgN; pfam05130 384676011171 Flagellar regulator YcgR; Region: YcgR; pfam07317 384676011172 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 384676011173 PilZ domain; Region: PilZ; pfam07238 384676011174 putative MFS family transporter protein; Provisional; Region: PRK03633 384676011175 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676011176 putative substrate translocation pore; other site 384676011177 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676011178 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676011179 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676011180 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 384676011181 putative DNA binding site [nucleotide binding]; other site 384676011182 putative Zn2+ binding site [ion binding]; other site 384676011183 AsnC family; Region: AsnC_trans_reg; pfam01037 384676011184 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 384676011185 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 384676011186 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 384676011187 tetramer interface [polypeptide binding]; other site 384676011188 TPP-binding site [chemical binding]; other site 384676011189 heterodimer interface [polypeptide binding]; other site 384676011190 phosphorylation loop region [posttranslational modification] 384676011191 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 384676011192 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 384676011193 alpha subunit interface [polypeptide binding]; other site 384676011194 TPP binding site [chemical binding]; other site 384676011195 heterodimer interface [polypeptide binding]; other site 384676011196 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 384676011197 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 384676011198 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 384676011199 E3 interaction surface; other site 384676011200 lipoyl attachment site [posttranslational modification]; other site 384676011201 e3 binding domain; Region: E3_binding; pfam02817 384676011202 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 384676011203 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 384676011204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676011205 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 384676011206 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 384676011207 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 384676011208 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676011209 DNA-binding site [nucleotide binding]; DNA binding site 384676011210 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 384676011211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011212 homodimer interface [polypeptide binding]; other site 384676011213 catalytic residue [active] 384676011214 benzoate transporter; Region: benE; TIGR00843 384676011215 Benzoate membrane transport protein; Region: BenE; pfam03594 384676011216 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676011217 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676011218 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 384676011219 homotrimer interaction site [polypeptide binding]; other site 384676011220 putative active site [active] 384676011221 threonine synthase; Validated; Region: PRK06260 384676011222 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 384676011223 homodimer interface [polypeptide binding]; other site 384676011224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011225 catalytic residue [active] 384676011226 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 384676011227 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 384676011228 dimer interface [polypeptide binding]; other site 384676011229 active site 384676011230 glycine-pyridoxal phosphate binding site [chemical binding]; other site 384676011231 folate binding site [chemical binding]; other site 384676011232 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 384676011233 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 384676011234 active site 384676011235 Arc-like DNA binding domain; Region: Arc; pfam03869 384676011236 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 384676011237 MgtE intracellular N domain; Region: MgtE_N; smart00924 384676011238 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 384676011239 Divalent cation transporter; Region: MgtE; pfam01769 384676011240 carbon storage regulator; Provisional; Region: PRK01712 384676011241 aspartate kinase; Reviewed; Region: PRK06635 384676011242 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 384676011243 putative nucleotide binding site [chemical binding]; other site 384676011244 putative catalytic residues [active] 384676011245 putative Mg ion binding site [ion binding]; other site 384676011246 putative aspartate binding site [chemical binding]; other site 384676011247 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 384676011248 putative allosteric regulatory site; other site 384676011249 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 384676011250 putative allosteric regulatory residue; other site 384676011251 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 384676011252 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 384676011253 motif 1; other site 384676011254 active site 384676011255 motif 2; other site 384676011256 motif 3; other site 384676011257 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 384676011258 DHHA1 domain; Region: DHHA1; pfam02272 384676011259 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 384676011260 succinylarginine dihydrolase; Provisional; Region: PRK13281 384676011261 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 384676011262 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 384676011263 NAD(P) binding site [chemical binding]; other site 384676011264 catalytic residues [active] 384676011265 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 384676011266 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 384676011267 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 384676011268 arginine/ornithine succinyltransferase, alpha subunit; Region: arg_AOST_alph; TIGR03245 384676011269 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 384676011270 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 384676011271 inhibitor-cofactor binding pocket; inhibition site 384676011272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011273 catalytic residue [active] 384676011274 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 384676011275 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 384676011276 conserved cys residue [active] 384676011277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676011278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676011279 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 384676011280 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676011281 Walker A/P-loop; other site 384676011282 ATP binding site [chemical binding]; other site 384676011283 Q-loop/lid; other site 384676011284 ABC transporter signature motif; other site 384676011285 Walker B; other site 384676011286 D-loop; other site 384676011287 H-loop/switch region; other site 384676011288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676011289 dimer interface [polypeptide binding]; other site 384676011290 conserved gate region; other site 384676011291 putative PBP binding loops; other site 384676011292 ABC-ATPase subunit interface; other site 384676011293 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676011294 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676011295 dimer interface [polypeptide binding]; other site 384676011296 conserved gate region; other site 384676011297 putative PBP binding loops; other site 384676011298 ABC-ATPase subunit interface; other site 384676011299 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 384676011300 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 384676011301 substrate binding pocket [chemical binding]; other site 384676011302 membrane-bound complex binding site; other site 384676011303 hinge residues; other site 384676011304 acetyl-CoA synthetase; Provisional; Region: PRK00174 384676011305 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 384676011306 active site 384676011307 CoA binding site [chemical binding]; other site 384676011308 acyl-activating enzyme (AAE) consensus motif; other site 384676011309 AMP binding site [chemical binding]; other site 384676011310 acetate binding site [chemical binding]; other site 384676011311 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 384676011312 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 384676011313 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 384676011314 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 384676011315 putative active site [active] 384676011316 heme pocket [chemical binding]; other site 384676011317 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676011318 Walker A motif; other site 384676011319 ATP binding site [chemical binding]; other site 384676011320 Walker B motif; other site 384676011321 arginine finger; other site 384676011322 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 384676011323 cofactor binding site; other site 384676011324 metal binding site [ion binding]; metal-binding site 384676011325 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 384676011326 aromatic arch; other site 384676011327 DCoH dimer interaction site [polypeptide binding]; other site 384676011328 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 384676011329 DCoH tetramer interaction site [polypeptide binding]; other site 384676011330 substrate binding site [chemical binding]; other site 384676011331 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 384676011332 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 384676011333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011334 homodimer interface [polypeptide binding]; other site 384676011335 catalytic residue [active] 384676011336 major facilitator superfamily transporter; Provisional; Region: PRK05122 384676011337 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676011338 putative substrate translocation pore; other site 384676011339 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 384676011340 FAD binding domain; Region: FAD_binding_4; pfam01565 384676011341 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 384676011342 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676011343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011344 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 384676011345 dimerization interface [polypeptide binding]; other site 384676011346 aromatic amino acid transporter; Provisional; Region: PRK10238 384676011347 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 384676011348 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 384676011349 RNA binding surface [nucleotide binding]; other site 384676011350 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 384676011351 probable active site [active] 384676011352 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 384676011353 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 384676011354 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 384676011355 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 384676011356 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 384676011357 active site 384676011358 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 384676011359 intracellular septation protein A; Reviewed; Region: PRK00259 384676011360 YciI-like protein; Reviewed; Region: PRK11370 384676011361 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 384676011362 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676011363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011364 active site 384676011365 phosphorylation site [posttranslational modification] 384676011366 intermolecular recognition site; other site 384676011367 dimerization interface [polypeptide binding]; other site 384676011368 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 384676011369 DNA binding site [nucleotide binding] 384676011370 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 384676011371 two-component sensor protein; Provisional; Region: cpxA; PRK09470 384676011372 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 384676011373 dimerization interface [polypeptide binding]; other site 384676011374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676011375 ATP binding site [chemical binding]; other site 384676011376 G-X-G motif; other site 384676011377 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 384676011378 putative FMN binding site [chemical binding]; other site 384676011379 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 384676011380 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 384676011381 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676011382 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676011383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676011384 Protein of unknown function (DUF962); Region: DUF962; pfam06127 384676011385 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 384676011386 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 384676011387 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 384676011388 putative active site [active] 384676011389 putative metal binding site [ion binding]; other site 384676011390 Cupin domain; Region: Cupin_2; cl17218 384676011391 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676011392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676011393 EamA-like transporter family; Region: EamA; pfam00892 384676011394 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 384676011395 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 384676011396 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 384676011397 active site 384676011398 nucleophile elbow; other site 384676011399 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676011400 Surface antigen; Region: Bac_surface_Ag; pfam01103 384676011401 transcriptional regulator SlyA; Provisional; Region: PRK03573 384676011402 MarR family; Region: MarR_2; pfam12802 384676011403 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 384676011404 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 384676011405 ATP binding site [chemical binding]; other site 384676011406 putative Mg++ binding site [ion binding]; other site 384676011407 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 384676011408 nucleotide binding region [chemical binding]; other site 384676011409 ATP-binding site [chemical binding]; other site 384676011410 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 384676011411 HRDC domain; Region: HRDC; pfam00570 384676011412 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 384676011413 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 384676011414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 384676011415 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 384676011416 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 384676011417 VCBS repeat; Region: VCBS_repeat; TIGR01965 384676011418 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 384676011419 metal ion-dependent adhesion site (MIDAS); other site 384676011420 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 384676011421 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 384676011422 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676011423 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 384676011424 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 384676011425 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676011426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676011427 Walker A/P-loop; other site 384676011428 ATP binding site [chemical binding]; other site 384676011429 Q-loop/lid; other site 384676011430 ABC transporter signature motif; other site 384676011431 Walker B; other site 384676011432 D-loop; other site 384676011433 H-loop/switch region; other site 384676011434 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 384676011435 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676011436 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676011437 Uncharacterized conserved protein [Function unknown]; Region: COG3148 384676011438 PAS domain; Region: PAS_9; pfam13426 384676011439 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 384676011440 putative active site [active] 384676011441 heme pocket [chemical binding]; other site 384676011442 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676011443 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676011444 dimer interface [polypeptide binding]; other site 384676011445 putative CheW interface [polypeptide binding]; other site 384676011446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011448 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 384676011449 dimerization interface [polypeptide binding]; other site 384676011450 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 384676011451 agmatinase; Region: agmatinase; TIGR01230 384676011452 oligomer interface [polypeptide binding]; other site 384676011453 putative active site [active] 384676011454 Mn binding site [ion binding]; other site 384676011455 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 384676011456 Na binding site [ion binding]; other site 384676011457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011459 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 384676011460 putative dimerization interface [polypeptide binding]; other site 384676011461 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676011462 putative substrate translocation pore; other site 384676011463 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 384676011464 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 384676011465 EamA-like transporter family; Region: EamA; pfam00892 384676011466 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 384676011467 Transposase; Region: HTH_Tnp_1; pfam01527 384676011468 putative transposase OrfB; Reviewed; Region: PHA02517 384676011469 HTH-like domain; Region: HTH_21; pfam13276 384676011470 Integrase core domain; Region: rve; pfam00665 384676011471 Integrase core domain; Region: rve_2; pfam13333 384676011472 haemagglutination activity domain; Region: Haemagg_act; pfam05860 384676011473 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 384676011474 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 384676011475 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 384676011476 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 384676011477 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 384676011478 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 384676011479 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 384676011480 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 384676011481 Protein of unknown function (DUF497); Region: DUF497; pfam04365 384676011482 helicase 45; Provisional; Region: PTZ00424 384676011483 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 384676011484 ATP binding site [chemical binding]; other site 384676011485 Mg++ binding site [ion binding]; other site 384676011486 motif III; other site 384676011487 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 384676011488 nucleotide binding region [chemical binding]; other site 384676011489 ATP-binding site [chemical binding]; other site 384676011490 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 384676011491 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676011492 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676011493 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676011494 putative substrate translocation pore; other site 384676011495 aspartate aminotransferase; Provisional; Region: PRK05764 384676011496 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 384676011497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011498 homodimer interface [polypeptide binding]; other site 384676011499 catalytic residue [active] 384676011500 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 384676011501 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 384676011502 tetramer interface [polypeptide binding]; other site 384676011503 active site 384676011504 Mg2+/Mn2+ binding site [ion binding]; other site 384676011505 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011506 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011507 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 384676011508 dimerization interface [polypeptide binding]; other site 384676011509 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 384676011510 azoreductase; Reviewed; Region: PRK00170 384676011511 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 384676011512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011514 LysR substrate binding domain; Region: LysR_substrate; pfam03466 384676011515 dimerization interface [polypeptide binding]; other site 384676011516 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 384676011517 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676011518 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 384676011519 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 384676011520 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 384676011521 substrate binding site [chemical binding]; other site 384676011522 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 384676011523 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676011524 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676011525 Walker A/P-loop; other site 384676011526 ATP binding site [chemical binding]; other site 384676011527 Q-loop/lid; other site 384676011528 ABC transporter signature motif; other site 384676011529 Walker B; other site 384676011530 D-loop; other site 384676011531 H-loop/switch region; other site 384676011532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 384676011533 Protein of unknown function, DUF482; Region: DUF482; pfam04339 384676011534 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 384676011535 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 384676011536 dimer interface [polypeptide binding]; other site 384676011537 active site 384676011538 CoA binding pocket [chemical binding]; other site 384676011539 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 384676011540 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 384676011541 ATP binding site [chemical binding]; other site 384676011542 putative Mg++ binding site [ion binding]; other site 384676011543 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 384676011544 nucleotide binding region [chemical binding]; other site 384676011545 ATP-binding site [chemical binding]; other site 384676011546 Helicase associated domain (HA2); Region: HA2; pfam04408 384676011547 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 384676011548 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 384676011549 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676011550 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676011551 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676011552 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676011553 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 384676011554 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 384676011555 acyl-activating enzyme (AAE) consensus motif; other site 384676011556 putative AMP binding site [chemical binding]; other site 384676011557 putative active site [active] 384676011558 putative CoA binding site [chemical binding]; other site 384676011559 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 384676011560 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 384676011561 acyl-activating enzyme (AAE) consensus motif; other site 384676011562 putative AMP binding site [chemical binding]; other site 384676011563 putative active site [active] 384676011564 putative CoA binding site [chemical binding]; other site 384676011565 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 384676011566 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676011567 (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 384676011568 dimer interaction site [polypeptide binding]; other site 384676011569 substrate-binding tunnel; other site 384676011570 active site 384676011571 catalytic site [active] 384676011572 substrate binding site [chemical binding]; other site 384676011573 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 384676011574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676011575 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 384676011576 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 384676011577 putative hydrophobic ligand binding site [chemical binding]; other site 384676011578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 384676011579 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 384676011580 SnoaL-like domain; Region: SnoaL_3; pfam13474 384676011581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676011582 Coenzyme A binding pocket [chemical binding]; other site 384676011583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 384676011584 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676011585 RHS Repeat; Region: RHS_repeat; pfam05593 384676011586 RHS Repeat; Region: RHS_repeat; pfam05593 384676011587 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676011588 RHS Repeat; Region: RHS_repeat; pfam05593 384676011589 RHS Repeat; Region: RHS_repeat; pfam05593 384676011590 RHS Repeat; Region: RHS_repeat; pfam05593 384676011591 RHS Repeat; Region: RHS_repeat; pfam05593 384676011592 RHS Repeat; Region: RHS_repeat; pfam05593 384676011593 RHS protein; Region: RHS; pfam03527 384676011594 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676011595 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 384676011596 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 384676011597 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676011598 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676011599 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676011600 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 384676011601 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 384676011602 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 384676011603 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 384676011604 tetramer interface [polypeptide binding]; other site 384676011605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011606 catalytic residue [active] 384676011607 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 384676011608 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676011609 DNA-binding site [nucleotide binding]; DNA binding site 384676011610 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 384676011611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011612 homodimer interface [polypeptide binding]; other site 384676011613 catalytic residue [active] 384676011614 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 384676011615 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676011616 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676011617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676011618 Coenzyme A binding pocket [chemical binding]; other site 384676011619 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 384676011620 active site 384676011621 catalytic residues [active] 384676011622 metal binding site [ion binding]; metal-binding site 384676011623 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 384676011624 CsbD-like; Region: CsbD; pfam05532 384676011625 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 384676011626 S1 domain; Region: S1_2; pfam13509 384676011627 S1 domain; Region: S1_2; pfam13509 384676011628 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 384676011629 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 384676011630 EamA-like transporter family; Region: EamA; pfam00892 384676011631 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 384676011632 EamA-like transporter family; Region: EamA; pfam00892 384676011633 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 384676011634 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 384676011635 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 384676011636 dimer interface [polypeptide binding]; other site 384676011637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011638 catalytic residue [active] 384676011639 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 384676011640 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676011641 Walker A motif; other site 384676011642 ATP binding site [chemical binding]; other site 384676011643 Walker B motif; other site 384676011644 arginine finger; other site 384676011645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 384676011646 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 384676011647 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 384676011648 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 384676011649 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 384676011650 putative active site [active] 384676011651 benzoate transport; Region: 2A0115; TIGR00895 384676011652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676011653 putative substrate translocation pore; other site 384676011654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011656 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 384676011657 dimerization interface [polypeptide binding]; other site 384676011658 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 384676011659 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 384676011660 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 384676011661 putative active site [active] 384676011662 putative dimer interface [polypeptide binding]; other site 384676011663 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 384676011664 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676011665 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 384676011666 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 384676011667 ligand binding site [chemical binding]; other site 384676011668 flexible hinge region; other site 384676011669 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 384676011670 active site 384676011671 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 384676011672 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 384676011673 hypothetical protein; Provisional; Region: PRK05170 384676011674 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 384676011675 putative FMN binding site [chemical binding]; other site 384676011676 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 384676011677 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 384676011678 NAD binding site [chemical binding]; other site 384676011679 ligand binding site [chemical binding]; other site 384676011680 catalytic site [active] 384676011681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 384676011682 ribonuclease D; Region: rnd; TIGR01388 384676011683 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 384676011684 catalytic site [active] 384676011685 putative active site [active] 384676011686 putative substrate binding site [chemical binding]; other site 384676011687 HRDC domain; Region: HRDC; pfam00570 384676011688 putative metal dependent hydrolase; Provisional; Region: PRK11598 384676011689 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 384676011690 Sulfatase; Region: Sulfatase; pfam00884 384676011691 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 384676011692 putative substrate binding pocket [chemical binding]; other site 384676011693 trimer interface [polypeptide binding]; other site 384676011694 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 384676011695 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 384676011696 homodimer interface [polypeptide binding]; other site 384676011697 substrate-cofactor binding pocket; other site 384676011698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676011699 catalytic residue [active] 384676011700 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676011701 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 384676011702 putative DNA binding site [nucleotide binding]; other site 384676011703 putative Zn2+ binding site [ion binding]; other site 384676011704 AsnC family; Region: AsnC_trans_reg; pfam01037 384676011705 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 384676011706 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 384676011707 putative molybdopterin cofactor binding site [chemical binding]; other site 384676011708 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 384676011709 putative molybdopterin cofactor binding site; other site 384676011710 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 384676011711 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 384676011712 FeS/SAM binding site; other site 384676011713 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 384676011714 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 384676011715 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 384676011716 MPT binding site; other site 384676011717 trimer interface [polypeptide binding]; other site 384676011718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676011719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011720 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 384676011721 dimerization interface [polypeptide binding]; other site 384676011722 PAS fold; Region: PAS_4; pfam08448 384676011723 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676011724 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676011725 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676011726 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 384676011727 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 384676011728 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 384676011729 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 384676011730 inhibitor site; inhibition site 384676011731 active site 384676011732 dimer interface [polypeptide binding]; other site 384676011733 catalytic residue [active] 384676011734 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 384676011735 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 384676011736 dimer interface [polypeptide binding]; other site 384676011737 NADP binding site [chemical binding]; other site 384676011738 catalytic residues [active] 384676011739 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 384676011740 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 384676011741 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 384676011742 active site 384676011743 FMN binding site [chemical binding]; other site 384676011744 substrate binding site [chemical binding]; other site 384676011745 homotetramer interface [polypeptide binding]; other site 384676011746 catalytic residue [active] 384676011747 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 384676011748 dimerization interface [polypeptide binding]; other site 384676011749 putative DNA binding site [nucleotide binding]; other site 384676011750 putative Zn2+ binding site [ion binding]; other site 384676011751 malate:quinone oxidoreductase; Validated; Region: PRK05257 384676011752 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 384676011753 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 384676011754 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676011755 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 384676011756 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 384676011757 ATP binding site [chemical binding]; other site 384676011758 active site 384676011759 substrate binding site [chemical binding]; other site 384676011760 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 384676011761 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 384676011762 dihydrodipicolinate synthase; Region: dapA; TIGR00674 384676011763 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 384676011764 dimer interface [polypeptide binding]; other site 384676011765 active site 384676011766 catalytic residue [active] 384676011767 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 384676011768 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 384676011769 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 384676011770 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 384676011771 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 384676011772 catalytic triad [active] 384676011773 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 384676011774 Domain of unknown function DUF20; Region: UPF0118; pfam01594 384676011775 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 384676011776 CPxP motif; other site 384676011777 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 384676011778 Peptidase family M48; Region: Peptidase_M48; cl12018 384676011779 quinolinate synthetase; Provisional; Region: PRK09375 384676011780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 384676011781 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 384676011782 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676011783 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 384676011784 dimerization interface [polypeptide binding]; other site 384676011785 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676011786 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676011787 dimer interface [polypeptide binding]; other site 384676011788 putative CheW interface [polypeptide binding]; other site 384676011789 hypothetical protein; Provisional; Region: PRK10649 384676011790 Sulfatase; Region: Sulfatase; pfam00884 384676011791 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 384676011792 trimer interface [polypeptide binding]; other site 384676011793 active site 384676011794 substrate binding site [chemical binding]; other site 384676011795 CoA binding site [chemical binding]; other site 384676011796 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 384676011797 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 384676011798 active site 384676011799 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676011800 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 384676011801 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 384676011802 putative active site [active] 384676011803 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676011804 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 384676011805 Walker A/P-loop; other site 384676011806 ATP binding site [chemical binding]; other site 384676011807 Q-loop/lid; other site 384676011808 ABC transporter signature motif; other site 384676011809 Walker B; other site 384676011810 D-loop; other site 384676011811 H-loop/switch region; other site 384676011812 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 384676011813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676011814 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676011815 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 384676011816 Ligand Binding Site [chemical binding]; other site 384676011817 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 384676011818 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 384676011819 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 384676011820 binding surface 384676011821 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 384676011822 TPR motif; other site 384676011823 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 384676011824 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676011825 ligand binding site [chemical binding]; other site 384676011826 translocation protein TolB; Provisional; Region: tolB; PRK00178 384676011827 TolB amino-terminal domain; Region: TolB_N; pfam04052 384676011828 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 384676011829 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 384676011830 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 384676011831 TolA protein; Region: tolA_full; TIGR02794 384676011832 TolA protein; Region: tolA_full; TIGR02794 384676011833 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 384676011834 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 384676011835 TolR protein; Region: tolR; TIGR02801 384676011836 TolQ protein; Region: tolQ; TIGR02796 384676011837 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 384676011838 active site 384676011839 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 384676011840 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676011841 Walker A motif; other site 384676011842 ATP binding site [chemical binding]; other site 384676011843 Walker B motif; other site 384676011844 arginine finger; other site 384676011845 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 384676011846 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 384676011847 RuvA N terminal domain; Region: RuvA_N; pfam01330 384676011848 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 384676011849 active site 384676011850 putative DNA-binding cleft [nucleotide binding]; other site 384676011851 dimer interface [polypeptide binding]; other site 384676011852 hypothetical protein; Validated; Region: PRK00110 384676011853 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 384676011854 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 384676011855 dimer interface [polypeptide binding]; other site 384676011856 anticodon binding site; other site 384676011857 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 384676011858 homodimer interface [polypeptide binding]; other site 384676011859 motif 1; other site 384676011860 active site 384676011861 motif 2; other site 384676011862 GAD domain; Region: GAD; pfam02938 384676011863 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 384676011864 active site 384676011865 motif 3; other site 384676011866 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 384676011867 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 384676011868 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 384676011869 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 384676011870 dimerization interface [polypeptide binding]; other site 384676011871 DPS ferroxidase diiron center [ion binding]; other site 384676011872 ion pore; other site 384676011873 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 384676011874 DNA-binding site [nucleotide binding]; DNA binding site 384676011875 RNA-binding motif; other site 384676011876 hypothetical protein; Provisional; Region: PRK00295 384676011877 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 384676011878 outer membrane porin, OprD family; Region: OprD; pfam03573 384676011879 prolyl-tRNA synthetase; Provisional; Region: PRK09194 384676011880 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 384676011881 dimer interface [polypeptide binding]; other site 384676011882 motif 1; other site 384676011883 active site 384676011884 motif 2; other site 384676011885 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 384676011886 putative deacylase active site [active] 384676011887 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 384676011888 active site 384676011889 motif 3; other site 384676011890 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 384676011891 anticodon binding site; other site 384676011892 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 384676011893 active site 384676011894 DNA polymerase IV; Validated; Region: PRK02406 384676011895 DNA binding site [nucleotide binding] 384676011896 Predicted integral membrane protein [Function unknown]; Region: COG0392 384676011897 Uncharacterized conserved protein [Function unknown]; Region: COG2898 384676011898 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 384676011899 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 384676011900 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 384676011901 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 384676011902 potassium uptake protein; Region: kup; TIGR00794 384676011903 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 384676011904 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 384676011905 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 384676011906 FeS/SAM binding site; other site 384676011907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676011908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676011909 Coenzyme A binding pocket [chemical binding]; other site 384676011910 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 384676011911 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 384676011912 RNA binding surface [nucleotide binding]; other site 384676011913 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 384676011914 active site 384676011915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 384676011916 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 384676011917 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 384676011918 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 384676011919 homodimer interaction site [polypeptide binding]; other site 384676011920 cofactor binding site; other site 384676011921 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 384676011922 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 384676011923 FAD binding pocket [chemical binding]; other site 384676011924 FAD binding motif [chemical binding]; other site 384676011925 phosphate binding motif [ion binding]; other site 384676011926 beta-alpha-beta structure motif; other site 384676011927 NAD binding pocket [chemical binding]; other site 384676011928 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 384676011929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676011930 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 384676011931 putative dimerization interface [polypeptide binding]; other site 384676011932 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 384676011933 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 384676011934 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676011935 active site 384676011936 phosphorylation site [posttranslational modification] 384676011937 intermolecular recognition site; other site 384676011938 dimerization interface [polypeptide binding]; other site 384676011939 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 384676011940 DNA binding residues [nucleotide binding] 384676011941 dimerization interface [polypeptide binding]; other site 384676011942 Uncharacterized conserved protein [Function unknown]; Region: COG3148 384676011943 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 384676011944 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 384676011945 recombination regulator RecX; Reviewed; Region: recX; PRK00117 384676011946 recombinase A; Provisional; Region: recA; PRK09354 384676011947 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 384676011948 hexamer interface [polypeptide binding]; other site 384676011949 Walker A motif; other site 384676011950 ATP binding site [chemical binding]; other site 384676011951 Walker B motif; other site 384676011952 Competence-damaged protein; Region: CinA; cl00666 384676011953 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 384676011954 Predicted chitinase [General function prediction only]; Region: COG3179 384676011955 catalytic residue [active] 384676011956 Mu-like prophage protein Com; Region: Mu-like_Com; pfam10122 384676011957 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 384676011958 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 384676011959 Phage protein GP46; Region: GP46; pfam07409 384676011960 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 384676011961 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 384676011962 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676011963 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 384676011964 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 384676011965 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 384676011966 Phage tail tube protein; Region: Tail_tube; pfam10618 384676011967 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 384676011968 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 384676011969 Protein of unknown function (DUF2635); Region: DUF2635; pfam10948 384676011970 Phage protein D [General function prediction only]; Region: COG3500 384676011971 Phage Tail Protein X; Region: Phage_tail_X; cl02088 384676011972 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 384676011973 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 384676011974 Phage tail tube protein FII; Region: Phage_tube; pfam04985 384676011975 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 384676011976 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 384676011977 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 384676011978 Phage Tail Collar Domain; Region: Collar; pfam07484 384676011979 Phage Tail Collar Domain; Region: Collar; pfam07484 384676011980 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 384676011981 Baseplate J-like protein; Region: Baseplate_J; cl01294 384676011982 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 384676011983 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 384676011984 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 384676011985 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 384676011986 Phage-related protein, tail component [Function unknown]; Region: COG4733 384676011987 Putative phage tail protein; Region: Phage-tail_3; pfam13550 384676011988 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 384676011989 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 384676011990 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 384676011991 Phage-related protein, tail component [Function unknown]; Region: COG4723 384676011992 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 384676011993 MPN+ (JAMM) motif; other site 384676011994 Zinc-binding site [ion binding]; other site 384676011995 NlpC/P60 family; Region: NLPC_P60; cl17555 384676011996 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 384676011997 Phage-related protein [Function unknown]; Region: gp18; COG4672 384676011998 Phage minor tail protein; Region: Phage_min_tail; pfam05939 384676011999 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 384676012000 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 384676012001 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 384676012002 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 384676012003 non-specific DNA binding site [nucleotide binding]; other site 384676012004 salt bridge; other site 384676012005 sequence-specific DNA binding site [nucleotide binding]; other site 384676012006 Predicted transcriptional regulator [Transcription]; Region: COG2932 384676012007 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 384676012008 Catalytic site [active] 384676012009 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 384676012010 MutS domain I; Region: MutS_I; pfam01624 384676012011 MutS domain II; Region: MutS_II; pfam05188 384676012012 MutS domain III; Region: MutS_III; pfam05192 384676012013 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 384676012014 Walker A/P-loop; other site 384676012015 ATP binding site [chemical binding]; other site 384676012016 Q-loop/lid; other site 384676012017 ABC transporter signature motif; other site 384676012018 Walker B; other site 384676012019 D-loop; other site 384676012020 H-loop/switch region; other site 384676012021 Ferredoxin [Energy production and conversion]; Region: COG1146 384676012022 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 384676012023 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 384676012024 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 384676012025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676012026 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 384676012027 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 384676012028 DNA binding residues [nucleotide binding] 384676012029 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676012030 Peptidase family M23; Region: Peptidase_M23; pfam01551 384676012031 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 384676012032 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012033 S-adenosylmethionine binding site [chemical binding]; other site 384676012034 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 384676012035 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 384676012036 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 384676012037 Permutation of conserved domain; other site 384676012038 active site 384676012039 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 384676012040 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 384676012041 homotrimer interaction site [polypeptide binding]; other site 384676012042 zinc binding site [ion binding]; other site 384676012043 CDP-binding sites; other site 384676012044 S-formylglutathione hydrolase; Region: PLN02442 384676012045 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 384676012046 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 384676012047 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 384676012048 substrate binding site [chemical binding]; other site 384676012049 catalytic Zn binding site [ion binding]; other site 384676012050 NAD binding site [chemical binding]; other site 384676012051 structural Zn binding site [ion binding]; other site 384676012052 dimer interface [polypeptide binding]; other site 384676012053 LysR family transcriptional regulator; Provisional; Region: PRK14997 384676012054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676012055 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 384676012056 putative effector binding pocket; other site 384676012057 putative dimerization interface [polypeptide binding]; other site 384676012058 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 384676012059 substrate binding site; other site 384676012060 dimer interface; other site 384676012061 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 384676012062 Septum formation initiator; Region: DivIC; cl17659 384676012063 enolase; Provisional; Region: eno; PRK00077 384676012064 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 384676012065 dimer interface [polypeptide binding]; other site 384676012066 metal binding site [ion binding]; metal-binding site 384676012067 substrate binding pocket [chemical binding]; other site 384676012068 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 384676012069 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 384676012070 CTP synthetase; Validated; Region: pyrG; PRK05380 384676012071 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 384676012072 Catalytic site [active] 384676012073 active site 384676012074 UTP binding site [chemical binding]; other site 384676012075 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 384676012076 active site 384676012077 putative oxyanion hole; other site 384676012078 catalytic triad [active] 384676012079 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 384676012080 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 384676012081 Ligand Binding Site [chemical binding]; other site 384676012082 TilS substrate binding domain; Region: TilS; pfam09179 384676012083 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 384676012084 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 384676012085 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 384676012086 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 384676012087 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 384676012088 putative active site [active] 384676012089 putative PHP Thumb interface [polypeptide binding]; other site 384676012090 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 384676012091 generic binding surface II; other site 384676012092 generic binding surface I; other site 384676012093 Ribosomal L15; Region: Ribosomal_L15e; cl02977 384676012094 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 384676012095 RNA/DNA hybrid binding site [nucleotide binding]; other site 384676012096 active site 384676012097 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 384676012098 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 384676012099 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 384676012100 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 384676012101 active site 384676012102 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 384676012103 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 384676012104 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 384676012105 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 384676012106 trimer interface [polypeptide binding]; other site 384676012107 active site 384676012108 UDP-GlcNAc binding site [chemical binding]; other site 384676012109 lipid binding site [chemical binding]; lipid-binding site 384676012110 periplasmic chaperone; Provisional; Region: PRK10780 384676012111 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 384676012112 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 384676012113 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676012114 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676012115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676012116 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 384676012117 Surface antigen; Region: Bac_surface_Ag; pfam01103 384676012118 zinc metallopeptidase RseP; Provisional; Region: PRK10779 384676012119 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 384676012120 active site 384676012121 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 384676012122 protein binding site [polypeptide binding]; other site 384676012123 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 384676012124 protein binding site [polypeptide binding]; other site 384676012125 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 384676012126 putative substrate binding region [chemical binding]; other site 384676012127 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 384676012128 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 384676012129 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 384676012130 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 384676012131 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 384676012132 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 384676012133 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 384676012134 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 384676012135 catalytic residue [active] 384676012136 putative FPP diphosphate binding site; other site 384676012137 putative FPP binding hydrophobic cleft; other site 384676012138 dimer interface [polypeptide binding]; other site 384676012139 putative IPP diphosphate binding site; other site 384676012140 ribosome recycling factor; Reviewed; Region: frr; PRK00083 384676012141 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 384676012142 hinge region; other site 384676012143 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 384676012144 putative nucleotide binding site [chemical binding]; other site 384676012145 uridine monophosphate binding site [chemical binding]; other site 384676012146 homohexameric interface [polypeptide binding]; other site 384676012147 elongation factor Ts; Provisional; Region: tsf; PRK09377 384676012148 UBA/TS-N domain; Region: UBA; pfam00627 384676012149 Elongation factor TS; Region: EF_TS; pfam00889 384676012150 Elongation factor TS; Region: EF_TS; pfam00889 384676012151 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 384676012152 rRNA interaction site [nucleotide binding]; other site 384676012153 S8 interaction site; other site 384676012154 putative laminin-1 binding site; other site 384676012155 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 384676012156 active site 384676012157 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 384676012158 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 384676012159 metal binding triad; other site 384676012160 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 384676012161 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 384676012162 Zn2+ binding site [ion binding]; other site 384676012163 Mg2+ binding site [ion binding]; other site 384676012164 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 384676012165 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 384676012166 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 384676012167 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 384676012168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676012169 homodimer interface [polypeptide binding]; other site 384676012170 catalytic residue [active] 384676012171 Zinc-dependent metalloprotease; MMP_like sub-family 3. A group of bacterial and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_3; cd04327 384676012172 active site 384676012173 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 384676012174 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 384676012175 ArsC family; Region: ArsC; pfam03960 384676012176 putative catalytic residues [active] 384676012177 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 384676012178 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 384676012179 putative trimer interface [polypeptide binding]; other site 384676012180 putative CoA binding site [chemical binding]; other site 384676012181 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 384676012182 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 384676012183 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 384676012184 catalytic residue [active] 384676012185 Fe-S metabolism associated domain; Region: SufE; cl00951 384676012186 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 384676012187 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 384676012188 putative ATP binding site [chemical binding]; other site 384676012189 putative substrate interface [chemical binding]; other site 384676012190 Exo-beta-1,3-glucanase [Carbohydrate transport and metabolism]; Region: COG5309 384676012191 PMP-22/EMP/MP20/Claudin family; Region: PMP22_Claudin; cl17758 384676012192 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676012193 NdvC_like proteins in this family are putative bacterial beta-(1,6)-glucosyltransferase; Region: CESA_NdvC_like; cd06435 384676012194 Ligand binding site; other site 384676012195 DXD motif; other site 384676012196 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 384676012197 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 384676012198 metal binding site [ion binding]; metal-binding site 384676012199 dimer interface [polypeptide binding]; other site 384676012200 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 384676012201 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012202 S-adenosylmethionine binding site [chemical binding]; other site 384676012203 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 384676012204 DNA-binding site [nucleotide binding]; DNA binding site 384676012205 RNA-binding motif; other site 384676012206 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 384676012207 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 384676012208 putative acyl-acceptor binding pocket; other site 384676012209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 384676012210 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 384676012211 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 384676012212 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676012213 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676012214 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676012215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676012216 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676012217 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 384676012218 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 384676012219 DHH family; Region: DHH; pfam01368 384676012220 DHHA1 domain; Region: DHHA1; pfam02272 384676012221 YaeQ protein; Region: YaeQ; pfam07152 384676012222 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 384676012223 CoA-transferase family III; Region: CoA_transf_3; pfam02515 384676012224 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 384676012225 conserved hypothetical protein; Region: TIGR02285 384676012226 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 384676012227 Response regulator receiver domain; Region: Response_reg; pfam00072 384676012228 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 384676012229 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 384676012230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676012231 catalytic residue [active] 384676012232 homoserine dehydrogenase; Provisional; Region: PRK06349 384676012233 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 384676012234 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 384676012235 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 384676012236 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 384676012237 dimerization domain [polypeptide binding]; other site 384676012238 dimer interface [polypeptide binding]; other site 384676012239 catalytic residues [active] 384676012240 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 384676012241 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 384676012242 active site 384676012243 Int/Topo IB signature motif; other site 384676012244 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 384676012245 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 384676012246 TrkA-N domain; Region: TrkA_N; pfam02254 384676012247 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 384676012248 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 384676012249 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 384676012250 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 384676012251 RimM N-terminal domain; Region: RimM; pfam01782 384676012252 PRC-barrel domain; Region: PRC; pfam05239 384676012253 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 384676012254 signal recognition particle protein; Provisional; Region: PRK10867 384676012255 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 384676012256 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 384676012257 P loop; other site 384676012258 GTP binding site [chemical binding]; other site 384676012259 Signal peptide binding domain; Region: SRP_SPB; pfam02978 384676012260 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 384676012261 Domain of unknown function DUF21; Region: DUF21; pfam01595 384676012262 FOG: CBS domain [General function prediction only]; Region: COG0517 384676012263 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 384676012264 Transporter associated domain; Region: CorC_HlyC; smart01091 384676012265 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012266 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676012267 putative substrate translocation pore; other site 384676012268 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 384676012269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676012270 ATP-grasp domain; Region: ATP-grasp; pfam02222 384676012271 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 384676012272 Predicted Fe-S protein [General function prediction only]; Region: COG3313 384676012273 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 384676012274 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 384676012275 trimer interface [polypeptide binding]; other site 384676012276 putative metal binding site [ion binding]; other site 384676012277 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 384676012278 putative active site [active] 384676012279 putative CoA binding site [chemical binding]; other site 384676012280 nudix motif; other site 384676012281 metal binding site [ion binding]; metal-binding site 384676012282 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 384676012283 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 384676012284 nudix motif; other site 384676012285 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 384676012286 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 384676012287 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 384676012288 GspL periplasmic domain; Region: GspL_C; cl14909 384676012289 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 384676012290 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 384676012291 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 384676012292 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 384676012293 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 384676012294 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 384676012295 type II secretion system protein F; Region: GspF; TIGR02120 384676012296 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676012297 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676012298 type II secretion system protein E; Region: type_II_gspE; TIGR02533 384676012299 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 384676012300 Walker A motif; other site 384676012301 ATP binding site [chemical binding]; other site 384676012302 Walker B motif; other site 384676012303 type II secretion system protein D; Region: type_II_gspD; TIGR02517 384676012304 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676012305 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676012306 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 384676012307 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 384676012308 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 384676012309 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 384676012310 active site 384676012311 metal binding site [ion binding]; metal-binding site 384676012312 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 384676012313 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 384676012314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676012315 active site 384676012316 phosphorylation site [posttranslational modification] 384676012317 intermolecular recognition site; other site 384676012318 dimerization interface [polypeptide binding]; other site 384676012319 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 384676012320 DNA binding site [nucleotide binding] 384676012321 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 384676012322 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 384676012323 dimerization interface [polypeptide binding]; other site 384676012324 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 384676012325 dimer interface [polypeptide binding]; other site 384676012326 phosphorylation site [posttranslational modification] 384676012327 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012328 ATP binding site [chemical binding]; other site 384676012329 Mg2+ binding site [ion binding]; other site 384676012330 G-X-G motif; other site 384676012331 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 384676012332 active site 384676012333 hydrophilic channel; other site 384676012334 dimerization interface [polypeptide binding]; other site 384676012335 catalytic residues [active] 384676012336 active site lid [active] 384676012337 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 384676012338 Recombination protein O N terminal; Region: RecO_N; pfam11967 384676012339 Recombination protein O C terminal; Region: RecO_C; pfam02565 384676012340 GTPase Era; Reviewed; Region: era; PRK00089 384676012341 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 384676012342 G1 box; other site 384676012343 GTP/Mg2+ binding site [chemical binding]; other site 384676012344 Switch I region; other site 384676012345 G2 box; other site 384676012346 Switch II region; other site 384676012347 G3 box; other site 384676012348 G4 box; other site 384676012349 G5 box; other site 384676012350 KH domain; Region: KH_2; pfam07650 384676012351 ribonuclease III; Reviewed; Region: rnc; PRK00102 384676012352 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 384676012353 dimerization interface [polypeptide binding]; other site 384676012354 active site 384676012355 metal binding site [ion binding]; metal-binding site 384676012356 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 384676012357 dsRNA binding site [nucleotide binding]; other site 384676012358 signal peptidase I; Provisional; Region: PRK10861 384676012359 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 384676012360 Catalytic site [active] 384676012361 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 384676012362 GTP-binding protein LepA; Provisional; Region: PRK05433 384676012363 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 384676012364 G1 box; other site 384676012365 putative GEF interaction site [polypeptide binding]; other site 384676012366 GTP/Mg2+ binding site [chemical binding]; other site 384676012367 Switch I region; other site 384676012368 G2 box; other site 384676012369 G3 box; other site 384676012370 Switch II region; other site 384676012371 G4 box; other site 384676012372 G5 box; other site 384676012373 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 384676012374 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 384676012375 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 384676012376 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 384676012377 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 384676012378 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 384676012379 protein binding site [polypeptide binding]; other site 384676012380 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 384676012381 protein binding site [polypeptide binding]; other site 384676012382 anti-sigma E factor; Provisional; Region: rseB; PRK09455 384676012383 MucB/RseB family; Region: MucB_RseB; pfam03888 384676012384 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 384676012385 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 384676012386 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 384676012387 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 384676012388 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676012389 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 384676012390 DNA binding residues [nucleotide binding] 384676012391 L-aspartate oxidase; Provisional; Region: PRK09077 384676012392 L-aspartate oxidase; Provisional; Region: PRK06175 384676012393 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 384676012394 Uncharacterized conserved protein [Function unknown]; Region: COG2938 384676012395 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 384676012396 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 384676012397 HDOD domain; Region: HDOD; pfam08668 384676012398 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 384676012399 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 384676012400 dimerization interface [polypeptide binding]; other site 384676012401 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 384676012402 dimer interface [polypeptide binding]; other site 384676012403 phosphorylation site [posttranslational modification] 384676012404 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012405 ATP binding site [chemical binding]; other site 384676012406 Mg2+ binding site [ion binding]; other site 384676012407 G-X-G motif; other site 384676012408 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 384676012409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676012410 active site 384676012411 phosphorylation site [posttranslational modification] 384676012412 intermolecular recognition site; other site 384676012413 dimerization interface [polypeptide binding]; other site 384676012414 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 384676012415 DNA binding site [nucleotide binding] 384676012416 outer membrane porin, OprD family; Region: OprD; pfam03573 384676012417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 384676012418 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 384676012419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 384676012420 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 384676012421 Putative ammonia monooxygenase; Region: AmoA; pfam05145 384676012422 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 384676012423 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 384676012424 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676012425 catalytic residues [active] 384676012426 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 384676012427 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 384676012428 Autotransporter beta-domain; Region: Autotransporter; pfam03797 384676012429 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 384676012430 ligand binding site [chemical binding]; other site 384676012431 active site 384676012432 UGI interface [polypeptide binding]; other site 384676012433 catalytic site [active] 384676012434 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 384676012435 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 384676012436 substrate binding site [chemical binding]; other site 384676012437 oxyanion hole (OAH) forming residues; other site 384676012438 trimer interface [polypeptide binding]; other site 384676012439 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 384676012440 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676012441 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676012442 metal binding site [ion binding]; metal-binding site 384676012443 active site 384676012444 I-site; other site 384676012445 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 384676012446 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 384676012447 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 384676012448 RNA binding surface [nucleotide binding]; other site 384676012449 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 384676012450 active site 384676012451 uracil binding [chemical binding]; other site 384676012452 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676012453 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 384676012454 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 384676012455 Sulfate transporter family; Region: Sulfate_transp; pfam00916 384676012456 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 384676012457 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 384676012458 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 384676012459 non-specific DNA binding site [nucleotide binding]; other site 384676012460 salt bridge; other site 384676012461 sequence-specific DNA binding site [nucleotide binding]; other site 384676012462 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 384676012463 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 384676012464 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 384676012465 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676012466 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676012467 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 384676012468 N-terminal plug; other site 384676012469 ligand-binding site [chemical binding]; other site 384676012470 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676012471 FecR protein; Region: FecR; pfam04773 384676012472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676012473 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 384676012474 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 384676012475 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 384676012476 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 384676012477 active site 384676012478 catalytic site [active] 384676012479 metal binding site [ion binding]; metal-binding site 384676012480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676012481 RNA polymerase sigma factor; Reviewed; Region: PRK12527 384676012482 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 384676012483 DNA binding residues [nucleotide binding] 384676012484 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676012485 FecR protein; Region: FecR; pfam04773 384676012486 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676012487 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 384676012488 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 384676012489 N-terminal plug; other site 384676012490 ligand-binding site [chemical binding]; other site 384676012491 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 384676012492 Methyltransferase domain; Region: Methyltransf_31; pfam13847 384676012493 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012494 S-adenosylmethionine binding site [chemical binding]; other site 384676012495 Repair protein; Region: Repair_PSII; cl01535 384676012496 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 384676012497 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 384676012498 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 384676012499 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 384676012500 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 384676012501 dimer interface [polypeptide binding]; other site 384676012502 phosphorylation site [posttranslational modification] 384676012503 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012504 ATP binding site [chemical binding]; other site 384676012505 Mg2+ binding site [ion binding]; other site 384676012506 G-X-G motif; other site 384676012507 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676012508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676012509 active site 384676012510 phosphorylation site [posttranslational modification] 384676012511 intermolecular recognition site; other site 384676012512 dimerization interface [polypeptide binding]; other site 384676012513 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676012514 Walker A motif; other site 384676012515 ATP binding site [chemical binding]; other site 384676012516 Walker B motif; other site 384676012517 arginine finger; other site 384676012518 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 384676012519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012520 putative substrate translocation pore; other site 384676012521 Fic family protein [Function unknown]; Region: COG3177 384676012522 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 384676012523 Fic/DOC family; Region: Fic; pfam02661 384676012524 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 384676012525 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 384676012526 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 384676012527 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 384676012528 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 384676012529 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 384676012530 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 384676012531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676012532 hypothetical protein; Provisional; Region: PRK07524 384676012533 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 384676012534 PYR/PP interface [polypeptide binding]; other site 384676012535 dimer interface [polypeptide binding]; other site 384676012536 TPP binding site [chemical binding]; other site 384676012537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 384676012538 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 384676012539 TPP-binding site [chemical binding]; other site 384676012540 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676012541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676012542 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 384676012543 substrate binding pocket [chemical binding]; other site 384676012544 dimerization interface [polypeptide binding]; other site 384676012545 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 384676012546 NADH(P)-binding; Region: NAD_binding_10; pfam13460 384676012547 NAD binding site [chemical binding]; other site 384676012548 substrate binding site [chemical binding]; other site 384676012549 putative active site [active] 384676012550 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 384676012551 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676012552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676012553 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 384676012554 putative effector binding pocket; other site 384676012555 dimerization interface [polypeptide binding]; other site 384676012556 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 384676012557 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 384676012558 tetramer interface [polypeptide binding]; other site 384676012559 active site 384676012560 Mg2+/Mn2+ binding site [ion binding]; other site 384676012561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012562 putative substrate translocation pore; other site 384676012563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012564 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 384676012565 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676012566 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 384676012567 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676012568 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676012569 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676012570 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 384676012571 Protein export membrane protein; Region: SecD_SecF; cl14618 384676012572 Protein export membrane protein; Region: SecD_SecF; cl14618 384676012573 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676012574 outer membrane porin, OprD family; Region: OprD; pfam03573 384676012575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676012576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676012577 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 384676012578 dimerization interface [polypeptide binding]; other site 384676012579 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 384676012580 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 384676012581 ligand binding site [chemical binding]; other site 384676012582 flexible hinge region; other site 384676012583 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 384676012584 non-specific DNA interactions [nucleotide binding]; other site 384676012585 DNA binding site [nucleotide binding] 384676012586 sequence specific DNA binding site [nucleotide binding]; other site 384676012587 putative cAMP binding site [chemical binding]; other site 384676012588 Predicted membrane protein [Function unknown]; Region: COG4539 384676012589 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 384676012590 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676012591 Walker A motif; other site 384676012592 ATP binding site [chemical binding]; other site 384676012593 Walker B motif; other site 384676012594 arginine finger; other site 384676012595 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 384676012596 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 384676012597 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012598 S-adenosylmethionine binding site [chemical binding]; other site 384676012599 Methyltransferase domain; Region: Methyltransf_31; pfam13847 384676012600 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012601 S-adenosylmethionine binding site [chemical binding]; other site 384676012602 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 384676012603 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 384676012604 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676012605 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 384676012606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676012607 DNA-binding site [nucleotide binding]; DNA binding site 384676012608 UTRA domain; Region: UTRA; pfam07702 384676012609 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 384676012610 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 384676012611 active site 384676012612 dimer interface [polypeptide binding]; other site 384676012613 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 384676012614 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 384676012615 dimer interface [polypeptide binding]; other site 384676012616 active site 384676012617 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 384676012618 dimer interface [polypeptide binding]; other site 384676012619 active site 384676012620 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 384676012621 HPr interaction site; other site 384676012622 glycerol kinase (GK) interaction site [polypeptide binding]; other site 384676012623 active site 384676012624 phosphorylation site [posttranslational modification] 384676012625 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 384676012626 dimerization domain swap beta strand [polypeptide binding]; other site 384676012627 regulatory protein interface [polypeptide binding]; other site 384676012628 active site 384676012629 regulatory phosphorylation site [posttranslational modification]; other site 384676012630 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 384676012631 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 384676012632 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 384676012633 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 384676012634 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 384676012635 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 384676012636 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 384676012637 active site turn [active] 384676012638 phosphorylation site [posttranslational modification] 384676012639 phosphotransferase system, EIIB; Region: PTS_EIIB; pfam00367 384676012640 active site turn [active] 384676012641 phosphorylation site [posttranslational modification] 384676012642 Heterokaryon incompatibility protein Het-C; Region: Het-C; pfam07217 384676012643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 384676012644 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 384676012645 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 384676012646 dimerization interface [polypeptide binding]; other site 384676012647 ATP binding site [chemical binding]; other site 384676012648 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 384676012649 dimerization interface [polypeptide binding]; other site 384676012650 ATP binding site [chemical binding]; other site 384676012651 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 384676012652 putative active site [active] 384676012653 catalytic triad [active] 384676012654 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 384676012655 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 384676012656 substrate binding pocket [chemical binding]; other site 384676012657 membrane-bound complex binding site; other site 384676012658 hinge residues; other site 384676012659 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 384676012660 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676012661 catalytic residue [active] 384676012662 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 384676012663 nucleoside/Zn binding site; other site 384676012664 dimer interface [polypeptide binding]; other site 384676012665 catalytic motif [active] 384676012666 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 384676012667 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 384676012668 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 384676012669 C-terminal region of Pasteurella multocida toxin residues 569-1285; Region: PMT_C; pfam11647 384676012670 GMP synthase; Reviewed; Region: guaA; PRK00074 384676012671 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 384676012672 AMP/PPi binding site [chemical binding]; other site 384676012673 candidate oxyanion hole; other site 384676012674 catalytic triad [active] 384676012675 potential glutamine specificity residues [chemical binding]; other site 384676012676 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 384676012677 ATP Binding subdomain [chemical binding]; other site 384676012678 Ligand Binding sites [chemical binding]; other site 384676012679 Dimerization subdomain; other site 384676012680 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 384676012681 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 384676012682 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 384676012683 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 384676012684 active site 384676012685 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676012686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676012687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676012688 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 384676012689 dimerization interface [polypeptide binding]; other site 384676012690 substrate binding pocket [chemical binding]; other site 384676012691 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 384676012692 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 384676012693 generic binding surface II; other site 384676012694 generic binding surface I; other site 384676012695 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 384676012696 Peptidase family M23; Region: Peptidase_M23; pfam01551 384676012697 2-isopropylmalate synthase; Validated; Region: PRK03739 384676012698 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 384676012699 active site 384676012700 catalytic residues [active] 384676012701 metal binding site [ion binding]; metal-binding site 384676012702 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 384676012703 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 384676012704 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 384676012705 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 384676012706 active site 384676012707 intersubunit interface [polypeptide binding]; other site 384676012708 catalytic residue [active] 384676012709 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 384676012710 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 384676012711 putative active site [active] 384676012712 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 384676012713 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 384676012714 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 384676012715 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 384676012716 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 384676012717 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 384676012718 putative active site [active] 384676012719 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 384676012720 active site 384676012721 phosphate binding residues; other site 384676012722 catalytic residues [active] 384676012723 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 384676012724 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 384676012725 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 384676012726 Walker A/P-loop; other site 384676012727 ATP binding site [chemical binding]; other site 384676012728 Q-loop/lid; other site 384676012729 ABC transporter signature motif; other site 384676012730 Walker B; other site 384676012731 D-loop; other site 384676012732 H-loop/switch region; other site 384676012733 TOBE domain; Region: TOBE_2; pfam08402 384676012734 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 384676012735 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676012736 dimer interface [polypeptide binding]; other site 384676012737 conserved gate region; other site 384676012738 putative PBP binding loops; other site 384676012739 ABC-ATPase subunit interface; other site 384676012740 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676012741 dimer interface [polypeptide binding]; other site 384676012742 conserved gate region; other site 384676012743 putative PBP binding loops; other site 384676012744 ABC-ATPase subunit interface; other site 384676012745 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 384676012746 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 384676012747 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 384676012748 putative active cleft [active] 384676012749 sensor protein RstB; Provisional; Region: PRK10604 384676012750 HAMP domain; Region: HAMP; pfam00672 384676012751 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012752 ATP binding site [chemical binding]; other site 384676012753 Mg2+ binding site [ion binding]; other site 384676012754 G-X-G motif; other site 384676012755 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676012756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676012757 active site 384676012758 phosphorylation site [posttranslational modification] 384676012759 intermolecular recognition site; other site 384676012760 dimerization interface [polypeptide binding]; other site 384676012761 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 384676012762 DNA binding site [nucleotide binding] 384676012763 glucokinase; Provisional; Region: glk; PRK00292 384676012764 glucokinase, proteobacterial type; Region: glk; TIGR00749 384676012765 phosphogluconate dehydratase; Validated; Region: PRK09054 384676012766 6-phosphogluconate dehydratase; Region: edd; TIGR01196 384676012767 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 384676012768 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 384676012769 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 384676012770 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 384676012771 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676012772 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 384676012773 DNA binding residues [nucleotide binding] 384676012774 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676012775 FecR protein; Region: FecR; pfam04773 384676012776 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676012777 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 384676012778 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 384676012779 N-terminal plug; other site 384676012780 ligand-binding site [chemical binding]; other site 384676012781 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 384676012782 heme binding pocket [chemical binding]; other site 384676012783 heme ligand [chemical binding]; other site 384676012784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 384676012785 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 384676012786 CoA-transferase family III; Region: CoA_transf_3; pfam02515 384676012787 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 384676012788 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 384676012789 arginine deiminase; Provisional; Region: PRK01388 384676012790 ornithine carbamoyltransferase; Validated; Region: PRK02102 384676012791 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 384676012792 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 384676012793 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 384676012794 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 384676012795 putative substrate binding site [chemical binding]; other site 384676012796 nucleotide binding site [chemical binding]; other site 384676012797 nucleotide binding site [chemical binding]; other site 384676012798 homodimer interface [polypeptide binding]; other site 384676012799 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 384676012800 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 384676012801 putative aromatic amino acid binding site; other site 384676012802 PAS domain; Region: PAS; smart00091 384676012803 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676012804 Walker A motif; other site 384676012805 ATP binding site [chemical binding]; other site 384676012806 Walker B motif; other site 384676012807 arginine finger; other site 384676012808 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 384676012809 active site 384676012810 catalytic residues [active] 384676012811 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 384676012812 Zn binding site [ion binding]; other site 384676012813 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 384676012814 glycine cleavage system protein H; Provisional; Region: PRK13380 384676012815 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 384676012816 lipoyl attachment site [posttranslational modification]; other site 384676012817 glycine dehydrogenase; Provisional; Region: PRK05367 384676012818 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 384676012819 tetramer interface [polypeptide binding]; other site 384676012820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676012821 catalytic residue [active] 384676012822 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 384676012823 tetramer interface [polypeptide binding]; other site 384676012824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676012825 catalytic residue [active] 384676012826 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 384676012827 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 384676012828 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 384676012829 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 384676012830 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 384676012831 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 384676012832 DNA-binding site [nucleotide binding]; DNA binding site 384676012833 RNA-binding motif; other site 384676012834 RDD family; Region: RDD; pfam06271 384676012835 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 384676012836 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 384676012837 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 384676012838 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 384676012839 multifunctional aminopeptidase A; Provisional; Region: PRK00913 384676012840 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 384676012841 interface (dimer of trimers) [polypeptide binding]; other site 384676012842 Substrate-binding/catalytic site; other site 384676012843 Zn-binding sites [ion binding]; other site 384676012844 DNA polymerase III subunit chi; Validated; Region: PRK05728 384676012845 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 384676012846 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 384676012847 HIGH motif; other site 384676012848 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 384676012849 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 384676012850 active site 384676012851 KMSKS motif; other site 384676012852 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 384676012853 tRNA binding surface [nucleotide binding]; other site 384676012854 anticodon binding site; other site 384676012855 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 384676012856 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 384676012857 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012858 S-adenosylmethionine binding site [chemical binding]; other site 384676012859 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 384676012860 IHF - DNA interface [nucleotide binding]; other site 384676012861 IHF dimer interface [polypeptide binding]; other site 384676012862 Nucleoid-associated protein [General function prediction only]; Region: COG3081 384676012863 nucleoid-associated protein NdpA; Validated; Region: PRK00378 384676012864 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 384676012865 GIY-YIG motif/motif A; other site 384676012866 putative active site [active] 384676012867 putative metal binding site [ion binding]; other site 384676012868 SnoaL-like domain; Region: SnoaL_2; pfam12680 384676012869 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 384676012870 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012871 Transcriptional regulators [Transcription]; Region: FadR; COG2186 384676012872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676012873 DNA-binding site [nucleotide binding]; DNA binding site 384676012874 FCD domain; Region: FCD; pfam07729 384676012875 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 384676012876 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676012877 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676012878 S-adenosylmethionine binding site [chemical binding]; other site 384676012879 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676012880 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 384676012881 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 384676012882 dimer interface [polypeptide binding]; other site 384676012883 phosphorylation site [posttranslational modification] 384676012884 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012885 ATP binding site [chemical binding]; other site 384676012886 Mg2+ binding site [ion binding]; other site 384676012887 G-X-G motif; other site 384676012888 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 384676012889 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676012890 active site 384676012891 phosphorylation site [posttranslational modification] 384676012892 intermolecular recognition site; other site 384676012893 dimerization interface [polypeptide binding]; other site 384676012894 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 384676012895 DNA binding site [nucleotide binding] 384676012896 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 384676012897 active site 384676012898 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 384676012899 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 384676012900 ring oligomerisation interface [polypeptide binding]; other site 384676012901 ATP/Mg binding site [chemical binding]; other site 384676012902 stacking interactions; other site 384676012903 hinge regions; other site 384676012904 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 384676012905 oligomerisation interface [polypeptide binding]; other site 384676012906 mobile loop; other site 384676012907 roof hairpin; other site 384676012908 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 384676012909 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 384676012910 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 384676012911 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 384676012912 Protein of unknown function, DUF481; Region: DUF481; pfam04338 384676012913 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 384676012914 DNA binding site [nucleotide binding] 384676012915 active site 384676012916 muropeptide transporter; Validated; Region: ampG; cl17669 384676012917 muropeptide transporter; Validated; Region: ampG; cl17669 384676012918 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 384676012919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676012920 mechanosensitive channel MscS; Provisional; Region: PRK10334 384676012921 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676012922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 384676012923 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 384676012924 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 384676012925 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 384676012926 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 384676012927 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 384676012928 dimerization interface [polypeptide binding]; other site 384676012929 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 384676012930 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 384676012931 putative active site [active] 384676012932 heme pocket [chemical binding]; other site 384676012933 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 384676012934 dimer interface [polypeptide binding]; other site 384676012935 phosphorylation site [posttranslational modification] 384676012936 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676012937 ATP binding site [chemical binding]; other site 384676012938 Mg2+ binding site [ion binding]; other site 384676012939 G-X-G motif; other site 384676012940 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 384676012941 hypothetical protein; Provisional; Region: PRK08999 384676012942 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 384676012943 active site 384676012944 8-oxo-dGMP binding site [chemical binding]; other site 384676012945 nudix motif; other site 384676012946 metal binding site [ion binding]; metal-binding site 384676012947 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 384676012948 thiamine phosphate binding site [chemical binding]; other site 384676012949 active site 384676012950 pyrophosphate binding site [ion binding]; other site 384676012951 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 384676012952 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676012953 putative C-terminal domain interface [polypeptide binding]; other site 384676012954 putative GSH binding site (G-site) [chemical binding]; other site 384676012955 putative dimer interface [polypeptide binding]; other site 384676012956 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 384676012957 putative substrate binding pocket (H-site) [chemical binding]; other site 384676012958 putative N-terminal domain interface [polypeptide binding]; other site 384676012959 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 384676012960 heterotetramer interface [polypeptide binding]; other site 384676012961 active site pocket [active] 384676012962 cleavage site 384676012963 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 384676012964 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 384676012965 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 384676012966 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 384676012967 nucleotide binding region [chemical binding]; other site 384676012968 ATP-binding site [chemical binding]; other site 384676012969 SEC-C motif; Region: SEC-C; pfam02810 384676012970 Protein of unknown function (DUF721); Region: DUF721; pfam05258 384676012971 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 384676012972 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 384676012973 cell division protein FtsZ; Validated; Region: PRK09330 384676012974 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 384676012975 nucleotide binding site [chemical binding]; other site 384676012976 SulA interaction site; other site 384676012977 cell division protein FtsA; Region: ftsA; TIGR01174 384676012978 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 384676012979 nucleotide binding site [chemical binding]; other site 384676012980 Cell division protein FtsA; Region: FtsA; pfam14450 384676012981 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 384676012982 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 384676012983 Cell division protein FtsQ; Region: FtsQ; pfam03799 384676012984 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 384676012985 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 384676012986 ATP-grasp domain; Region: ATP-grasp_4; cl17255 384676012987 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 384676012988 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 384676012989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676012990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 384676012991 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 384676012992 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 384676012993 active site 384676012994 homodimer interface [polypeptide binding]; other site 384676012995 cell division protein FtsW; Region: ftsW; TIGR02614 384676012996 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 384676012997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676012998 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 384676012999 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 384676013000 Mg++ binding site [ion binding]; other site 384676013001 putative catalytic motif [active] 384676013002 putative substrate binding site [chemical binding]; other site 384676013003 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 384676013004 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 384676013005 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676013006 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 384676013007 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 384676013008 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 384676013009 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 384676013010 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 384676013011 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 384676013012 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 384676013013 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 384676013014 Cell division protein FtsL; Region: FtsL; pfam04999 384676013015 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 384676013016 MraW methylase family; Region: Methyltransf_5; cl17771 384676013017 cell division protein MraZ; Reviewed; Region: PRK00326 384676013018 MraZ protein; Region: MraZ; pfam02381 384676013019 MraZ protein; Region: MraZ; pfam02381 384676013020 Predicted methyltransferases [General function prediction only]; Region: COG0313 384676013021 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 384676013022 putative SAM binding site [chemical binding]; other site 384676013023 putative homodimer interface [polypeptide binding]; other site 384676013024 LppC putative lipoprotein; Region: LppC; pfam04348 384676013025 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 384676013026 putative ligand binding site [chemical binding]; other site 384676013027 hypothetical protein; Reviewed; Region: PRK12497 384676013028 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 384676013029 dimer interface [polypeptide binding]; other site 384676013030 active site 384676013031 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 384676013032 BON domain; Region: BON; pfam04972 384676013033 BON domain; Region: BON; pfam04972 384676013034 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 384676013035 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 384676013036 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 384676013037 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 384676013038 stringent starvation protein A; Provisional; Region: sspA; PRK09481 384676013039 C-terminal domain interface [polypeptide binding]; other site 384676013040 putative GSH binding site (G-site) [chemical binding]; other site 384676013041 dimer interface [polypeptide binding]; other site 384676013042 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 384676013043 dimer interface [polypeptide binding]; other site 384676013044 N-terminal domain interface [polypeptide binding]; other site 384676013045 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 384676013046 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 384676013047 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 384676013048 Qi binding site; other site 384676013049 intrachain domain interface; other site 384676013050 interchain domain interface [polypeptide binding]; other site 384676013051 heme bH binding site [chemical binding]; other site 384676013052 heme bL binding site [chemical binding]; other site 384676013053 Qo binding site; other site 384676013054 interchain domain interface [polypeptide binding]; other site 384676013055 intrachain domain interface; other site 384676013056 Qi binding site; other site 384676013057 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 384676013058 Qo binding site; other site 384676013059 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 384676013060 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 384676013061 [2Fe-2S] cluster binding site [ion binding]; other site 384676013062 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 384676013063 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 384676013064 23S rRNA interface [nucleotide binding]; other site 384676013065 L3 interface [polypeptide binding]; other site 384676013066 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 384676013067 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 384676013068 active site 384676013069 catalytic tetrad [active] 384676013070 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 384676013071 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 384676013072 conserved cys residue [active] 384676013073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676013074 Predicted ATPase [General function prediction only]; Region: COG1485 384676013075 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 384676013076 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 384676013077 active site 384676013078 HIGH motif; other site 384676013079 dimer interface [polypeptide binding]; other site 384676013080 KMSKS motif; other site 384676013081 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 384676013082 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 384676013083 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 384676013084 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 384676013085 dimer interface [polypeptide binding]; other site 384676013086 TPP-binding site [chemical binding]; other site 384676013087 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 384676013088 methionine gamma-lyase; Provisional; Region: PRK07503 384676013089 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 384676013090 homodimer interface [polypeptide binding]; other site 384676013091 substrate-cofactor binding pocket; other site 384676013092 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676013093 catalytic residue [active] 384676013094 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676013095 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 384676013096 putative DNA binding site [nucleotide binding]; other site 384676013097 putative Zn2+ binding site [ion binding]; other site 384676013098 AsnC family; Region: AsnC_trans_reg; pfam01037 384676013099 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 384676013100 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 384676013101 CysD dimerization site [polypeptide binding]; other site 384676013102 G1 box; other site 384676013103 putative GEF interaction site [polypeptide binding]; other site 384676013104 GTP/Mg2+ binding site [chemical binding]; other site 384676013105 Switch I region; other site 384676013106 G2 box; other site 384676013107 G3 box; other site 384676013108 Switch II region; other site 384676013109 G4 box; other site 384676013110 G5 box; other site 384676013111 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 384676013112 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 384676013113 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 384676013114 ligand-binding site [chemical binding]; other site 384676013115 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 384676013116 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 384676013117 Active Sites [active] 384676013118 Uncharacterized conserved protein [Function unknown]; Region: COG0327 384676013119 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 384676013120 serine endoprotease; Provisional; Region: PRK10898 384676013121 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 384676013122 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 384676013123 protein binding site [polypeptide binding]; other site 384676013124 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676013125 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676013126 Walker A/P-loop; other site 384676013127 ATP binding site [chemical binding]; other site 384676013128 Q-loop/lid; other site 384676013129 ABC transporter signature motif; other site 384676013130 Walker B; other site 384676013131 D-loop; other site 384676013132 H-loop/switch region; other site 384676013133 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676013134 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676013135 dimer interface [polypeptide binding]; other site 384676013136 conserved gate region; other site 384676013137 putative PBP binding loops; other site 384676013138 ABC-ATPase subunit interface; other site 384676013139 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 384676013140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676013141 conserved gate region; other site 384676013142 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676013143 dimer interface [polypeptide binding]; other site 384676013144 ABC-ATPase subunit interface; other site 384676013145 putative PBP binding loops; other site 384676013146 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 384676013147 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 384676013148 substrate binding pocket [chemical binding]; other site 384676013149 membrane-bound complex binding site; other site 384676013150 hinge residues; other site 384676013151 putative hydrolase; Provisional; Region: PRK11460 384676013152 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 384676013153 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 384676013154 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 384676013155 ATP binding site [chemical binding]; other site 384676013156 Mg++ binding site [ion binding]; other site 384676013157 motif III; other site 384676013158 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 384676013159 nucleotide binding region [chemical binding]; other site 384676013160 ATP-binding site [chemical binding]; other site 384676013161 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 384676013162 MoaD interaction [polypeptide binding]; other site 384676013163 active site residues [active] 384676013164 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 384676013165 MoaE interaction surface [polypeptide binding]; other site 384676013166 MoeB interaction surface [polypeptide binding]; other site 384676013167 thiocarboxylated glycine; other site 384676013168 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 384676013169 trimer interface [polypeptide binding]; other site 384676013170 dimer interface [polypeptide binding]; other site 384676013171 putative active site [active] 384676013172 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 384676013173 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 384676013174 putative active site [active] 384676013175 PhoH-like protein; Region: PhoH; pfam02562 384676013176 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 384676013177 NodB motif; other site 384676013178 active site 384676013179 catalytic site [active] 384676013180 metal binding site [ion binding]; metal-binding site 384676013181 hypothetical protein; Validated; Region: PRK02101 384676013182 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 384676013183 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 384676013184 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 384676013185 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 384676013186 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676013187 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 384676013188 PilZ domain; Region: PilZ; pfam07238 384676013189 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676013190 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 384676013191 Sel1-like repeats; Region: SEL1; smart00671 384676013192 Right handed beta helix region; Region: Beta_helix; pfam13229 384676013193 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 384676013194 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 384676013195 active site 384676013196 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 384676013197 Alginate O-acetyl transferase AlgF; Region: AlgF; pfam11182 384676013198 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 384676013199 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 384676013200 Substrate binding site; other site 384676013201 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 384676013202 short chain dehydrogenase; Provisional; Region: PRK05693 384676013203 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 384676013204 NADP binding site [chemical binding]; other site 384676013205 active site 384676013206 steroid binding site; other site 384676013207 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676013208 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 384676013209 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676013210 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676013211 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 384676013212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676013213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676013214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676013215 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 384676013216 putative substrate binding pocket [chemical binding]; other site 384676013217 putative dimerization interface [polypeptide binding]; other site 384676013218 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 384676013219 Ligand Binding Site [chemical binding]; other site 384676013220 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 384676013221 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676013222 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676013223 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 384676013224 Fusaric acid resistance protein family; Region: FUSC; pfam04632 384676013225 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 384676013226 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676013227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676013228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676013229 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 384676013230 putative effector binding pocket; other site 384676013231 dimerization interface [polypeptide binding]; other site 384676013232 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 384676013233 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 384676013234 dimerization interface [polypeptide binding]; other site 384676013235 ligand binding site [chemical binding]; other site 384676013236 NADP binding site [chemical binding]; other site 384676013237 catalytic site [active] 384676013238 EamA-like transporter family; Region: EamA; pfam00892 384676013239 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676013240 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676013241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676013242 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 384676013243 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 384676013244 N-terminal plug; other site 384676013245 ligand-binding site [chemical binding]; other site 384676013246 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676013247 FecR protein; Region: FecR; pfam04773 384676013248 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676013249 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 384676013250 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 384676013251 DNA binding residues [nucleotide binding] 384676013252 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 384676013253 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 384676013254 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 384676013255 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676013256 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 384676013257 RNA polymerase sigma factor; Provisional; Region: PRK12528 384676013258 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676013259 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 384676013260 DNA binding residues [nucleotide binding] 384676013261 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676013262 FecR protein; Region: FecR; pfam04773 384676013263 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676013264 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 384676013265 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 384676013266 N-terminal plug; other site 384676013267 ligand-binding site [chemical binding]; other site 384676013268 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676013269 Catalytic beta propeller domain of bacteriophage endosialidase; Region: End_beta_propel; cl12167 384676013270 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 384676013271 RHS Repeat; Region: RHS_repeat; pfam05593 384676013272 RHS Repeat; Region: RHS_repeat; cl11982 384676013273 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676013274 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676013275 RHS Repeat; Region: RHS_repeat; cl11982 384676013276 RHS Repeat; Region: RHS_repeat; cl11982 384676013277 RHS Repeat; Region: RHS_repeat; cl11982 384676013278 RHS protein; Region: RHS; pfam03527 384676013279 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676013280 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676013281 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676013282 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676013283 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 384676013284 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 384676013285 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676013286 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 384676013287 30S subunit binding site; other site 384676013288 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 384676013289 Predicted membrane protein [Function unknown]; Region: COG3223 384676013290 YebG protein; Region: YebG; pfam07130 384676013291 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 384676013292 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 384676013293 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 384676013294 NAD binding site [chemical binding]; other site 384676013295 Phe binding site; other site 384676013296 Uncharacterized conserved protein [Function unknown]; Region: COG2912 384676013297 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 384676013298 benzoate transport; Region: 2A0115; TIGR00895 384676013299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676013300 putative substrate translocation pore; other site 384676013301 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676013302 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 384676013303 maleylacetoacetate isomerase; Region: maiA; TIGR01262 384676013304 C-terminal domain interface [polypeptide binding]; other site 384676013305 GSH binding site (G-site) [chemical binding]; other site 384676013306 putative dimer interface [polypeptide binding]; other site 384676013307 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 384676013308 dimer interface [polypeptide binding]; other site 384676013309 N-terminal domain interface [polypeptide binding]; other site 384676013310 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 384676013311 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 384676013312 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 384676013313 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 384676013314 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 384676013315 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 384676013316 Transcriptional regulator [Transcription]; Region: IclR; COG1414 384676013317 Bacterial transcriptional regulator; Region: IclR; pfam01614 384676013318 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 384676013319 homodimer interface [polypeptide binding]; other site 384676013320 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 384676013321 NAD binding site [chemical binding]; other site 384676013322 active site 384676013323 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676013324 LrgB-like family; Region: LrgB; pfam04172 384676013325 LrgA family; Region: LrgA; pfam03788 384676013326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676013327 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676013328 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 384676013329 dimerization interface [polypeptide binding]; other site 384676013330 flavodoxin; Provisional; Region: PRK05723 384676013331 PilZ domain; Region: PilZ; pfam07238 384676013332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 384676013333 dihydromonapterin reductase; Provisional; Region: PRK06483 384676013334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676013335 NAD(P) binding site [chemical binding]; other site 384676013336 active site 384676013337 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 384676013338 HopJ type III effector protein; Region: HopJ; pfam08888 384676013339 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 384676013340 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676013341 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 384676013342 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 384676013343 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 384676013344 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 384676013345 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676013346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676013347 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 384676013348 dimerization interface [polypeptide binding]; other site 384676013349 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 384676013350 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 384676013351 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 384676013352 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 384676013353 putative active site; other site 384676013354 catalytic triad [active] 384676013355 putative dimer interface [polypeptide binding]; other site 384676013356 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676013357 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676013358 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 384676013359 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 384676013360 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 384676013361 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 384676013362 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 384676013363 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 384676013364 dimer interface [polypeptide binding]; other site 384676013365 active site 384676013366 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 384676013367 classical (c) SDRs; Region: SDR_c; cd05233 384676013368 NAD(P) binding site [chemical binding]; other site 384676013369 active site 384676013370 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 384676013371 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 384676013372 catalytic core [active] 384676013373 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 384676013374 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 384676013375 THF binding site; other site 384676013376 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 384676013377 substrate binding site [chemical binding]; other site 384676013378 THF binding site; other site 384676013379 zinc-binding site [ion binding]; other site 384676013380 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 384676013381 FAD binding site [chemical binding]; other site 384676013382 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 384676013383 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 384676013384 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 384676013385 Predicted amidohydrolase [General function prediction only]; Region: COG0388 384676013386 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 384676013387 active site 384676013388 catalytic triad [active] 384676013389 dimer interface [polypeptide binding]; other site 384676013390 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 384676013391 EamA-like transporter family; Region: EamA; pfam00892 384676013392 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 384676013393 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 384676013394 non-specific DNA binding site [nucleotide binding]; other site 384676013395 salt bridge; other site 384676013396 sequence-specific DNA binding site [nucleotide binding]; other site 384676013397 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 384676013398 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 384676013399 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676013400 catalytic residue [active] 384676013401 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 384676013402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 384676013403 Uncharacterized conserved protein [Function unknown]; Region: COG4933 384676013404 AAA domain; Region: AAA_17; pfam13207 384676013405 AAA domain; Region: AAA_18; pfam13238 384676013406 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 384676013407 Pilin (bacterial filament); Region: Pilin; pfam00114 384676013408 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 384676013409 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676013410 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 384676013411 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 384676013412 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 384676013413 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 384676013414 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 384676013415 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 384676013416 CoA-binding site [chemical binding]; other site 384676013417 ATP-binding [chemical binding]; other site 384676013418 DNA gyrase inhibitor; Reviewed; Region: PRK00418 384676013419 Predicted membrane protein [Function unknown]; Region: COG3235 384676013420 Protein of unknown function (DUF1780); Region: DUF1780; pfam08682 384676013421 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 384676013422 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 384676013423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676013424 RibD C-terminal domain; Region: RibD_C; cl17279 384676013425 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 384676013426 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 384676013427 Clp amino terminal domain; Region: Clp_N; pfam02861 384676013428 Clp amino terminal domain; Region: Clp_N; pfam02861 384676013429 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676013430 Walker A motif; other site 384676013431 ATP binding site [chemical binding]; other site 384676013432 Walker B motif; other site 384676013433 arginine finger; other site 384676013434 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676013435 Walker A motif; other site 384676013436 ATP binding site [chemical binding]; other site 384676013437 Walker B motif; other site 384676013438 arginine finger; other site 384676013439 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 384676013440 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 384676013441 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 384676013442 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 384676013443 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 384676013444 RNA binding surface [nucleotide binding]; other site 384676013445 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 384676013446 active site 384676013447 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 384676013448 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 384676013449 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676013450 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 384676013451 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 384676013452 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 384676013453 Glucuronate isomerase; Region: UxaC; cl00829 384676013454 Type II transport protein GspH; Region: GspH; pfam12019 384676013455 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 384676013456 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 384676013457 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 384676013458 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 384676013459 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 384676013460 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 384676013461 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 384676013462 active site 384676013463 HIGH motif; other site 384676013464 nucleotide binding site [chemical binding]; other site 384676013465 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 384676013466 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 384676013467 active site 384676013468 KMSKS motif; other site 384676013469 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 384676013470 tRNA binding surface [nucleotide binding]; other site 384676013471 anticodon binding site; other site 384676013472 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 384676013473 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 384676013474 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 384676013475 active site 384676013476 Riboflavin kinase; Region: Flavokinase; pfam01687 384676013477 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 384676013478 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 384676013479 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 384676013480 mce related protein; Region: MCE; pfam02470 384676013481 mce related protein; Region: MCE; pfam02470 384676013482 mce related protein; Region: MCE; pfam02470 384676013483 mce related protein; Region: MCE; pfam02470 384676013484 mce related protein; Region: MCE; pfam02470 384676013485 mce related protein; Region: MCE; pfam02470 384676013486 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 384676013487 Paraquat-inducible protein A; Region: PqiA; pfam04403 384676013488 Paraquat-inducible protein A; Region: PqiA; pfam04403 384676013489 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 384676013490 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 384676013491 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 384676013492 Moco binding site; other site 384676013493 metal coordination site [ion binding]; other site 384676013494 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 384676013495 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 384676013496 ketol-acid reductoisomerase; Provisional; Region: PRK05479 384676013497 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 384676013498 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 384676013499 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 384676013500 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 384676013501 putative valine binding site [chemical binding]; other site 384676013502 dimer interface [polypeptide binding]; other site 384676013503 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 384676013504 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 384676013505 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 384676013506 PYR/PP interface [polypeptide binding]; other site 384676013507 dimer interface [polypeptide binding]; other site 384676013508 TPP binding site [chemical binding]; other site 384676013509 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 384676013510 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 384676013511 TPP-binding site [chemical binding]; other site 384676013512 dimer interface [polypeptide binding]; other site 384676013513 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 384676013514 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 384676013515 TPR motif; other site 384676013516 Tetratricopeptide repeat; Region: TPR_12; pfam13424 384676013517 binding surface 384676013518 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 384676013519 Transglycosylase; Region: Transgly; pfam00912 384676013520 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 384676013521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 384676013522 AAA domain; Region: AAA_33; pfam13671 384676013523 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 384676013524 active site 384676013525 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 384676013526 TfoX C-terminal domain; Region: TfoX_C; pfam04994 384676013527 Protein of unknown function, DUF399; Region: DUF399; cl01139 384676013528 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 384676013529 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 384676013530 Walker A/P-loop; other site 384676013531 ATP binding site [chemical binding]; other site 384676013532 Q-loop/lid; other site 384676013533 ABC transporter signature motif; other site 384676013534 Walker B; other site 384676013535 D-loop; other site 384676013536 H-loop/switch region; other site 384676013537 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 384676013538 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 384676013539 ABC-ATPase subunit interface; other site 384676013540 dimer interface [polypeptide binding]; other site 384676013541 putative PBP binding regions; other site 384676013542 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 384676013543 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 384676013544 intersubunit interface [polypeptide binding]; other site 384676013545 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 384676013546 iron-sulfur cluster [ion binding]; other site 384676013547 [2Fe-2S] cluster binding site [ion binding]; other site 384676013548 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 384676013549 hypothetical protein; Provisional; Region: PRK08960 384676013550 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 384676013551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676013552 homodimer interface [polypeptide binding]; other site 384676013553 catalytic residue [active] 384676013554 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 384676013555 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 384676013556 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 384676013557 active site 384676013558 nucleotide binding site [chemical binding]; other site 384676013559 HIGH motif; other site 384676013560 KMSKS motif; other site 384676013561 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 384676013562 Na binding site [ion binding]; other site 384676013563 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 384676013564 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 384676013565 putative active site [active] 384676013566 heme pocket [chemical binding]; other site 384676013567 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 384676013568 dimer interface [polypeptide binding]; other site 384676013569 phosphorylation site [posttranslational modification] 384676013570 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676013571 ATP binding site [chemical binding]; other site 384676013572 Mg2+ binding site [ion binding]; other site 384676013573 G-X-G motif; other site 384676013574 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 384676013575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676013576 active site 384676013577 phosphorylation site [posttranslational modification] 384676013578 intermolecular recognition site; other site 384676013579 dimerization interface [polypeptide binding]; other site 384676013580 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676013581 Walker A motif; other site 384676013582 ATP binding site [chemical binding]; other site 384676013583 Walker B motif; other site 384676013584 arginine finger; other site 384676013585 poly(A) polymerase; Region: pcnB; TIGR01942 384676013586 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 384676013587 active site 384676013588 NTP binding site [chemical binding]; other site 384676013589 metal binding triad [ion binding]; metal-binding site 384676013590 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 384676013591 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 384676013592 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 384676013593 catalytic center binding site [active] 384676013594 ATP binding site [chemical binding]; other site 384676013595 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 384676013596 oligomerization interface [polypeptide binding]; other site 384676013597 active site 384676013598 metal binding site [ion binding]; metal-binding site 384676013599 Pantoate-beta-alanine ligase; Region: PanC; cd00560 384676013600 pantoate--beta-alanine ligase; Region: panC; TIGR00018 384676013601 active site 384676013602 ATP-binding site [chemical binding]; other site 384676013603 pantoate-binding site; other site 384676013604 HXXH motif; other site 384676013605 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 384676013606 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 384676013607 active site 384676013608 dimer interface [polypeptide binding]; other site 384676013609 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 384676013610 dimer interface [polypeptide binding]; other site 384676013611 active site 384676013612 acetyl-CoA synthetase; Provisional; Region: PRK00174 384676013613 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 384676013614 active site 384676013615 CoA binding site [chemical binding]; other site 384676013616 acyl-activating enzyme (AAE) consensus motif; other site 384676013617 AMP binding site [chemical binding]; other site 384676013618 acetate binding site [chemical binding]; other site 384676013619 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 384676013620 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 384676013621 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 384676013622 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 384676013623 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 384676013624 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 384676013625 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 384676013626 active site 384676013627 metal binding site [ion binding]; metal-binding site 384676013628 Uncharacterized conserved protein [Function unknown]; Region: COG1359 384676013629 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 384676013630 active site 384676013631 catalytic triad [active] 384676013632 oxyanion hole [active] 384676013633 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 384676013634 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 384676013635 substrate binding site; other site 384676013636 tetramer interface; other site 384676013637 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 384676013638 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 384676013639 NAD binding site [chemical binding]; other site 384676013640 substrate binding site [chemical binding]; other site 384676013641 homodimer interface [polypeptide binding]; other site 384676013642 active site 384676013643 Protein prenyltransferase (PTase) domain, beta subunit (alpha 6 - alpha 6 barrel fold). The protein prenyltransferase family of lipid-modifying enzymes includes protein farnesyltransferase (FTase) and geranylgeranyltransferase types I and II (GGTase-I...; Region: PTase; cd02890 384676013644 active site cavity [active] 384676013645 peptide binding pocket; other site 384676013646 lipid binding pocket [chemical binding]; lipid-binding site 384676013647 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 384676013648 heterodimer interface [polypeptide binding]; other site 384676013649 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 384676013650 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 384676013651 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 384676013652 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 384676013653 putative trimer interface [polypeptide binding]; other site 384676013654 putative CoA binding site [chemical binding]; other site 384676013655 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 384676013656 trimer interface [polypeptide binding]; other site 384676013657 active site 384676013658 substrate binding site [chemical binding]; other site 384676013659 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 384676013660 CoA binding site [chemical binding]; other site 384676013661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676013662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676013663 Flavin Reductases; Region: FlaRed; cl00801 384676013664 Chorismate lyase; Region: Chor_lyase; cl01230 384676013665 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 384676013666 dimerization interface [polypeptide binding]; other site 384676013667 putative DNA binding site [nucleotide binding]; other site 384676013668 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 384676013669 multidrug efflux protein; Reviewed; Region: PRK09579 384676013670 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676013671 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676013672 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676013673 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676013674 active site 384676013675 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 384676013676 active site 1 [active] 384676013677 dimer interface [polypeptide binding]; other site 384676013678 hexamer interface [polypeptide binding]; other site 384676013679 active site 2 [active] 384676013680 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 384676013681 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 384676013682 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 384676013683 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 384676013684 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 384676013685 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676013686 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676013687 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 384676013688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676013689 Walker A/P-loop; other site 384676013690 ATP binding site [chemical binding]; other site 384676013691 Q-loop/lid; other site 384676013692 ABC transporter signature motif; other site 384676013693 Walker B; other site 384676013694 D-loop; other site 384676013695 H-loop/switch region; other site 384676013696 Heme-binding protein A (HasA); Region: HasA; pfam06438 384676013697 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676013698 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 384676013699 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 384676013700 N-terminal plug; other site 384676013701 ligand-binding site [chemical binding]; other site 384676013702 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676013703 FecR protein; Region: FecR; pfam04773 384676013704 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 384676013705 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676013706 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 384676013707 DNA binding residues [nucleotide binding] 384676013708 DNA repair protein RadA; Provisional; Region: PRK11823 384676013709 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 384676013710 Walker A motif; other site 384676013711 ATP binding site [chemical binding]; other site 384676013712 Walker B motif; other site 384676013713 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 384676013714 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 384676013715 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 384676013716 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 384676013717 ferredoxin-NADP reductase; Provisional; Region: PRK10926 384676013718 FAD binding pocket [chemical binding]; other site 384676013719 FAD binding motif [chemical binding]; other site 384676013720 phosphate binding motif [ion binding]; other site 384676013721 beta-alpha-beta structure motif; other site 384676013722 NAD binding pocket [chemical binding]; other site 384676013723 Autoinducer binding domain; Region: Autoind_bind; pfam03472 384676013724 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 384676013725 DNA binding residues [nucleotide binding] 384676013726 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 384676013727 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676013728 S-adenosylmethionine binding site [chemical binding]; other site 384676013729 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 384676013730 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 384676013731 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 384676013732 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 384676013733 H+ Antiporter protein; Region: 2A0121; TIGR00900 384676013734 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 384676013735 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 384676013736 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676013737 S-adenosylmethionine binding site [chemical binding]; other site 384676013738 LysR family transcriptional regulator; Provisional; Region: PRK14997 384676013739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676013740 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 384676013741 putative effector binding pocket; other site 384676013742 dimerization interface [polypeptide binding]; other site 384676013743 Cupin domain; Region: Cupin_2; pfam07883 384676013744 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 384676013745 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 384676013746 heterodimer interface [polypeptide binding]; other site 384676013747 active site 384676013748 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 384676013749 heterodimer interface [polypeptide binding]; other site 384676013750 multimer interface [polypeptide binding]; other site 384676013751 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 384676013752 active site 384676013753 Predicted metalloprotease [General function prediction only]; Region: COG2321 384676013754 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 384676013755 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 384676013756 EamA-like transporter family; Region: EamA; pfam00892 384676013757 EamA-like transporter family; Region: EamA; pfam00892 384676013758 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676013759 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 384676013760 putative DNA binding site [nucleotide binding]; other site 384676013761 putative Zn2+ binding site [ion binding]; other site 384676013762 AsnC family; Region: AsnC_trans_reg; pfam01037 384676013763 Uncharacterized conserved protein [Function unknown]; Region: COG1432 384676013764 LabA_like proteins; Region: LabA; cd10911 384676013765 putative metal binding site [ion binding]; other site 384676013766 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 384676013767 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 384676013768 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 384676013769 ATP binding site [chemical binding]; other site 384676013770 putative Mg++ binding site [ion binding]; other site 384676013771 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 384676013772 nucleotide binding region [chemical binding]; other site 384676013773 ATP-binding site [chemical binding]; other site 384676013774 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 384676013775 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 384676013776 Cation efflux family; Region: Cation_efflux; cl00316 384676013777 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 384676013778 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676013779 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 384676013780 putative DNA binding site [nucleotide binding]; other site 384676013781 putative Zn2+ binding site [ion binding]; other site 384676013782 AsnC family; Region: AsnC_trans_reg; pfam01037 384676013783 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 384676013784 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 384676013785 pseudouridine synthase; Region: TIGR00093 384676013786 active site 384676013787 AMP nucleosidase; Provisional; Region: PRK08292 384676013788 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 384676013789 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 384676013790 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676013791 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676013792 active site 384676013793 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 384676013794 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 384676013795 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 384676013796 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 384676013797 dimer interface [polypeptide binding]; other site 384676013798 phosphorylation site [posttranslational modification] 384676013799 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676013800 ATP binding site [chemical binding]; other site 384676013801 Mg2+ binding site [ion binding]; other site 384676013802 G-X-G motif; other site 384676013803 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 384676013804 dimer interface [polypeptide binding]; other site 384676013805 substrate binding site [chemical binding]; other site 384676013806 ATP binding site [chemical binding]; other site 384676013807 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 384676013808 thiamine phosphate binding site [chemical binding]; other site 384676013809 active site 384676013810 pyrophosphate binding site [ion binding]; other site 384676013811 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 384676013812 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 384676013813 inhibitor-cofactor binding pocket; inhibition site 384676013814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676013815 catalytic residue [active] 384676013816 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 384676013817 Sel1-like repeats; Region: SEL1; smart00671 384676013818 Sel1-like repeats; Region: SEL1; smart00671 384676013819 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 384676013820 PhoH-like protein; Region: PhoH; pfam02562 384676013821 metal-binding heat shock protein; Provisional; Region: PRK00016 384676013822 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 384676013823 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 384676013824 Transporter associated domain; Region: CorC_HlyC; smart01091 384676013825 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 384676013826 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 384676013827 putative active site [active] 384676013828 catalytic triad [active] 384676013829 putative dimer interface [polypeptide binding]; other site 384676013830 Uncharacterized conserved protein [Function unknown]; Region: COG1434 384676013831 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 384676013832 putative active site [active] 384676013833 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 384676013834 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 384676013835 HIGH motif; other site 384676013836 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 384676013837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 384676013838 active site 384676013839 KMSKS motif; other site 384676013840 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 384676013841 tRNA binding surface [nucleotide binding]; other site 384676013842 Lipopolysaccharide-assembly; Region: LptE; cl01125 384676013843 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 384676013844 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 384676013845 Domain of unknown function; Region: DUF331; cl01149 384676013846 Transglycosylase SLT domain; Region: SLT_2; pfam13406 384676013847 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 384676013848 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676013849 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 384676013850 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 384676013851 dimer interface [polypeptide binding]; other site 384676013852 catalytic triad [active] 384676013853 lipoyl synthase; Provisional; Region: PRK05481 384676013854 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 384676013855 FeS/SAM binding site; other site 384676013856 lipoate-protein ligase B; Provisional; Region: PRK14342 384676013857 hypothetical protein; Provisional; Region: PRK00341 384676013858 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 384676013859 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 384676013860 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 384676013861 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 384676013862 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 384676013863 Sporulation related domain; Region: SPOR; pfam05036 384676013864 Transglycosylase SLT domain; Region: SLT_2; pfam13406 384676013865 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 384676013866 N-acetyl-D-glucosamine binding site [chemical binding]; other site 384676013867 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 384676013868 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 384676013869 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 384676013870 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 384676013871 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 384676013872 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 384676013873 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 384676013874 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 384676013875 active site 384676013876 (T/H)XGH motif; other site 384676013877 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 384676013878 putative catalytic cysteine [active] 384676013879 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 384676013880 active site 384676013881 DNA binding site [nucleotide binding] 384676013882 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 384676013883 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 384676013884 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 384676013885 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 384676013886 active site 384676013887 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 384676013888 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 384676013889 LrgA family; Region: LrgA; cl00608 384676013890 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 384676013891 putative active site [active] 384676013892 putative catalytic site [active] 384676013893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 384676013894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 384676013895 Peptidase C13 family; Region: Peptidase_C13; pfam01650 384676013896 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 384676013897 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 384676013898 NAD binding site [chemical binding]; other site 384676013899 active site 384676013900 penicillin-binding protein 1C; Provisional; Region: PRK11240 384676013901 Transglycosylase; Region: Transgly; pfam00912 384676013902 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 384676013903 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 384676013904 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 384676013905 MG2 domain; Region: A2M_N; pfam01835 384676013906 Alpha-2-macroglobulin family; Region: A2M; pfam00207 384676013907 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 384676013908 surface patch; other site 384676013909 thioester region; other site 384676013910 specificity defining residues; other site 384676013911 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 384676013912 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 384676013913 Transposase IS200 like; Region: Y1_Tnp; pfam01797 384676013914 arginine decarboxylase; Provisional; Region: PRK05354 384676013915 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 384676013916 dimer interface [polypeptide binding]; other site 384676013917 active site 384676013918 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676013919 catalytic residues [active] 384676013920 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 384676013921 translation initiation factor Sui1; Validated; Region: PRK06824 384676013922 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 384676013923 putative rRNA binding site [nucleotide binding]; other site 384676013924 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 384676013925 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 384676013926 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 384676013927 nudix motif; other site 384676013928 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 384676013929 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 384676013930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676013931 active site 384676013932 phosphorylation site [posttranslational modification] 384676013933 intermolecular recognition site; other site 384676013934 dimerization interface [polypeptide binding]; other site 384676013935 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676013936 metal binding site [ion binding]; metal-binding site 384676013937 active site 384676013938 I-site; other site 384676013939 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 384676013940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676013941 dimer interface [polypeptide binding]; other site 384676013942 putative CheW interface [polypeptide binding]; other site 384676013943 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 384676013944 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 384676013945 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 384676013946 DsbD alpha interface [polypeptide binding]; other site 384676013947 catalytic residues [active] 384676013948 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 384676013949 Dehydroquinase class II; Region: DHquinase_II; pfam01220 384676013950 active site 384676013951 trimer interface [polypeptide binding]; other site 384676013952 dimer interface [polypeptide binding]; other site 384676013953 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 384676013954 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 384676013955 carboxyltransferase (CT) interaction site; other site 384676013956 biotinylation site [posttranslational modification]; other site 384676013957 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 384676013958 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 384676013959 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 384676013960 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 384676013961 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 384676013962 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676013963 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 384676013964 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 384676013965 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 384676013966 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 384676013967 FMN binding site [chemical binding]; other site 384676013968 active site 384676013969 catalytic residues [active] 384676013970 substrate binding site [chemical binding]; other site 384676013971 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 384676013972 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 384676013973 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 384676013974 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 384676013975 purine monophosphate binding site [chemical binding]; other site 384676013976 dimer interface [polypeptide binding]; other site 384676013977 putative catalytic residues [active] 384676013978 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 384676013979 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 384676013980 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 384676013981 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 384676013982 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 384676013983 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 384676013984 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 384676013985 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 384676013986 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 384676013987 dimer interface [polypeptide binding]; other site 384676013988 phosphorylation site [posttranslational modification] 384676013989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676013990 ATP binding site [chemical binding]; other site 384676013991 Mg2+ binding site [ion binding]; other site 384676013992 G-X-G motif; other site 384676013993 Response regulator receiver domain; Region: Response_reg; pfam00072 384676013994 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676013995 active site 384676013996 phosphorylation site [posttranslational modification] 384676013997 intermolecular recognition site; other site 384676013998 dimerization interface [polypeptide binding]; other site 384676013999 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014001 active site 384676014002 phosphorylation site [posttranslational modification] 384676014003 intermolecular recognition site; other site 384676014004 dimerization interface [polypeptide binding]; other site 384676014005 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 384676014006 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 384676014007 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 384676014008 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 384676014009 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 384676014010 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 384676014011 active site 384676014012 SAM binding site [chemical binding]; other site 384676014013 homodimer interface [polypeptide binding]; other site 384676014014 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 384676014015 active site 384676014016 SAM binding site [chemical binding]; other site 384676014017 homodimer interface [polypeptide binding]; other site 384676014018 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 384676014019 Precorrin-8X methylmutase; Region: CbiC; pfam02570 384676014020 precorrin-3B synthase; Region: CobG; TIGR02435 384676014021 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 384676014022 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 384676014023 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 384676014024 active site 384676014025 putative homodimer interface [polypeptide binding]; other site 384676014026 SAM binding site [chemical binding]; other site 384676014027 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 384676014028 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676014029 S-adenosylmethionine binding site [chemical binding]; other site 384676014030 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 384676014031 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 384676014032 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 384676014033 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 384676014034 oligomeric interface; other site 384676014035 putative active site [active] 384676014036 homodimer interface [polypeptide binding]; other site 384676014037 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 384676014038 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 384676014039 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 384676014040 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 384676014041 Protein of unknown function (DUF461); Region: DUF461; pfam04314 384676014042 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 384676014043 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 384676014044 N-terminal plug; other site 384676014045 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 384676014046 ligand-binding site [chemical binding]; other site 384676014047 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 384676014048 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 384676014049 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 384676014050 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676014051 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 384676014052 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 384676014053 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 384676014054 putative ligand binding site [chemical binding]; other site 384676014055 HEAT repeats; Region: HEAT_2; pfam13646 384676014056 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 384676014057 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 384676014058 TM-ABC transporter signature motif; other site 384676014059 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 384676014060 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 384676014061 TM-ABC transporter signature motif; other site 384676014062 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 384676014063 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 384676014064 Walker A/P-loop; other site 384676014065 ATP binding site [chemical binding]; other site 384676014066 Q-loop/lid; other site 384676014067 ABC transporter signature motif; other site 384676014068 Walker B; other site 384676014069 D-loop; other site 384676014070 H-loop/switch region; other site 384676014071 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 384676014072 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 384676014073 Walker A/P-loop; other site 384676014074 ATP binding site [chemical binding]; other site 384676014075 Q-loop/lid; other site 384676014076 ABC transporter signature motif; other site 384676014077 Walker B; other site 384676014078 D-loop; other site 384676014079 H-loop/switch region; other site 384676014080 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 384676014081 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676014082 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 384676014083 Coenzyme A binding pocket [chemical binding]; other site 384676014084 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 384676014085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676014086 Coenzyme A binding pocket [chemical binding]; other site 384676014087 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 384676014088 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 384676014089 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 384676014090 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 384676014091 HSP70 interaction site [polypeptide binding]; other site 384676014092 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 384676014093 substrate binding site [polypeptide binding]; other site 384676014094 dimer interface [polypeptide binding]; other site 384676014095 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 384676014096 putative chaperone; Provisional; Region: PRK11678 384676014097 nucleotide binding site [chemical binding]; other site 384676014098 putative NEF/HSP70 interaction site [polypeptide binding]; other site 384676014099 SBD interface [polypeptide binding]; other site 384676014100 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 384676014101 psiF repeat; Region: PsiF_repeat; pfam07769 384676014102 psiF repeat; Region: PsiF_repeat; pfam07769 384676014103 Cupin domain; Region: Cupin_2; cl17218 384676014104 Helix-turn-helix domain; Region: HTH_18; pfam12833 384676014105 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676014106 EamA-like transporter family; Region: EamA; pfam00892 384676014107 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 384676014108 Lipase (class 2); Region: Lipase_2; pfam01674 384676014109 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 384676014110 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 384676014111 Ferritin-like domain; Region: Ferritin; pfam00210 384676014112 dinuclear metal binding motif [ion binding]; other site 384676014113 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 384676014114 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 384676014115 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 384676014116 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676014117 dimerization interface [polypeptide binding]; other site 384676014118 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 384676014119 putative active cleft [active] 384676014120 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 384676014121 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 384676014122 putative NAD(P) binding site [chemical binding]; other site 384676014123 homotetramer interface [polypeptide binding]; other site 384676014124 homodimer interface [polypeptide binding]; other site 384676014125 active site 384676014126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 384676014127 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 384676014128 Walker A/P-loop; other site 384676014129 ATP binding site [chemical binding]; other site 384676014130 Q-loop/lid; other site 384676014131 ABC transporter signature motif; other site 384676014132 Walker B; other site 384676014133 D-loop; other site 384676014134 H-loop/switch region; other site 384676014135 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 384676014136 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 384676014137 Walker A/P-loop; other site 384676014138 ATP binding site [chemical binding]; other site 384676014139 Q-loop/lid; other site 384676014140 ABC transporter signature motif; other site 384676014141 Walker B; other site 384676014142 D-loop; other site 384676014143 H-loop/switch region; other site 384676014144 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 384676014145 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 384676014146 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 384676014147 TM-ABC transporter signature motif; other site 384676014148 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 384676014149 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 384676014150 TM-ABC transporter signature motif; other site 384676014151 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 384676014152 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 384676014153 dimerization interface [polypeptide binding]; other site 384676014154 ligand binding site [chemical binding]; other site 384676014155 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 384676014156 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 384676014157 active site 384676014158 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 384676014159 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 384676014160 homodimer interface [polypeptide binding]; other site 384676014161 NAD binding pocket [chemical binding]; other site 384676014162 ATP binding pocket [chemical binding]; other site 384676014163 Mg binding site [ion binding]; other site 384676014164 active-site loop [active] 384676014165 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 384676014166 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 384676014167 hypothetical protein; Provisional; Region: PRK01254 384676014168 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 384676014169 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 384676014170 replicative DNA helicase; Provisional; Region: PRK05748 384676014171 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 384676014172 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 384676014173 Walker A motif; other site 384676014174 ATP binding site [chemical binding]; other site 384676014175 Walker B motif; other site 384676014176 DNA binding loops [nucleotide binding] 384676014177 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 384676014178 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 384676014179 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 384676014180 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 384676014181 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 384676014182 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 384676014183 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 384676014184 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 384676014185 ribonuclease R; Region: RNase_R; TIGR02063 384676014186 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 384676014187 RNB domain; Region: RNB; pfam00773 384676014188 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 384676014189 RNA binding site [nucleotide binding]; other site 384676014190 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 384676014191 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 384676014192 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 384676014193 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676014194 dimer interface [polypeptide binding]; other site 384676014195 conserved gate region; other site 384676014196 putative PBP binding loops; other site 384676014197 ABC-ATPase subunit interface; other site 384676014198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676014199 dimer interface [polypeptide binding]; other site 384676014200 conserved gate region; other site 384676014201 putative PBP binding loops; other site 384676014202 ABC-ATPase subunit interface; other site 384676014203 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 384676014204 dimerization interface [polypeptide binding]; other site 384676014205 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014206 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014207 dimer interface [polypeptide binding]; other site 384676014208 putative CheW interface [polypeptide binding]; other site 384676014209 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 384676014210 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 384676014211 GDP-binding site [chemical binding]; other site 384676014212 ACT binding site; other site 384676014213 IMP binding site; other site 384676014214 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 384676014215 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 384676014216 dimer interface [polypeptide binding]; other site 384676014217 motif 1; other site 384676014218 active site 384676014219 motif 2; other site 384676014220 motif 3; other site 384676014221 FtsH protease regulator HflC; Provisional; Region: PRK11029 384676014222 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 384676014223 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 384676014224 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 384676014225 HflK protein; Region: hflK; TIGR01933 384676014226 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 384676014227 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 384676014228 HflX GTPase family; Region: HflX; cd01878 384676014229 G1 box; other site 384676014230 GTP/Mg2+ binding site [chemical binding]; other site 384676014231 Switch I region; other site 384676014232 G2 box; other site 384676014233 G3 box; other site 384676014234 Switch II region; other site 384676014235 G4 box; other site 384676014236 G5 box; other site 384676014237 bacterial Hfq-like; Region: Hfq; cd01716 384676014238 hexamer interface [polypeptide binding]; other site 384676014239 Sm1 motif; other site 384676014240 RNA binding site [nucleotide binding]; other site 384676014241 Sm2 motif; other site 384676014242 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 384676014243 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 384676014244 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 384676014245 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676014246 ATP binding site [chemical binding]; other site 384676014247 Mg2+ binding site [ion binding]; other site 384676014248 G-X-G motif; other site 384676014249 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 384676014250 ATP binding site [chemical binding]; other site 384676014251 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 384676014252 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 384676014253 AMIN domain; Region: AMIN; pfam11741 384676014254 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 384676014255 active site 384676014256 metal binding site [ion binding]; metal-binding site 384676014257 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 384676014258 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 384676014259 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 384676014260 putative substrate binding site [chemical binding]; other site 384676014261 putative ATP binding site [chemical binding]; other site 384676014262 epoxyqueuosine reductase; Region: TIGR00276 384676014263 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 384676014264 Helix-turn-helix domain; Region: HTH_28; pfam13518 384676014265 putative transposase OrfB; Reviewed; Region: PHA02517 384676014266 Homeodomain-like domain; Region: HTH_32; pfam13565 384676014267 Integrase core domain; Region: rve; pfam00665 384676014268 Integrase core domain; Region: rve_3; pfam13683 384676014269 Predicted membrane protein [Function unknown]; Region: COG2860 384676014270 UPF0126 domain; Region: UPF0126; pfam03458 384676014271 UPF0126 domain; Region: UPF0126; pfam03458 384676014272 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 384676014273 catalytic site [active] 384676014274 putative active site [active] 384676014275 putative substrate binding site [chemical binding]; other site 384676014276 dimer interface [polypeptide binding]; other site 384676014277 GTPase RsgA; Reviewed; Region: PRK12288 384676014278 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 384676014279 RNA binding site [nucleotide binding]; other site 384676014280 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 384676014281 GTPase/Zn-binding domain interface [polypeptide binding]; other site 384676014282 GTP/Mg2+ binding site [chemical binding]; other site 384676014283 G4 box; other site 384676014284 G5 box; other site 384676014285 G1 box; other site 384676014286 Switch I region; other site 384676014287 G2 box; other site 384676014288 G3 box; other site 384676014289 Switch II region; other site 384676014290 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 384676014291 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 384676014292 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 384676014293 ligand binding site [chemical binding]; other site 384676014294 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 384676014295 flagellar motor protein MotA; Validated; Region: PRK09110 384676014296 HDOD domain; Region: HDOD; pfam08668 384676014297 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 384676014298 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 384676014299 active site residue [active] 384676014300 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 384676014301 active site residue [active] 384676014302 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 384676014303 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 384676014304 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 384676014305 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 384676014306 phosphoserine phosphatase SerB; Region: serB; TIGR00338 384676014307 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 384676014308 motif II; other site 384676014309 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 384676014310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 384676014311 Protein of unknown function (DUF330); Region: DUF330; pfam03886 384676014312 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 384676014313 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 384676014314 CAP-like domain; other site 384676014315 active site 384676014316 primary dimer interface [polypeptide binding]; other site 384676014317 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 384676014318 catalytic motif [active] 384676014319 Catalytic residue [active] 384676014320 SdiA-regulated; Region: SdiA-regulated; cd09971 384676014321 putative active site [active] 384676014322 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 384676014323 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676014324 ATP binding site [chemical binding]; other site 384676014325 Mg2+ binding site [ion binding]; other site 384676014326 G-X-G motif; other site 384676014327 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 384676014328 anchoring element; other site 384676014329 dimer interface [polypeptide binding]; other site 384676014330 ATP binding site [chemical binding]; other site 384676014331 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 384676014332 active site 384676014333 metal binding site [ion binding]; metal-binding site 384676014334 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 384676014335 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 384676014336 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676014337 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 384676014338 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 384676014339 active site 384676014340 metal binding site [ion binding]; metal-binding site 384676014341 hexamer interface [polypeptide binding]; other site 384676014342 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 384676014343 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 384676014344 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 384676014345 dimer interface [polypeptide binding]; other site 384676014346 ADP-ribose binding site [chemical binding]; other site 384676014347 active site 384676014348 nudix motif; other site 384676014349 metal binding site [ion binding]; metal-binding site 384676014350 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 384676014351 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 384676014352 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 384676014353 Na binding site [ion binding]; other site 384676014354 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 384676014355 ThiC-associated domain; Region: ThiC-associated; pfam13667 384676014356 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 384676014357 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 384676014358 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 384676014359 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 384676014360 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 384676014361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676014362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676014363 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 384676014364 dimerization interface [polypeptide binding]; other site 384676014365 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 384676014366 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 384676014367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676014368 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 384676014369 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 384676014370 active site 384676014371 catalytic tetrad [active] 384676014372 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 384676014373 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 384676014374 putative ribose interaction site [chemical binding]; other site 384676014375 putative ADP binding site [chemical binding]; other site 384676014376 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 384676014377 active site 384676014378 nucleotide binding site [chemical binding]; other site 384676014379 HIGH motif; other site 384676014380 KMSKS motif; other site 384676014381 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 384676014382 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 384676014383 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 384676014384 Walker A/P-loop; other site 384676014385 ATP binding site [chemical binding]; other site 384676014386 Q-loop/lid; other site 384676014387 ABC transporter signature motif; other site 384676014388 Walker B; other site 384676014389 D-loop; other site 384676014390 H-loop/switch region; other site 384676014391 O-Antigen ligase; Region: Wzy_C; pfam04932 384676014392 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 384676014393 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 384676014394 active site 384676014395 substrate binding site [chemical binding]; other site 384676014396 ATP binding site [chemical binding]; other site 384676014397 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 384676014398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676014399 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 384676014400 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 384676014401 Mig-14; Region: Mig-14; pfam07395 384676014402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 384676014403 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 384676014404 putative ADP-binding pocket [chemical binding]; other site 384676014405 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676014406 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 384676014407 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 384676014408 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 384676014409 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 384676014410 Na binding site [ion binding]; other site 384676014411 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 384676014412 Predicted transcriptional regulator [Transcription]; Region: COG3905 384676014413 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 384676014414 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 384676014415 Glutamate binding site [chemical binding]; other site 384676014416 NAD binding site [chemical binding]; other site 384676014417 catalytic residues [active] 384676014418 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 384676014419 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 384676014420 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 384676014421 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676014422 active site 384676014423 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 384676014424 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 384676014425 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 384676014426 putative transporter; Provisional; Region: PRK10504 384676014427 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676014428 putative substrate translocation pore; other site 384676014429 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 384676014430 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 384676014431 ATP binding site [chemical binding]; other site 384676014432 Mg++ binding site [ion binding]; other site 384676014433 motif III; other site 384676014434 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 384676014435 nucleotide binding region [chemical binding]; other site 384676014436 ATP-binding site [chemical binding]; other site 384676014437 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 384676014438 putative RNA binding site [nucleotide binding]; other site 384676014439 HI0933-like protein; Region: HI0933_like; pfam03486 384676014440 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 384676014441 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 384676014442 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 384676014443 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 384676014444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676014445 substrate binding pocket [chemical binding]; other site 384676014446 membrane-bound complex binding site; other site 384676014447 hinge residues; other site 384676014448 ornithine cyclodeaminase; Validated; Region: PRK06823 384676014449 ectoine utilization protein EutC; Validated; Region: PRK08291 384676014450 hypothetical protein; Provisional; Region: PRK06815 384676014451 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 384676014452 tetramer interface [polypeptide binding]; other site 384676014453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676014454 catalytic residue [active] 384676014455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 384676014456 YheO-like PAS domain; Region: PAS_6; pfam08348 384676014457 HTH domain; Region: HTH_22; pfam13309 384676014458 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 384676014459 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 384676014460 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014462 active site 384676014463 phosphorylation site [posttranslational modification] 384676014464 intermolecular recognition site; other site 384676014465 dimerization interface [polypeptide binding]; other site 384676014466 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 384676014467 PAS domain; Region: PAS_9; pfam13426 384676014468 putative active site [active] 384676014469 heme pocket [chemical binding]; other site 384676014470 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676014471 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676014472 metal binding site [ion binding]; metal-binding site 384676014473 active site 384676014474 I-site; other site 384676014475 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 384676014476 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 384676014477 intersubunit interface [polypeptide binding]; other site 384676014478 active site 384676014479 zinc binding site [ion binding]; other site 384676014480 Na+ binding site [ion binding]; other site 384676014481 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 384676014482 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 384676014483 Phosphoglycerate kinase; Region: PGK; pfam00162 384676014484 substrate binding site [chemical binding]; other site 384676014485 hinge regions; other site 384676014486 ADP binding site [chemical binding]; other site 384676014487 catalytic site [active] 384676014488 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 384676014489 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 384676014490 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 384676014491 transketolase; Reviewed; Region: PRK12753 384676014492 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 384676014493 TPP-binding site [chemical binding]; other site 384676014494 dimer interface [polypeptide binding]; other site 384676014495 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 384676014496 PYR/PP interface [polypeptide binding]; other site 384676014497 dimer interface [polypeptide binding]; other site 384676014498 TPP binding site [chemical binding]; other site 384676014499 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 384676014500 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 384676014501 putative DNA binding site [nucleotide binding]; other site 384676014502 dimerization interface [polypeptide binding]; other site 384676014503 putative Zn2+ binding site [ion binding]; other site 384676014504 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676014505 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676014506 S-adenosylmethionine binding site [chemical binding]; other site 384676014507 S-adenosylmethionine synthetase; Validated; Region: PRK05250 384676014508 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 384676014509 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 384676014510 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 384676014511 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 384676014512 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 384676014513 nucleotide binding pocket [chemical binding]; other site 384676014514 K-X-D-G motif; other site 384676014515 catalytic site [active] 384676014516 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 384676014517 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 384676014518 Cytochrome C' Region: Cytochrom_C_2; pfam01322 384676014519 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 384676014520 MltA specific insert domain; Region: MltA; smart00925 384676014521 3D domain; Region: 3D; pfam06725 384676014522 Predicted membrane protein [Function unknown]; Region: COG3686 384676014523 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 384676014524 EamA-like transporter family; Region: EamA; pfam00892 384676014525 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 384676014526 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 384676014527 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 384676014528 Inclusion body protein; Region: PixA; pfam12306 384676014529 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 384676014530 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 384676014531 homotetramer interface [polypeptide binding]; other site 384676014532 ligand binding site [chemical binding]; other site 384676014533 catalytic site [active] 384676014534 NAD binding site [chemical binding]; other site 384676014535 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 384676014536 FAD binding site [chemical binding]; other site 384676014537 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 384676014538 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676014539 substrate binding pocket [chemical binding]; other site 384676014540 membrane-bound complex binding site; other site 384676014541 hinge residues; other site 384676014542 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 384676014543 DEAD-like helicases superfamily; Region: DEXDc; smart00487 384676014544 ATP binding site [chemical binding]; other site 384676014545 Mg++ binding site [ion binding]; other site 384676014546 motif III; other site 384676014547 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 384676014548 nucleotide binding region [chemical binding]; other site 384676014549 ATP-binding site [chemical binding]; other site 384676014550 hypothetical protein; Provisional; Region: PRK03757 384676014551 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 384676014552 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 384676014553 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 384676014554 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 384676014555 inhibitor-cofactor binding pocket; inhibition site 384676014556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676014557 catalytic residue [active] 384676014558 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 384676014559 RNA methyltransferase, RsmE family; Region: TIGR00046 384676014560 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 384676014561 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 384676014562 CheW-like domain; Region: CheW; pfam01584 384676014563 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 384676014564 putative binding surface; other site 384676014565 active site 384676014566 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 384676014567 putative binding surface; other site 384676014568 active site 384676014569 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 384676014570 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 384676014571 putative binding surface; other site 384676014572 active site 384676014573 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 384676014574 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676014575 ATP binding site [chemical binding]; other site 384676014576 Mg2+ binding site [ion binding]; other site 384676014577 G-X-G motif; other site 384676014578 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 384676014579 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014581 active site 384676014582 phosphorylation site [posttranslational modification] 384676014583 intermolecular recognition site; other site 384676014584 dimerization interface [polypeptide binding]; other site 384676014585 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 384676014586 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014587 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014588 dimer interface [polypeptide binding]; other site 384676014589 putative CheW interface [polypeptide binding]; other site 384676014590 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 384676014591 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014593 active site 384676014594 phosphorylation site [posttranslational modification] 384676014595 intermolecular recognition site; other site 384676014596 dimerization interface [polypeptide binding]; other site 384676014597 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014598 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014599 active site 384676014600 phosphorylation site [posttranslational modification] 384676014601 intermolecular recognition site; other site 384676014602 dimerization interface [polypeptide binding]; other site 384676014603 glutathione synthetase; Provisional; Region: PRK05246 384676014604 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 384676014605 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 384676014606 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 384676014607 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 384676014608 hypothetical protein; Validated; Region: PRK00228 384676014609 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 384676014610 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 384676014611 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676014612 active site 384676014613 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 384676014614 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 384676014615 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 384676014616 dihydroorotase; Validated; Region: pyrC; PRK09357 384676014617 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 384676014618 active site 384676014619 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 384676014620 active site 384676014621 HslU subunit interaction site [polypeptide binding]; other site 384676014622 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 384676014623 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676014624 Walker A motif; other site 384676014625 ATP binding site [chemical binding]; other site 384676014626 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 384676014627 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 384676014628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 384676014629 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 384676014630 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 384676014631 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 384676014632 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 384676014633 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 384676014634 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 384676014635 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 384676014636 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 384676014637 Bacterial transcriptional repressor; Region: TetR; pfam13972 384676014638 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 384676014639 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 384676014640 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 384676014641 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 384676014642 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676014643 S-adenosylmethionine binding site [chemical binding]; other site 384676014644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 384676014645 SCP-2 sterol transfer family; Region: SCP2; pfam02036 384676014646 ABC1 family; Region: ABC1; cl17513 384676014647 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 384676014648 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 384676014649 metal binding site [ion binding]; metal-binding site 384676014650 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 384676014651 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 384676014652 sec-independent translocase; Provisional; Region: tatB; PRK00404 384676014653 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 384676014654 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 384676014655 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 384676014656 RNA methyltransferase, RsmE family; Region: TIGR00046 384676014657 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 384676014658 dimerization interface [polypeptide binding]; other site 384676014659 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014660 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014661 dimer interface [polypeptide binding]; other site 384676014662 putative CheW interface [polypeptide binding]; other site 384676014663 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 384676014664 dimerization interface [polypeptide binding]; other site 384676014665 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014666 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014667 dimer interface [polypeptide binding]; other site 384676014668 putative CheW interface [polypeptide binding]; other site 384676014669 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676014670 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676014671 Walker A/P-loop; other site 384676014672 ATP binding site [chemical binding]; other site 384676014673 Q-loop/lid; other site 384676014674 ABC transporter signature motif; other site 384676014675 Walker B; other site 384676014676 D-loop; other site 384676014677 H-loop/switch region; other site 384676014678 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676014679 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676014680 dimer interface [polypeptide binding]; other site 384676014681 conserved gate region; other site 384676014682 putative PBP binding loops; other site 384676014683 ABC-ATPase subunit interface; other site 384676014684 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676014685 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 384676014686 substrate binding pocket [chemical binding]; other site 384676014687 membrane-bound complex binding site; other site 384676014688 hinge residues; other site 384676014689 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 384676014690 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 384676014691 Ligand binding site; other site 384676014692 DXD motif; other site 384676014693 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 384676014694 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 384676014695 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 384676014696 putative active site [active] 384676014697 dimerization interface [polypeptide binding]; other site 384676014698 putative tRNAtyr binding site [nucleotide binding]; other site 384676014699 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 384676014700 TAP-like protein; Region: Abhydrolase_4; pfam08386 384676014701 N-formylglutamate amidohydrolase; Region: FGase; cl01522 384676014702 imidazolonepropionase; Validated; Region: PRK09356 384676014703 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 384676014704 active site 384676014705 putative proline-specific permease; Provisional; Region: proY; PRK10580 384676014706 Spore germination protein; Region: Spore_permease; cl17796 384676014707 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 384676014708 active sites [active] 384676014709 tetramer interface [polypeptide binding]; other site 384676014710 urocanate hydratase; Provisional; Region: PRK05414 384676014711 HutD; Region: HutD; pfam05962 384676014712 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 384676014713 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676014714 DNA-binding site [nucleotide binding]; DNA binding site 384676014715 UTRA domain; Region: UTRA; pfam07702 384676014716 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 384676014717 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 384676014718 active site 384676014719 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 384676014720 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 384676014721 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 384676014722 Cache domain; Region: Cache_1; pfam02743 384676014723 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 384676014724 dimerization interface [polypeptide binding]; other site 384676014725 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014726 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014727 dimer interface [polypeptide binding]; other site 384676014728 putative CheW interface [polypeptide binding]; other site 384676014729 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 384676014730 fructose-1,6-bisphosphatase family protein; Region: PLN02628 384676014731 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 384676014732 AMP binding site [chemical binding]; other site 384676014733 metal binding site [ion binding]; metal-binding site 384676014734 active site 384676014735 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 384676014736 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 384676014737 homodimer interface [polypeptide binding]; other site 384676014738 active site pocket [active] 384676014739 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 384676014740 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 384676014741 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 384676014742 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 384676014743 inhibitor-cofactor binding pocket; inhibition site 384676014744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676014745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676014746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676014747 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 384676014748 dimerization interface [polypeptide binding]; other site 384676014749 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism 384676014750 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 384676014751 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 384676014752 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676014753 active site 384676014754 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 384676014755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676014756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676014757 metal binding site [ion binding]; metal-binding site 384676014758 active site 384676014759 I-site; other site 384676014760 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 384676014761 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 384676014762 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 384676014763 active site 384676014764 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 384676014765 AAA domain; Region: AAA_26; pfam13500 384676014766 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 384676014767 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 384676014768 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676014769 S-adenosylmethionine binding site [chemical binding]; other site 384676014770 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 384676014771 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 384676014772 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 384676014773 substrate-cofactor binding pocket; other site 384676014774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676014775 catalytic residue [active] 384676014776 biotin synthase; Provisional; Region: PRK15108 384676014777 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 384676014778 FeS/SAM binding site; other site 384676014779 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 384676014780 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 384676014781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676014782 active site 384676014783 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 384676014784 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 384676014785 TOBE domain; Region: TOBE; cl01440 384676014786 serine/threonine protein kinase; Provisional; Region: PRK11768 384676014787 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 384676014788 Predicted permeases [General function prediction only]; Region: RarD; COG2962 384676014789 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 384676014790 ACT domain; Region: ACT_6; pfam13740 384676014791 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 384676014792 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 384676014793 active site 384676014794 Response regulator receiver domain; Region: Response_reg; pfam00072 384676014795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014796 active site 384676014797 phosphorylation site [posttranslational modification] 384676014798 intermolecular recognition site; other site 384676014799 dimerization interface [polypeptide binding]; other site 384676014800 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 384676014801 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 384676014802 ligand binding site [chemical binding]; other site 384676014803 flexible hinge region; other site 384676014804 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 384676014805 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 384676014806 metal binding triad; other site 384676014807 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 384676014808 active site 384676014809 catalytic site [active] 384676014810 substrate binding site [chemical binding]; other site 384676014811 RNA polymerase sigma factor; Reviewed; Region: PRK12523 384676014812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 384676014813 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 384676014814 DNA binding residues [nucleotide binding] 384676014815 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 384676014816 FecR protein; Region: FecR; pfam04773 384676014817 Secretin and TonB N terminus short domain; Region: STN; smart00965 384676014818 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 384676014819 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 384676014820 N-terminal plug; other site 384676014821 ligand-binding site [chemical binding]; other site 384676014822 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 384676014823 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 384676014824 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 384676014825 active site 384676014826 ATP binding site [chemical binding]; other site 384676014827 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 384676014828 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 384676014829 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 384676014830 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 384676014831 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 384676014832 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 384676014833 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 384676014834 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 384676014835 putative active site [active] 384676014836 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 384676014837 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 384676014838 putative active site [active] 384676014839 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 384676014840 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 384676014841 metal binding triad; other site 384676014842 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 384676014843 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 384676014844 metal binding triad; other site 384676014845 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 384676014846 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 384676014847 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 384676014848 dimer interface [polypeptide binding]; other site 384676014849 TPP-binding site [chemical binding]; other site 384676014850 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 384676014851 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 384676014852 E3 interaction surface; other site 384676014853 lipoyl attachment site [posttranslational modification]; other site 384676014854 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 384676014855 E3 interaction surface; other site 384676014856 lipoyl attachment site [posttranslational modification]; other site 384676014857 e3 binding domain; Region: E3_binding; pfam02817 384676014858 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 384676014859 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 384676014860 GAF domain; Region: GAF; pfam01590 384676014861 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 384676014862 PAS domain; Region: PAS_9; pfam13426 384676014863 putative active site [active] 384676014864 heme pocket [chemical binding]; other site 384676014865 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676014866 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676014867 metal binding site [ion binding]; metal-binding site 384676014868 active site 384676014869 I-site; other site 384676014870 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 384676014871 methionine sulfoxide reductase A; Provisional; Region: PRK00058 384676014872 putative glutathione S-transferase; Provisional; Region: PRK10357 384676014873 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 384676014874 putative C-terminal domain interface [polypeptide binding]; other site 384676014875 putative GSH binding site (G-site) [chemical binding]; other site 384676014876 putative dimer interface [polypeptide binding]; other site 384676014877 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 384676014878 dimer interface [polypeptide binding]; other site 384676014879 N-terminal domain interface [polypeptide binding]; other site 384676014880 putative substrate binding pocket (H-site) [chemical binding]; other site 384676014881 inner membrane protein; Provisional; Region: PRK11715 384676014882 sensory histidine kinase CreC; Provisional; Region: PRK11100 384676014883 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 384676014884 dimer interface [polypeptide binding]; other site 384676014885 phosphorylation site [posttranslational modification] 384676014886 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676014887 ATP binding site [chemical binding]; other site 384676014888 G-X-G motif; other site 384676014889 DNA-binding response regulator CreB; Provisional; Region: PRK11083 384676014890 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676014891 active site 384676014892 phosphorylation site [posttranslational modification] 384676014893 intermolecular recognition site; other site 384676014894 dimerization interface [polypeptide binding]; other site 384676014895 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 384676014896 DNA binding site [nucleotide binding] 384676014897 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 384676014898 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 384676014899 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 384676014900 putative acyl-acceptor binding pocket; other site 384676014901 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 384676014902 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 384676014903 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 384676014904 NAD binding site [chemical binding]; other site 384676014905 catalytic Zn binding site [ion binding]; other site 384676014906 structural Zn binding site [ion binding]; other site 384676014907 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 384676014908 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 384676014909 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 384676014910 putative active site [active] 384676014911 putative substrate binding site [chemical binding]; other site 384676014912 putative cosubstrate binding site; other site 384676014913 catalytic site [active] 384676014914 Sarcosine oxidase, gamma subunit family; Region: SoxG; pfam04268 384676014915 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 384676014916 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 384676014917 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 384676014918 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 384676014919 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 384676014920 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676014921 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 384676014922 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 384676014923 dimer interface [polypeptide binding]; other site 384676014924 active site 384676014925 glycine-pyridoxal phosphate binding site [chemical binding]; other site 384676014926 folate binding site [chemical binding]; other site 384676014927 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 384676014928 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 384676014929 tetramer interface [polypeptide binding]; other site 384676014930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676014931 catalytic residue [active] 384676014932 Cache domain; Region: Cache_1; pfam02743 384676014933 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 384676014934 dimerization interface [polypeptide binding]; other site 384676014935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014937 dimer interface [polypeptide binding]; other site 384676014938 putative CheW interface [polypeptide binding]; other site 384676014939 Cell division protein ZapA; Region: ZapA; pfam05164 384676014940 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 384676014941 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 384676014942 dimerization interface [polypeptide binding]; other site 384676014943 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676014944 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676014945 dimer interface [polypeptide binding]; other site 384676014946 putative CheW interface [polypeptide binding]; other site 384676014947 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 384676014948 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 384676014949 FAD binding pocket [chemical binding]; other site 384676014950 FAD binding motif [chemical binding]; other site 384676014951 phosphate binding motif [ion binding]; other site 384676014952 beta-alpha-beta structure motif; other site 384676014953 NAD binding pocket [chemical binding]; other site 384676014954 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 384676014955 catalytic loop [active] 384676014956 iron binding site [ion binding]; other site 384676014957 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 384676014958 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 384676014959 [2Fe-2S] cluster binding site [ion binding]; other site 384676014960 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 384676014961 putative alpha subunit interface [polypeptide binding]; other site 384676014962 putative active site [active] 384676014963 putative substrate binding site [chemical binding]; other site 384676014964 Fe binding site [ion binding]; other site 384676014965 Transposase IS200 like; Region: Y1_Tnp; cl00848 384676014966 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 384676014967 Ligand Binding Site [chemical binding]; other site 384676014968 Electron transfer flavoprotein domain; Region: ETF; pfam01012 384676014969 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; cd01985 384676014970 Ligand binding site [chemical binding]; other site 384676014971 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 384676014972 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 384676014973 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 384676014974 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 384676014975 Cysteine-rich domain; Region: CCG; pfam02754 384676014976 Cysteine-rich domain; Region: CCG; pfam02754 384676014977 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 384676014978 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 384676014979 putative active site [active] 384676014980 putative FMN binding site [chemical binding]; other site 384676014981 putative substrate binding site [chemical binding]; other site 384676014982 putative catalytic residue [active] 384676014983 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676014984 V4R domain; Region: V4R; cl15268 384676014985 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 384676014986 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 384676014987 active site 384676014988 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 384676014989 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 384676014990 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 384676014991 conserved cys residue [active] 384676014992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676014993 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676014994 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 384676014995 Uncharacterized conserved protein [Function unknown]; Region: COG3246 384676014996 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 384676014997 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 384676014998 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 384676014999 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 384676015000 active site 384676015001 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 384676015002 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 384676015003 conserved cys residue [active] 384676015004 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 384676015005 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 384676015006 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 384676015007 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 384676015008 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 384676015009 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 384676015010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015011 dimer interface [polypeptide binding]; other site 384676015012 conserved gate region; other site 384676015013 putative PBP binding loops; other site 384676015014 ABC-ATPase subunit interface; other site 384676015015 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 384676015016 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676015017 Walker A/P-loop; other site 384676015018 ATP binding site [chemical binding]; other site 384676015019 Q-loop/lid; other site 384676015020 ABC transporter signature motif; other site 384676015021 Walker B; other site 384676015022 D-loop; other site 384676015023 H-loop/switch region; other site 384676015024 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 384676015025 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 384676015026 substrate binding site [chemical binding]; other site 384676015027 glutamase interaction surface [polypeptide binding]; other site 384676015028 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 384676015029 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 384676015030 catalytic residues [active] 384676015031 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 384676015032 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 384676015033 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 384676015034 putative active site [active] 384676015035 oxyanion strand; other site 384676015036 catalytic triad [active] 384676015037 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 384676015038 putative active site pocket [active] 384676015039 4-fold oligomerization interface [polypeptide binding]; other site 384676015040 metal binding residues [ion binding]; metal-binding site 384676015041 3-fold/trimer interface [polypeptide binding]; other site 384676015042 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 384676015043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676015044 AsmA family; Region: AsmA; pfam05170 384676015045 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 384676015046 adenine DNA glycosylase; Provisional; Region: PRK10880 384676015047 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 384676015048 minor groove reading motif; other site 384676015049 helix-hairpin-helix signature motif; other site 384676015050 substrate binding pocket [chemical binding]; other site 384676015051 active site 384676015052 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 384676015053 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 384676015054 DNA binding and oxoG recognition site [nucleotide binding] 384676015055 oxidative damage protection protein; Provisional; Region: PRK05408 384676015056 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 384676015057 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 384676015058 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 384676015059 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 384676015060 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676015061 Walker A/P-loop; other site 384676015062 ATP binding site [chemical binding]; other site 384676015063 Q-loop/lid; other site 384676015064 ABC transporter signature motif; other site 384676015065 Walker B; other site 384676015066 D-loop; other site 384676015067 H-loop/switch region; other site 384676015068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 384676015069 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 384676015070 substrate binding pocket [chemical binding]; other site 384676015071 membrane-bound complex binding site; other site 384676015072 hinge residues; other site 384676015073 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676015074 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015075 dimer interface [polypeptide binding]; other site 384676015076 conserved gate region; other site 384676015077 putative PBP binding loops; other site 384676015078 ABC-ATPase subunit interface; other site 384676015079 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676015080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015081 dimer interface [polypeptide binding]; other site 384676015082 conserved gate region; other site 384676015083 putative PBP binding loops; other site 384676015084 ABC-ATPase subunit interface; other site 384676015085 Methyltransferase domain; Region: Methyltransf_32; pfam13679 384676015086 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 384676015087 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 384676015088 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 384676015089 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 384676015090 non-specific DNA binding site [nucleotide binding]; other site 384676015091 salt bridge; other site 384676015092 sequence-specific DNA binding site [nucleotide binding]; other site 384676015093 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 384676015094 non-specific DNA binding site [nucleotide binding]; other site 384676015095 sequence-specific DNA binding site [nucleotide binding]; other site 384676015096 salt bridge; other site 384676015097 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 384676015098 Protein of unknown function DUF262; Region: DUF262; pfam03235 384676015099 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 384676015100 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 384676015101 Multicopper oxidase; Region: Cu-oxidase; pfam00394 384676015102 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 384676015103 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 384676015104 YcfA-like protein; Region: YcfA; pfam07927 384676015105 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 384676015106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015107 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 384676015108 dimerization interface [polypeptide binding]; other site 384676015109 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 384676015110 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676015111 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 384676015112 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 384676015113 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 384676015114 DNA binding residues [nucleotide binding] 384676015115 dimer interface [polypeptide binding]; other site 384676015116 putative metal binding site [ion binding]; other site 384676015117 thymidylate synthase; Provisional; Region: thyA; PRK13821 384676015118 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 384676015119 dimerization interface [polypeptide binding]; other site 384676015120 active site 384676015121 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 384676015122 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 384676015123 NRDE protein; Region: NRDE; cl01315 384676015124 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 384676015125 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 384676015126 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 384676015127 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 384676015128 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 384676015129 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 384676015130 putative active site [active] 384676015131 Ap4A binding site [chemical binding]; other site 384676015132 nudix motif; other site 384676015133 putative metal binding site [ion binding]; other site 384676015134 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 384676015135 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 384676015136 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 384676015137 threonine dehydratase; Reviewed; Region: PRK09224 384676015138 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 384676015139 tetramer interface [polypeptide binding]; other site 384676015140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015141 catalytic residue [active] 384676015142 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 384676015143 putative Ile/Val binding site [chemical binding]; other site 384676015144 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 384676015145 putative Ile/Val binding site [chemical binding]; other site 384676015146 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 384676015147 tetramer (dimer of dimers) interface [polypeptide binding]; other site 384676015148 active site 384676015149 dimer interface [polypeptide binding]; other site 384676015150 SdiA-regulated; Region: SdiA-regulated; pfam06977 384676015151 SdiA-regulated; Region: SdiA-regulated; cd09971 384676015152 putative active site [active] 384676015153 SdiA-regulated; Region: SdiA-regulated; pfam06977 384676015154 SdiA-regulated; Region: SdiA-regulated; cd09971 384676015155 putative active site [active] 384676015156 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 384676015157 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 384676015158 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 384676015159 FAD binding domain; Region: FAD_binding_4; pfam01565 384676015160 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 384676015161 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 384676015162 ligand binding site [chemical binding]; other site 384676015163 NAD binding site [chemical binding]; other site 384676015164 tetramer interface [polypeptide binding]; other site 384676015165 catalytic site [active] 384676015166 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 384676015167 L-serine binding site [chemical binding]; other site 384676015168 ACT domain interface; other site 384676015169 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 384676015170 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 384676015171 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 384676015172 membrane-bound complex binding site; other site 384676015173 hinge residues; other site 384676015174 Uncharacterized conserved protein [Function unknown]; Region: COG1683 384676015175 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 384676015176 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 384676015177 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 384676015178 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676015179 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676015180 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 384676015181 active site 384676015182 substrate binding site [chemical binding]; other site 384676015183 trimer interface [polypeptide binding]; other site 384676015184 CoA binding site [chemical binding]; other site 384676015185 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 384676015186 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 384676015187 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 384676015188 active site 384676015189 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 384676015190 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 384676015191 substrate binding pocket [chemical binding]; other site 384676015192 membrane-bound complex binding site; other site 384676015193 hinge residues; other site 384676015194 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 384676015195 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 384676015196 Walker A/P-loop; other site 384676015197 ATP binding site [chemical binding]; other site 384676015198 Q-loop/lid; other site 384676015199 ABC transporter signature motif; other site 384676015200 Walker B; other site 384676015201 D-loop; other site 384676015202 H-loop/switch region; other site 384676015203 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 384676015204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015205 dimer interface [polypeptide binding]; other site 384676015206 conserved gate region; other site 384676015207 putative PBP binding loops; other site 384676015208 ABC-ATPase subunit interface; other site 384676015209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015210 dimer interface [polypeptide binding]; other site 384676015211 conserved gate region; other site 384676015212 putative PBP binding loops; other site 384676015213 ABC-ATPase subunit interface; other site 384676015214 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 384676015215 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 384676015216 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676015217 Walker A motif; other site 384676015218 ATP binding site [chemical binding]; other site 384676015219 Walker B motif; other site 384676015220 arginine finger; other site 384676015221 Serine hydrolase; Region: Ser_hydrolase; pfam06821 384676015222 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 384676015223 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676015224 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 384676015225 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676015226 RHS Repeat; Region: RHS_repeat; pfam05593 384676015227 RHS Repeat; Region: RHS_repeat; pfam05593 384676015228 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 384676015229 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 384676015230 RHS Repeat; Region: RHS_repeat; pfam05593 384676015231 RHS Repeat; Region: RHS_repeat; cl11982 384676015232 RHS protein; Region: RHS; pfam03527 384676015233 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 384676015234 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676015235 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676015236 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676015237 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 384676015238 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 384676015239 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 384676015240 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 384676015241 TolR protein; Region: tolR; TIGR02801 384676015242 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 384676015243 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 384676015244 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 384676015245 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 384676015246 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 384676015247 Walker A/P-loop; other site 384676015248 ATP binding site [chemical binding]; other site 384676015249 Q-loop/lid; other site 384676015250 ABC transporter signature motif; other site 384676015251 Walker B; other site 384676015252 D-loop; other site 384676015253 H-loop/switch region; other site 384676015254 TOBE-like domain; Region: TOBE_3; pfam12857 384676015255 sulfate transport protein; Provisional; Region: cysT; CHL00187 384676015256 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015257 dimer interface [polypeptide binding]; other site 384676015258 conserved gate region; other site 384676015259 putative PBP binding loops; other site 384676015260 ABC-ATPase subunit interface; other site 384676015261 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 384676015262 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015263 dimer interface [polypeptide binding]; other site 384676015264 conserved gate region; other site 384676015265 putative PBP binding loops; other site 384676015266 ABC-ATPase subunit interface; other site 384676015267 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 384676015268 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 384676015269 substrate binding pocket [chemical binding]; other site 384676015270 membrane-bound complex binding site; other site 384676015271 hinge residues; other site 384676015272 Uncharacterized small protein [Function unknown]; Region: COG5583 384676015273 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 384676015274 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676015275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676015276 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676015277 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676015278 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 384676015279 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676015280 Predicted ATPase [General function prediction only]; Region: COG4637 384676015281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676015282 Walker A/P-loop; other site 384676015283 ATP binding site [chemical binding]; other site 384676015284 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676015285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015286 dimer interface [polypeptide binding]; other site 384676015287 conserved gate region; other site 384676015288 putative PBP binding loops; other site 384676015289 ABC-ATPase subunit interface; other site 384676015290 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 384676015291 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015292 dimer interface [polypeptide binding]; other site 384676015293 conserved gate region; other site 384676015294 putative PBP binding loops; other site 384676015295 ABC-ATPase subunit interface; other site 384676015296 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 384676015297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676015298 Walker A/P-loop; other site 384676015299 ATP binding site [chemical binding]; other site 384676015300 Q-loop/lid; other site 384676015301 ABC transporter signature motif; other site 384676015302 Walker B; other site 384676015303 D-loop; other site 384676015304 H-loop/switch region; other site 384676015305 TOBE domain; Region: TOBE_2; pfam08402 384676015306 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676015307 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676015308 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676015309 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676015310 putative aminotransferase; Validated; Region: PRK07480 384676015311 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 384676015312 inhibitor-cofactor binding pocket; inhibition site 384676015313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015314 catalytic residue [active] 384676015315 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676015316 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676015317 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676015318 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676015319 N-acetylglutamate synthase; Validated; Region: PRK05279 384676015320 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 384676015321 putative feedback inhibition sensing region; other site 384676015322 putative nucleotide binding site [chemical binding]; other site 384676015323 putative substrate binding site [chemical binding]; other site 384676015324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676015325 Coenzyme A binding pocket [chemical binding]; other site 384676015326 acetylornithine deacetylase; Provisional; Region: PRK05111 384676015327 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 384676015328 metal binding site [ion binding]; metal-binding site 384676015329 putative dimer interface [polypeptide binding]; other site 384676015330 Uncharacterized conserved protein [Function unknown]; Region: COG3025 384676015331 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 384676015332 putative active site; other site 384676015333 putative metal binding residues [ion binding]; other site 384676015334 signature motif; other site 384676015335 putative triphosphate binding site [ion binding]; other site 384676015336 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676015337 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 384676015338 putative DNA binding site [nucleotide binding]; other site 384676015339 putative Zn2+ binding site [ion binding]; other site 384676015340 AsnC family; Region: AsnC_trans_reg; pfam01037 384676015341 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 384676015342 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 384676015343 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 384676015344 Walker A motif; other site 384676015345 ATP binding site [chemical binding]; other site 384676015346 Walker B motif; other site 384676015347 conserverd hypothetical protein; Region: TIGR02448 384676015348 glycine dehydrogenase; Provisional; Region: PRK12566 384676015349 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 384676015350 tetramer interface [polypeptide binding]; other site 384676015351 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015352 catalytic residue [active] 384676015353 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 384676015354 tetramer interface [polypeptide binding]; other site 384676015355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015356 catalytic residue [active] 384676015357 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 384676015358 lipoyl attachment site [posttranslational modification]; other site 384676015359 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 384676015360 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 384676015361 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 384676015362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015363 dimer interface [polypeptide binding]; other site 384676015364 conserved gate region; other site 384676015365 putative PBP binding loops; other site 384676015366 ABC-ATPase subunit interface; other site 384676015367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015368 dimer interface [polypeptide binding]; other site 384676015369 conserved gate region; other site 384676015370 putative PBP binding loops; other site 384676015371 ABC-ATPase subunit interface; other site 384676015372 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 384676015373 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 384676015374 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 384676015375 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 384676015376 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 384676015377 active site 2 [active] 384676015378 active site 1 [active] 384676015379 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 384676015380 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 384676015381 proline aminopeptidase P II; Provisional; Region: PRK10879 384676015382 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 384676015383 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 384676015384 active site 384676015385 hypothetical protein; Reviewed; Region: PRK02166 384676015386 TIGR02449 family protein; Region: TIGR02449 384676015387 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 384676015388 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 384676015389 EVE domain; Region: EVE; cl00728 384676015390 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 384676015391 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 384676015392 HlyD family secretion protein; Region: HlyD_3; pfam13437 384676015393 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 384676015394 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 384676015395 Walker A/P-loop; other site 384676015396 ATP binding site [chemical binding]; other site 384676015397 Q-loop/lid; other site 384676015398 ABC transporter signature motif; other site 384676015399 Walker B; other site 384676015400 D-loop; other site 384676015401 H-loop/switch region; other site 384676015402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 384676015403 Walker A/P-loop; other site 384676015404 ATP binding site [chemical binding]; other site 384676015405 Q-loop/lid; other site 384676015406 ABC transporter signature motif; other site 384676015407 Walker B; other site 384676015408 D-loop; other site 384676015409 H-loop/switch region; other site 384676015410 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 384676015411 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 384676015412 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 384676015413 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 384676015414 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 384676015415 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 384676015416 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 384676015417 NAD(P) binding site [chemical binding]; other site 384676015418 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 384676015419 putative active site pocket [active] 384676015420 dimerization interface [polypeptide binding]; other site 384676015421 putative catalytic residue [active] 384676015422 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 384676015423 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 384676015424 catalytic loop [active] 384676015425 iron binding site [ion binding]; other site 384676015426 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 384676015427 FAD binding pocket [chemical binding]; other site 384676015428 FAD binding motif [chemical binding]; other site 384676015429 phosphate binding motif [ion binding]; other site 384676015430 beta-alpha-beta structure motif; other site 384676015431 NAD binding pocket [chemical binding]; other site 384676015432 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 384676015433 transcription termination factor Rho; Provisional; Region: rho; PRK09376 384676015434 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 384676015435 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 384676015436 RNA binding site [nucleotide binding]; other site 384676015437 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 384676015438 multimer interface [polypeptide binding]; other site 384676015439 Walker A motif; other site 384676015440 ATP binding site [chemical binding]; other site 384676015441 Walker B motif; other site 384676015442 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 384676015443 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 384676015444 catalytic residues [active] 384676015445 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 384676015446 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 384676015447 polyphosphate kinase; Provisional; Region: PRK05443 384676015448 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 384676015449 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 384676015450 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 384676015451 putative active site [active] 384676015452 catalytic site [active] 384676015453 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 384676015454 putative domain interface [polypeptide binding]; other site 384676015455 putative active site [active] 384676015456 catalytic site [active] 384676015457 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 384676015458 dimer interface [polypeptide binding]; other site 384676015459 allosteric magnesium binding site [ion binding]; other site 384676015460 active site 384676015461 aspartate-rich active site metal binding site; other site 384676015462 Schiff base residues; other site 384676015463 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 384676015464 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 384676015465 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 384676015466 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 384676015467 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 384676015468 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 384676015469 conserved cys residue [active] 384676015470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 384676015471 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 384676015472 Cytochrome c; Region: Cytochrom_C; pfam00034 384676015473 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 384676015474 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 384676015475 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 384676015476 putative dimer interface [polypeptide binding]; other site 384676015477 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 384676015478 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676015479 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 384676015480 HemY protein N-terminus; Region: HemY_N; pfam07219 384676015481 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 384676015482 uroporphyrinogen-III synthase; Validated; Region: PRK05752 384676015483 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 384676015484 active site 384676015485 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 384676015486 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 384676015487 domain interfaces; other site 384676015488 active site 384676015489 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 384676015490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676015491 active site 384676015492 phosphorylation site [posttranslational modification] 384676015493 intermolecular recognition site; other site 384676015494 dimerization interface [polypeptide binding]; other site 384676015495 LytTr DNA-binding domain; Region: LytTR; pfam04397 384676015496 argininosuccinate lyase; Provisional; Region: PRK00855 384676015497 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 384676015498 active sites [active] 384676015499 tetramer interface [polypeptide binding]; other site 384676015500 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 384676015501 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 384676015502 C-terminal domain interface [polypeptide binding]; other site 384676015503 GSH binding site (G-site) [chemical binding]; other site 384676015504 dimer interface [polypeptide binding]; other site 384676015505 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 384676015506 N-terminal domain interface [polypeptide binding]; other site 384676015507 TIGR02647 family protein; Region: DNA 384676015508 adenylate cyclase; Provisional; Region: cyaA; PRK09450 384676015509 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 384676015510 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 384676015511 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 384676015512 active site 384676015513 catalytic site [active] 384676015514 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 384676015515 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 384676015516 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 384676015517 frataxin-like protein; Provisional; Region: cyaY; PRK00446 384676015518 putative iron binding site [ion binding]; other site 384676015519 diaminopimelate decarboxylase; Region: lysA; TIGR01048 384676015520 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 384676015521 active site 384676015522 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676015523 substrate binding site [chemical binding]; other site 384676015524 catalytic residues [active] 384676015525 dimer interface [polypeptide binding]; other site 384676015526 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 384676015527 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 384676015528 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 384676015529 Protein of unknown function, DUF484; Region: DUF484; cl17449 384676015530 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 384676015531 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 384676015532 active site 384676015533 DNA binding site [nucleotide binding] 384676015534 Int/Topo IB signature motif; other site 384676015535 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 384676015536 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 384676015537 motif II; other site 384676015538 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 384676015539 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 384676015540 Ligand binding site; other site 384676015541 Putative Catalytic site; other site 384676015542 DXD motif; other site 384676015543 Predicted membrane protein [Function unknown]; Region: COG2246 384676015544 GtrA-like protein; Region: GtrA; pfam04138 384676015545 Methyltransferase domain; Region: Methyltransf_23; pfam13489 384676015546 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676015547 S-adenosylmethionine binding site [chemical binding]; other site 384676015548 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 384676015549 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 384676015550 Nitrogen regulatory protein P-II; Region: P-II; smart00938 384676015551 Membrane fusogenic activity; Region: BMFP; pfam04380 384676015552 molybdenum-pterin binding domain; Region: Mop; TIGR00638 384676015553 molybdenum-pterin binding domain; Region: Mop; TIGR00638 384676015554 magnesium-transporting ATPase; Provisional; Region: PRK15122 384676015555 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 384676015556 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 384676015557 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 384676015558 Soluble P-type ATPase [General function prediction only]; Region: COG4087 384676015559 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 384676015560 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 384676015561 Domain of unknown function (DUF4034); Region: DUF4034; pfam13226 384676015562 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 384676015563 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 384676015564 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 384676015565 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 384676015566 Walker A motif; other site 384676015567 ATP binding site [chemical binding]; other site 384676015568 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 384676015569 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 384676015570 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 384676015571 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676015572 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 384676015573 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 384676015574 TrkA-N domain; Region: TrkA_N; pfam02254 384676015575 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 384676015576 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 384676015577 non-specific DNA binding site [nucleotide binding]; other site 384676015578 salt bridge; other site 384676015579 sequence-specific DNA binding site [nucleotide binding]; other site 384676015580 Protein of unknown function (DUF3077); Region: DUF3077; pfam11275 384676015581 Isochorismatase family; Region: Isochorismatase; pfam00857 384676015582 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 384676015583 catalytic triad [active] 384676015584 dimer interface [polypeptide binding]; other site 384676015585 conserved cis-peptide bond; other site 384676015586 LysR family transcriptional regulator; Provisional; Region: PRK14997 384676015587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015588 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 384676015589 putative effector binding pocket; other site 384676015590 putative dimerization interface [polypeptide binding]; other site 384676015591 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 384676015592 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 384676015593 active site 384676015594 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676015595 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676015596 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 384676015597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 384676015598 Isochorismatase family; Region: Isochorismatase; pfam00857 384676015599 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 384676015600 catalytic triad [active] 384676015601 dimer interface [polypeptide binding]; other site 384676015602 conserved cis-peptide bond; other site 384676015603 Mechanosensitive ion channel; Region: MS_channel; pfam00924 384676015604 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 384676015605 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 384676015606 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 384676015607 ligand binding site [chemical binding]; other site 384676015608 flexible hinge region; other site 384676015609 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676015610 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676015611 aldehyde dehydrogenase family 7 member; Region: PLN02315 384676015612 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 384676015613 tetrameric interface [polypeptide binding]; other site 384676015614 NAD binding site [chemical binding]; other site 384676015615 catalytic residues [active] 384676015616 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676015617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015618 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 384676015619 dimerization interface [polypeptide binding]; other site 384676015620 substrate binding pocket [chemical binding]; other site 384676015621 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 384676015622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 384676015623 Cache domain; Region: Cache_1; pfam02743 384676015624 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 384676015625 dimerization interface [polypeptide binding]; other site 384676015626 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 384676015627 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 384676015628 dimer interface [polypeptide binding]; other site 384676015629 putative CheW interface [polypeptide binding]; other site 384676015630 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 384676015631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015632 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 384676015633 dimerization interface [polypeptide binding]; other site 384676015634 multidrug efflux protein NorA; Provisional; Region: PRK00187 384676015635 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 384676015636 cation binding site [ion binding]; other site 384676015637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 384676015638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676015639 metal binding site [ion binding]; metal-binding site 384676015640 active site 384676015641 I-site; other site 384676015642 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 384676015643 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 384676015644 Part of AAA domain; Region: AAA_19; pfam13245 384676015645 Family description; Region: UvrD_C_2; pfam13538 384676015646 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676015647 active site 384676015648 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 384676015649 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 384676015650 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 384676015651 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 384676015652 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 384676015653 non-specific DNA binding site [nucleotide binding]; other site 384676015654 salt bridge; other site 384676015655 sequence-specific DNA binding site [nucleotide binding]; other site 384676015656 Cupin domain; Region: Cupin_2; pfam07883 384676015657 alanine racemase; Reviewed; Region: dadX; PRK03646 384676015658 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 384676015659 active site 384676015660 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 384676015661 substrate binding site [chemical binding]; other site 384676015662 catalytic residues [active] 384676015663 dimer interface [polypeptide binding]; other site 384676015664 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 384676015665 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 384676015666 hydroxyglutarate oxidase; Provisional; Region: PRK11728 384676015667 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 384676015668 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 384676015669 putative DNA binding site [nucleotide binding]; other site 384676015670 putative Zn2+ binding site [ion binding]; other site 384676015671 AsnC family; Region: AsnC_trans_reg; pfam01037 384676015672 Flagellin N-methylase; Region: FliB; pfam03692 384676015673 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 384676015674 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676015675 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 384676015676 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 384676015677 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676015678 DNA-binding site [nucleotide binding]; DNA binding site 384676015679 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 384676015680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015681 homodimer interface [polypeptide binding]; other site 384676015682 catalytic residue [active] 384676015683 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 384676015684 PLD-like domain; Region: PLDc_2; pfam13091 384676015685 putative active site [active] 384676015686 catalytic site [active] 384676015687 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 384676015688 PLD-like domain; Region: PLDc_2; pfam13091 384676015689 putative active site [active] 384676015690 catalytic site [active] 384676015691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676015692 Major Facilitator Superfamily; Region: MFS_1; pfam07690 384676015693 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 384676015694 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 384676015695 NAD(P) binding site [chemical binding]; other site 384676015696 catalytic residues [active] 384676015697 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 384676015698 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 384676015699 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 384676015700 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 384676015701 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 384676015702 peptide binding site [polypeptide binding]; other site 384676015703 hypothetical protein; Reviewed; Region: PRK00024 384676015704 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 384676015705 MPN+ (JAMM) motif; other site 384676015706 Zinc-binding site [ion binding]; other site 384676015707 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 384676015708 Flavoprotein; Region: Flavoprotein; pfam02441 384676015709 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 384676015710 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 384676015711 trimer interface [polypeptide binding]; other site 384676015712 active site 384676015713 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 384676015714 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 384676015715 active site 384676015716 substrate binding site [chemical binding]; other site 384676015717 metal binding site [ion binding]; metal-binding site 384676015718 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 384676015719 feedback inhibition sensing region; other site 384676015720 homohexameric interface [polypeptide binding]; other site 384676015721 nucleotide binding site [chemical binding]; other site 384676015722 N-acetyl-L-glutamate binding site [chemical binding]; other site 384676015723 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 384676015724 active site 384676015725 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 384676015726 putative active site [active] 384676015727 putative catalytic site [active] 384676015728 putative DNA binding site [nucleotide binding]; other site 384676015729 putative phosphate binding site [ion binding]; other site 384676015730 metal binding site A [ion binding]; metal-binding site 384676015731 putative AP binding site [nucleotide binding]; other site 384676015732 putative metal binding site B [ion binding]; other site 384676015733 ribonuclease PH; Reviewed; Region: rph; PRK00173 384676015734 Ribonuclease PH; Region: RNase_PH_bact; cd11362 384676015735 hexamer interface [polypeptide binding]; other site 384676015736 active site 384676015737 hypothetical protein; Provisional; Region: PRK11820 384676015738 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 384676015739 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 384676015740 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 384676015741 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 384676015742 catalytic site [active] 384676015743 G-X2-G-X-G-K; other site 384676015744 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 384676015745 Peptidase C26; Region: Peptidase_C26; pfam07722 384676015746 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 384676015747 catalytic triad [active] 384676015748 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 384676015749 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 384676015750 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676015751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015752 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 384676015753 dimerization interface [polypeptide binding]; other site 384676015754 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 384676015755 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 384676015756 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 384676015757 Zn2+ binding site [ion binding]; other site 384676015758 Mg2+ binding site [ion binding]; other site 384676015759 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 384676015760 synthetase active site [active] 384676015761 NTP binding site [chemical binding]; other site 384676015762 metal binding site [ion binding]; metal-binding site 384676015763 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 384676015764 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 384676015765 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 384676015766 homotrimer interaction site [polypeptide binding]; other site 384676015767 putative active site [active] 384676015768 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 384676015769 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 384676015770 putative NAD(P) binding site [chemical binding]; other site 384676015771 tonB-system energizer ExbB; Region: exbB; TIGR02797 384676015772 biopolymer transport protein ExbD; Provisional; Region: PRK11267 384676015773 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 384676015774 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 384676015775 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 384676015776 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 384676015777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015778 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 384676015779 dimerization interface [polypeptide binding]; other site 384676015780 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 384676015781 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 384676015782 generic binding surface II; other site 384676015783 ssDNA binding site; other site 384676015784 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 384676015785 ATP binding site [chemical binding]; other site 384676015786 putative Mg++ binding site [ion binding]; other site 384676015787 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 384676015788 nucleotide binding region [chemical binding]; other site 384676015789 ATP-binding site [chemical binding]; other site 384676015790 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 384676015791 putative deacylase active site [active] 384676015792 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 384676015793 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 384676015794 IHF dimer interface [polypeptide binding]; other site 384676015795 IHF - DNA interface [nucleotide binding]; other site 384676015796 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 384676015797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676015798 Rubredoxin [Energy production and conversion]; Region: COG1773 384676015799 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 384676015800 iron binding site [ion binding]; other site 384676015801 Chorismate lyase; Region: Chor_lyase; cl01230 384676015802 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 384676015803 UbiA prenyltransferase family; Region: UbiA; pfam01040 384676015804 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 384676015805 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 384676015806 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 384676015807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676015808 active site 384676015809 phosphorylation site [posttranslational modification] 384676015810 intermolecular recognition site; other site 384676015811 dimerization interface [polypeptide binding]; other site 384676015812 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 384676015813 DNA binding site [nucleotide binding] 384676015814 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 384676015815 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 384676015816 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 384676015817 putative active site [active] 384676015818 heme pocket [chemical binding]; other site 384676015819 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 384676015820 dimer interface [polypeptide binding]; other site 384676015821 phosphorylation site [posttranslational modification] 384676015822 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 384676015823 ATP binding site [chemical binding]; other site 384676015824 Mg2+ binding site [ion binding]; other site 384676015825 G-X-G motif; other site 384676015826 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 384676015827 Domain of unknown function DUF21; Region: DUF21; pfam01595 384676015828 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 384676015829 Transporter associated domain; Region: CorC_HlyC; smart01091 384676015830 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 384676015831 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 384676015832 Peptidase family M23; Region: Peptidase_M23; pfam01551 384676015833 Response regulator receiver domain; Region: Response_reg; pfam00072 384676015834 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 384676015835 active site 384676015836 phosphorylation site [posttranslational modification] 384676015837 intermolecular recognition site; other site 384676015838 dimerization interface [polypeptide binding]; other site 384676015839 transcriptional regulator PhoU; Provisional; Region: PRK11115 384676015840 PhoU domain; Region: PhoU; pfam01895 384676015841 PhoU domain; Region: PhoU; pfam01895 384676015842 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 384676015843 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 384676015844 Walker A/P-loop; other site 384676015845 ATP binding site [chemical binding]; other site 384676015846 Q-loop/lid; other site 384676015847 ABC transporter signature motif; other site 384676015848 Walker B; other site 384676015849 D-loop; other site 384676015850 H-loop/switch region; other site 384676015851 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 384676015852 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 384676015853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015854 dimer interface [polypeptide binding]; other site 384676015855 conserved gate region; other site 384676015856 putative PBP binding loops; other site 384676015857 ABC-ATPase subunit interface; other site 384676015858 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 384676015859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 384676015860 dimer interface [polypeptide binding]; other site 384676015861 conserved gate region; other site 384676015862 putative PBP binding loops; other site 384676015863 ABC-ATPase subunit interface; other site 384676015864 phosphate binding protein; Region: ptsS_2; TIGR02136 384676015865 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 384676015866 metabolite-proton symporter; Region: 2A0106; TIGR00883 384676015867 putative substrate translocation pore; other site 384676015868 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 384676015869 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 384676015870 active site 384676015871 phosphate binding residues; other site 384676015872 catalytic residues [active] 384676015873 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 384676015874 Predicted membrane protein [Function unknown]; Region: COG2261 384676015875 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 384676015876 ATP-grasp domain; Region: ATP-grasp; pfam02222 384676015877 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 384676015878 cell density-dependent motility repressor; Provisional; Region: PRK10082 384676015879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015880 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 384676015881 dimerization interface [polypeptide binding]; other site 384676015882 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 384676015883 Aspartase; Region: Aspartase; cd01357 384676015884 active sites [active] 384676015885 tetramer interface [polypeptide binding]; other site 384676015886 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 384676015887 active site flap/lid [active] 384676015888 nucleophilic elbow; other site 384676015889 catalytic triad [active] 384676015890 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 384676015891 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 384676015892 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 384676015893 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 384676015894 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 384676015895 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 384676015896 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 384676015897 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 384676015898 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 384676015899 active site 384676015900 Zn binding site [ion binding]; other site 384676015901 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 384676015902 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 384676015903 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 384676015904 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 384676015905 DNA-binding site [nucleotide binding]; DNA binding site 384676015906 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 384676015907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 384676015908 homodimer interface [polypeptide binding]; other site 384676015909 catalytic residue [active] 384676015910 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 384676015911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 384676015912 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 384676015913 Coenzyme A binding pocket [chemical binding]; other site 384676015914 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 384676015915 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 384676015916 pyruvate carboxylase subunit B; Validated; Region: PRK09282 384676015917 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 384676015918 active site 384676015919 catalytic residues [active] 384676015920 metal binding site [ion binding]; metal-binding site 384676015921 homodimer binding site [polypeptide binding]; other site 384676015922 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 384676015923 carboxyltransferase (CT) interaction site; other site 384676015924 biotinylation site [posttranslational modification]; other site 384676015925 pyruvate carboxylase subunit A; Validated; Region: PRK07178 384676015926 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 384676015927 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 384676015928 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 384676015929 Transcriptional regulator [Transcription]; Region: LysR; COG0583 384676015930 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 384676015931 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 384676015932 putative dimerization interface [polypeptide binding]; other site 384676015933 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 384676015934 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 384676015935 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 384676015936 putative active site [active] 384676015937 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 384676015938 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 384676015939 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 384676015940 PAS fold; Region: PAS_3; pfam08447 384676015941 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 384676015942 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 384676015943 PAS domain; Region: PAS_9; pfam13426 384676015944 putative active site [active] 384676015945 heme pocket [chemical binding]; other site 384676015946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 384676015947 metal binding site [ion binding]; metal-binding site 384676015948 active site 384676015949 I-site; other site 384676015950 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 384676015951 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 384676015952 Part of AAA domain; Region: AAA_19; pfam13245 384676015953 Family description; Region: UvrD_C_2; pfam13538 384676015954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 384676015955 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 384676015956 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 384676015957 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 384676015958 pyridoxamine kinase; Validated; Region: PRK05756 384676015959 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 384676015960 pyridoxal binding site [chemical binding]; other site 384676015961 dimer interface [polypeptide binding]; other site 384676015962 ATP binding site [chemical binding]; other site 384676015963 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 384676015964 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 384676015965 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 384676015966 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 384676015967 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 384676015968 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 384676015969 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 384676015970 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 384676015971 putative GTP cyclohydrolase; Provisional; Region: PRK13674 384676015972 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 384676015973 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 384676015974 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 384676015975 putative active site [active] 384676015976 catalytic site [active] 384676015977 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 384676015978 putative active site [active] 384676015979 catalytic site [active] 384676015980 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 384676015981 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676015982 S-adenosylmethionine binding site [chemical binding]; other site 384676015983 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 384676015984 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 384676015985 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 384676015986 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 384676015987 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 384676015988 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 384676015989 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 384676015990 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 384676015991 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 384676015992 ligand-binding site [chemical binding]; other site 384676015993 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 384676015994 metal binding site [ion binding]; metal-binding site 384676015995 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 384676015996 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 384676015997 active site 384676015998 dimer interface [polypeptide binding]; other site 384676015999 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 384676016000 Ligand Binding Site [chemical binding]; other site 384676016001 Molecular Tunnel; other site 384676016002 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 384676016003 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 384676016004 Fatty acid desaturase; Region: FA_desaturase; pfam00487 384676016005 Di-iron ligands [ion binding]; other site 384676016006 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 384676016007 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 384676016008 NAD(P) binding site [chemical binding]; other site 384676016009 active site 384676016010 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 384676016011 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 384676016012 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 384676016013 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 384676016014 Cytochrome P450; Region: p450; cl12078 384676016015 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 384676016016 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 384676016017 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 384676016018 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 384676016019 active site 384676016020 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 384676016021 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 384676016022 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 384676016023 active site 384676016024 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 384676016025 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676016026 S-adenosylmethionine binding site [chemical binding]; other site 384676016027 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 384676016028 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 384676016029 Fatty acid desaturase; Region: FA_desaturase; pfam00487 384676016030 Di-iron ligands [ion binding]; other site 384676016031 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 384676016032 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 384676016033 acyl-CoA synthetase; Validated; Region: PRK09192 384676016034 acyl-activating enzyme (AAE) consensus motif; other site 384676016035 active site 384676016036 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 384676016037 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 384676016038 active site 384676016039 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 384676016040 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 384676016041 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 384676016042 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 384676016043 glutaminase active site [active] 384676016044 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 384676016045 dimer interface [polypeptide binding]; other site 384676016046 active site 384676016047 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 384676016048 dimer interface [polypeptide binding]; other site 384676016049 active site 384676016050 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 384676016051 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 384676016052 putative DNA binding site [nucleotide binding]; other site 384676016053 putative Zn2+ binding site [ion binding]; other site 384676016054 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 384676016055 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 384676016056 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 384676016057 Substrate binding site; other site 384676016058 Mg++ binding site; other site 384676016059 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 384676016060 active site 384676016061 substrate binding site [chemical binding]; other site 384676016062 CoA binding site [chemical binding]; other site 384676016063 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 384676016064 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 384676016065 gamma subunit interface [polypeptide binding]; other site 384676016066 epsilon subunit interface [polypeptide binding]; other site 384676016067 LBP interface [polypeptide binding]; other site 384676016068 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 384676016069 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 384676016070 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 384676016071 alpha subunit interaction interface [polypeptide binding]; other site 384676016072 Walker A motif; other site 384676016073 ATP binding site [chemical binding]; other site 384676016074 Walker B motif; other site 384676016075 inhibitor binding site; inhibition site 384676016076 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 384676016077 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 384676016078 core domain interface [polypeptide binding]; other site 384676016079 delta subunit interface [polypeptide binding]; other site 384676016080 epsilon subunit interface [polypeptide binding]; other site 384676016081 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 384676016082 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 384676016083 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 384676016084 beta subunit interaction interface [polypeptide binding]; other site 384676016085 Walker A motif; other site 384676016086 ATP binding site [chemical binding]; other site 384676016087 Walker B motif; other site 384676016088 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 384676016089 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 384676016090 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 384676016091 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 384676016092 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 384676016093 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 384676016094 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 384676016095 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 384676016096 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 384676016097 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 384676016098 ParB-like nuclease domain; Region: ParBc; pfam02195 384676016099 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 384676016100 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 384676016101 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 384676016102 Magnesium ion binding site [ion binding]; other site 384676016103 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 384676016104 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 384676016105 S-adenosylmethionine binding site [chemical binding]; other site 384676016106 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 384676016107 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 384676016108 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 384676016109 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 384676016110 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 384676016111 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 384676016112 trmE is a tRNA modification GTPase; Region: trmE; cd04164 384676016113 G1 box; other site 384676016114 GTP/Mg2+ binding site [chemical binding]; other site 384676016115 Switch I region; other site 384676016116 G2 box; other site 384676016117 Switch II region; other site 384676016118 G3 box; other site 384676016119 G4 box; other site 384676016120 G5 box; other site 384676016121 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 384676016122 membrane protein insertase; Provisional; Region: PRK01318 384676016123 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 384676016124 hypothetical protein; Provisional; Region: PRK14371 384676016125 ribonuclease P; Reviewed; Region: rnpA; PRK00396 384676016126 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399