-- dump date 20140620_015814 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1123519000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1123519000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1123519000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519000004 Walker A motif; other site 1123519000005 ATP binding site [chemical binding]; other site 1123519000006 Walker B motif; other site 1123519000007 arginine finger; other site 1123519000008 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 1123519000009 DnaA box-binding interface [nucleotide binding]; other site 1123519000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1123519000011 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 1123519000012 putative DNA binding surface [nucleotide binding]; other site 1123519000013 dimer interface [polypeptide binding]; other site 1123519000014 beta-clamp/clamp loader binding surface; other site 1123519000015 beta-clamp/translesion DNA polymerase binding surface; other site 1123519000016 recombination protein F; Reviewed; Region: recF; PRK00064 1123519000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000018 Walker A/P-loop; other site 1123519000019 ATP binding site [chemical binding]; other site 1123519000020 Q-loop/lid; other site 1123519000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000022 ABC transporter signature motif; other site 1123519000023 Walker B; other site 1123519000024 D-loop; other site 1123519000025 H-loop/switch region; other site 1123519000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1123519000027 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519000028 Mg2+ binding site [ion binding]; other site 1123519000029 G-X-G motif; other site 1123519000030 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 1123519000031 anchoring element; other site 1123519000032 dimer interface [polypeptide binding]; other site 1123519000033 ATP binding site [chemical binding]; other site 1123519000034 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 1123519000035 active site 1123519000036 putative metal-binding site [ion binding]; other site 1123519000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1123519000038 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1123519000039 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1123519000040 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 1123519000041 ATP binding site [chemical binding]; other site 1123519000042 putative Mg++ binding site [ion binding]; other site 1123519000043 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1123519000044 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1123519000045 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1123519000046 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1123519000047 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1123519000048 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1123519000049 Integrase core domain; Region: rve; pfam00665 1123519000050 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1123519000051 Bacterial TniB protein; Region: TniB; pfam05621 1123519000052 TniQ; Region: TniQ; pfam06527 1123519000053 Helix-turn-helix domain; Region: HTH_17; pfam12728 1123519000054 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1123519000055 putative active site [active] 1123519000056 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1123519000057 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 1123519000058 non-specific DNA binding site [nucleotide binding]; other site 1123519000059 salt bridge; other site 1123519000060 sequence-specific DNA binding site [nucleotide binding]; other site 1123519000061 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 1123519000062 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1123519000063 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 1123519000064 catalytic residue [active] 1123519000065 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 1123519000066 catalytic residues [active] 1123519000067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519000068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519000069 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1123519000070 heme-binding site [chemical binding]; other site 1123519000071 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519000072 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519000073 metal binding site [ion binding]; metal-binding site 1123519000074 active site 1123519000075 I-site; other site 1123519000076 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519000077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1123519000078 putative acyl-acceptor binding pocket; other site 1123519000079 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1123519000080 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 1123519000081 active site 1123519000082 motif I; other site 1123519000083 motif II; other site 1123519000084 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1123519000085 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 1123519000086 dimer interface [polypeptide binding]; other site 1123519000087 motif 1; other site 1123519000088 active site 1123519000089 motif 2; other site 1123519000090 motif 3; other site 1123519000091 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1123519000092 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1123519000093 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1123519000094 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1123519000095 putative acyl-acceptor binding pocket; other site 1123519000096 PilZ domain; Region: PilZ; pfam07238 1123519000097 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 1123519000098 TPR motif; other site 1123519000099 TPR repeat; Region: TPR_11; pfam13414 1123519000100 binding surface 1123519000101 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 1123519000102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000103 Walker A/P-loop; other site 1123519000104 ATP binding site [chemical binding]; other site 1123519000105 Q-loop/lid; other site 1123519000106 ABC transporter signature motif; other site 1123519000107 Walker B; other site 1123519000108 D-loop; other site 1123519000109 H-loop/switch region; other site 1123519000110 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1123519000111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519000112 dimer interface [polypeptide binding]; other site 1123519000113 conserved gate region; other site 1123519000114 putative PBP binding loops; other site 1123519000115 ABC-ATPase subunit interface; other site 1123519000116 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519000117 dimer interface [polypeptide binding]; other site 1123519000118 conserved gate region; other site 1123519000119 putative PBP binding loops; other site 1123519000120 ABC-ATPase subunit interface; other site 1123519000121 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 1123519000122 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 1123519000123 substrate binding pocket [chemical binding]; other site 1123519000124 membrane-bound complex binding site; other site 1123519000125 hinge residues; other site 1123519000126 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1123519000127 TrkA-N domain; Region: TrkA_N; pfam02254 1123519000128 TrkA-C domain; Region: TrkA_C; pfam02080 1123519000129 TrkA-N domain; Region: TrkA_N; pfam02254 1123519000130 TrkA-C domain; Region: TrkA_C; pfam02080 1123519000131 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1123519000132 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 1123519000133 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000134 S-adenosylmethionine binding site [chemical binding]; other site 1123519000135 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1123519000136 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1123519000137 putative active site [active] 1123519000138 substrate binding site [chemical binding]; other site 1123519000139 putative cosubstrate binding site; other site 1123519000140 catalytic site [active] 1123519000141 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1123519000142 substrate binding site [chemical binding]; other site 1123519000143 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 1123519000144 active site 1123519000145 catalytic residues [active] 1123519000146 metal binding site [ion binding]; metal-binding site 1123519000147 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1123519000148 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519000149 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1123519000150 DNA protecting protein DprA; Region: dprA; TIGR00732 1123519000151 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1123519000152 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1123519000153 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1123519000154 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1123519000155 NADP binding site [chemical binding]; other site 1123519000156 dimer interface [polypeptide binding]; other site 1123519000157 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1123519000158 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1123519000159 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1123519000160 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1123519000161 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1123519000162 NAD(P) binding site [chemical binding]; other site 1123519000163 shikimate binding site; other site 1123519000164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519000165 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1123519000166 NAD(P) binding site [chemical binding]; other site 1123519000167 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1123519000168 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1123519000169 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1123519000170 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 1123519000171 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1123519000172 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 1123519000173 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1123519000174 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1123519000175 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000176 Walker A/P-loop; other site 1123519000177 ATP binding site [chemical binding]; other site 1123519000178 Q-loop/lid; other site 1123519000179 ABC transporter signature motif; other site 1123519000180 Walker B; other site 1123519000181 D-loop; other site 1123519000182 H-loop/switch region; other site 1123519000183 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1123519000184 Predicted membrane protein [Function unknown]; Region: COG3918 1123519000185 putative S-transferase; Provisional; Region: PRK11752 1123519000186 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 1123519000187 C-terminal domain interface [polypeptide binding]; other site 1123519000188 GSH binding site (G-site) [chemical binding]; other site 1123519000189 dimer interface [polypeptide binding]; other site 1123519000190 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1123519000191 dimer interface [polypeptide binding]; other site 1123519000192 N-terminal domain interface [polypeptide binding]; other site 1123519000193 active site 1123519000194 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1123519000195 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1123519000196 NAD binding site [chemical binding]; other site 1123519000197 homodimer interface [polypeptide binding]; other site 1123519000198 active site 1123519000199 substrate binding site [chemical binding]; other site 1123519000200 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: GT1_like_1; cd04950 1123519000201 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519000202 putative homodimer interface [polypeptide binding]; other site 1123519000203 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 1123519000204 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1123519000205 UDP-galactopyranose mutase; Region: GLF; pfam03275 1123519000206 beta-galactosidase; Region: BGL; TIGR03356 1123519000207 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1123519000208 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1123519000209 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1123519000210 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000211 Walker A/P-loop; other site 1123519000212 ATP binding site [chemical binding]; other site 1123519000213 Q-loop/lid; other site 1123519000214 ABC transporter signature motif; other site 1123519000215 Walker B; other site 1123519000216 D-loop; other site 1123519000217 H-loop/switch region; other site 1123519000218 KTSC domain; Region: KTSC; pfam13619 1123519000219 Dodecin; Region: Dodecin; pfam07311 1123519000220 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1123519000221 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1123519000222 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 1123519000223 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1123519000224 dinuclear metal binding motif [ion binding]; other site 1123519000225 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1123519000226 Eukaryotic phosphomannomutase; Region: PMM; cl17107 1123519000227 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 1123519000228 motif II; other site 1123519000229 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1123519000230 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 1123519000231 trimer interface [polypeptide binding]; other site 1123519000232 putative metal binding site [ion binding]; other site 1123519000233 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519000234 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519000235 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519000236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519000237 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1123519000238 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1123519000239 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1123519000240 Fic/DOC family; Region: Fic; cl00960 1123519000241 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1123519000242 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1123519000243 active site 1123519000244 Zn binding site [ion binding]; other site 1123519000245 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1123519000246 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 1123519000247 Protein of unknown function; Region: DUF3658; pfam12395 1123519000248 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1123519000249 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1123519000250 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 1123519000251 FeS/SAM binding site; other site 1123519000252 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1123519000253 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1123519000254 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1123519000255 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1123519000256 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519000257 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1123519000258 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 1123519000259 Subunit I/III interface [polypeptide binding]; other site 1123519000260 D-pathway; other site 1123519000261 Subunit I/VIIc interface [polypeptide binding]; other site 1123519000262 Subunit I/IV interface [polypeptide binding]; other site 1123519000263 Subunit I/II interface [polypeptide binding]; other site 1123519000264 Low-spin heme (heme a) binding site [chemical binding]; other site 1123519000265 Subunit I/VIIa interface [polypeptide binding]; other site 1123519000266 Subunit I/VIa interface [polypeptide binding]; other site 1123519000267 Dimer interface; other site 1123519000268 Putative water exit pathway; other site 1123519000269 Binuclear center (heme a3/CuB) [ion binding]; other site 1123519000270 K-pathway; other site 1123519000271 Subunit I/Vb interface [polypeptide binding]; other site 1123519000272 Putative proton exit pathway; other site 1123519000273 Subunit I/VIb interface; other site 1123519000274 Subunit I/VIc interface [polypeptide binding]; other site 1123519000275 Electron transfer pathway; other site 1123519000276 Subunit I/VIIIb interface [polypeptide binding]; other site 1123519000277 Subunit I/VIIb interface [polypeptide binding]; other site 1123519000278 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1123519000279 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 1123519000280 Subunit III/VIIa interface [polypeptide binding]; other site 1123519000281 Phospholipid binding site [chemical binding]; other site 1123519000282 Subunit I/III interface [polypeptide binding]; other site 1123519000283 Subunit III/VIb interface [polypeptide binding]; other site 1123519000284 Subunit III/VIa interface; other site 1123519000285 Subunit III/Vb interface [polypeptide binding]; other site 1123519000286 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1123519000287 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 1123519000288 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1123519000289 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1123519000290 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1123519000291 UbiA prenyltransferase family; Region: UbiA; pfam01040 1123519000292 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 1123519000293 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519000294 Cu(I) binding site [ion binding]; other site 1123519000295 NnrS protein; Region: NnrS; pfam05940 1123519000296 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1123519000297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000298 Walker A/P-loop; other site 1123519000299 ATP binding site [chemical binding]; other site 1123519000300 Q-loop/lid; other site 1123519000301 ABC transporter signature motif; other site 1123519000302 Walker B; other site 1123519000303 D-loop; other site 1123519000304 H-loop/switch region; other site 1123519000305 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1123519000306 dimer interface [polypeptide binding]; other site 1123519000307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1123519000308 conserved gate region; other site 1123519000309 putative PBP binding loops; other site 1123519000310 ABC-ATPase subunit interface; other site 1123519000311 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1123519000312 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1123519000313 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 1123519000314 N-terminal plug; other site 1123519000315 ligand-binding site [chemical binding]; other site 1123519000316 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1123519000317 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519000318 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 1123519000319 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 1123519000320 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1123519000321 DctM-like transporters; Region: DctM; pfam06808 1123519000322 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1123519000323 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1123519000324 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519000325 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519000326 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519000327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519000328 active site 1123519000329 phosphorylation site [posttranslational modification] 1123519000330 intermolecular recognition site; other site 1123519000331 dimerization interface [polypeptide binding]; other site 1123519000332 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519000333 Walker A motif; other site 1123519000334 ATP binding site [chemical binding]; other site 1123519000335 Walker B motif; other site 1123519000336 arginine finger; other site 1123519000337 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519000338 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1123519000339 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 1123519000340 dimer interface [polypeptide binding]; other site 1123519000341 phosphorylation site [posttranslational modification] 1123519000342 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519000343 ATP binding site [chemical binding]; other site 1123519000344 G-X-G motif; other site 1123519000345 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1123519000346 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1123519000347 NADP binding site [chemical binding]; other site 1123519000348 active site 1123519000349 putative substrate binding site [chemical binding]; other site 1123519000350 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 1123519000351 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1123519000352 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1123519000353 substrate binding site; other site 1123519000354 tetramer interface; other site 1123519000355 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1123519000356 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1123519000357 NAD binding site [chemical binding]; other site 1123519000358 substrate binding site [chemical binding]; other site 1123519000359 homodimer interface [polypeptide binding]; other site 1123519000360 active site 1123519000361 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1123519000362 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1123519000363 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519000364 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1123519000365 Walker A/P-loop; other site 1123519000366 ATP binding site [chemical binding]; other site 1123519000367 Q-loop/lid; other site 1123519000368 ABC transporter signature motif; other site 1123519000369 Walker B; other site 1123519000370 D-loop; other site 1123519000371 H-loop/switch region; other site 1123519000372 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519000373 Walker A/P-loop; other site 1123519000374 ATP binding site [chemical binding]; other site 1123519000375 Q-loop/lid; other site 1123519000376 ABC transporter signature motif; other site 1123519000377 Walker B; other site 1123519000378 D-loop; other site 1123519000379 H-loop/switch region; other site 1123519000380 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1123519000381 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1123519000382 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519000383 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519000384 Protein of unknown function (DUF330); Region: DUF330; cl01135 1123519000385 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1123519000386 mce related protein; Region: MCE; pfam02470 1123519000387 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1123519000388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000389 Walker A/P-loop; other site 1123519000390 ATP binding site [chemical binding]; other site 1123519000391 Q-loop/lid; other site 1123519000392 ABC transporter signature motif; other site 1123519000393 Walker B; other site 1123519000394 D-loop; other site 1123519000395 H-loop/switch region; other site 1123519000396 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1123519000397 Permease; Region: Permease; pfam02405 1123519000398 threonine and homoserine efflux system; Provisional; Region: PRK10532 1123519000399 EamA-like transporter family; Region: EamA; pfam00892 1123519000400 VanZ like family; Region: VanZ; cl01971 1123519000401 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1123519000402 Predicted transcriptional regulator [Transcription]; Region: COG3905 1123519000403 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1123519000404 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1123519000405 Glutamate binding site [chemical binding]; other site 1123519000406 NAD binding site [chemical binding]; other site 1123519000407 catalytic residues [active] 1123519000408 Methyltransferase domain; Region: Methyltransf_32; pfam13679 1123519000409 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1123519000410 DctM-like transporters; Region: DctM; pfam06808 1123519000411 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 1123519000412 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 1123519000413 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1123519000414 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1123519000415 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1123519000416 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1123519000417 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1123519000418 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1123519000419 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519000420 putative acyl-acceptor binding pocket; other site 1123519000421 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1123519000422 SH3 domain protein [Signal transduction mechanisms]; Region: COG3103 1123519000423 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1123519000424 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1123519000425 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 1123519000426 putative active site [active] 1123519000427 putative substrate binding site [chemical binding]; other site 1123519000428 ATP binding site [chemical binding]; other site 1123519000429 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 1123519000430 DNA polymerase I; Provisional; Region: PRK05755 1123519000431 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1123519000432 active site 1123519000433 metal binding site 1 [ion binding]; metal-binding site 1123519000434 putative 5' ssDNA interaction site; other site 1123519000435 metal binding site 3; metal-binding site 1123519000436 metal binding site 2 [ion binding]; metal-binding site 1123519000437 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1123519000438 putative DNA binding site [nucleotide binding]; other site 1123519000439 putative metal binding site [ion binding]; other site 1123519000440 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 1123519000441 active site 1123519000442 catalytic site [active] 1123519000443 substrate binding site [chemical binding]; other site 1123519000444 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1123519000445 active site 1123519000446 DNA binding site [nucleotide binding] 1123519000447 catalytic site [active] 1123519000448 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1123519000449 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1123519000450 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1123519000451 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1123519000452 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1123519000453 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1123519000454 conserverd hypothetical protein; Region: TIGR02448 1123519000455 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1123519000456 Conserved hypothetical protein 698; Region: Cons_hypoth698; pfam03601 1123519000457 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1123519000458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519000459 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 1123519000460 putative dimerization interface [polypeptide binding]; other site 1123519000461 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1123519000462 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1123519000463 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1123519000464 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1123519000465 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1123519000466 ligand binding site [chemical binding]; other site 1123519000467 homodimer interface [polypeptide binding]; other site 1123519000468 NAD(P) binding site [chemical binding]; other site 1123519000469 trimer interface B [polypeptide binding]; other site 1123519000470 trimer interface A [polypeptide binding]; other site 1123519000471 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1123519000472 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 1123519000473 Walker A motif; other site 1123519000474 ATP binding site [chemical binding]; other site 1123519000475 Walker B motif; other site 1123519000476 type II secretion system protein F; Region: GspF; TIGR02120 1123519000477 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519000478 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519000479 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1123519000480 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1123519000481 type II secretion system protein I; Region: gspI; TIGR01707 1123519000482 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1123519000483 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1123519000484 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1123519000485 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1123519000486 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1123519000487 GspL periplasmic domain; Region: GspL_C; pfam12693 1123519000488 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1123519000489 potential frameshift: common BLAST hit: gi|330505644|ref|YP_004382513.1| putative signal transduction protein 1123519000490 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1123519000491 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 1123519000492 generic binding surface II; other site 1123519000493 ssDNA binding site; other site 1123519000494 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 1123519000495 ATP binding site [chemical binding]; other site 1123519000496 putative Mg++ binding site [ion binding]; other site 1123519000497 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 1123519000498 nucleotide binding region [chemical binding]; other site 1123519000499 ATP-binding site [chemical binding]; other site 1123519000500 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1123519000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519000502 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 1123519000503 dimerization interface [polypeptide binding]; other site 1123519000504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1123519000505 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1123519000506 putative NAD(P) binding site [chemical binding]; other site 1123519000507 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1123519000508 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1123519000509 NAD binding site [chemical binding]; other site 1123519000510 catalytic Zn binding site [ion binding]; other site 1123519000511 structural Zn binding site [ion binding]; other site 1123519000512 Predicted permeases [General function prediction only]; Region: COG0679 1123519000513 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 1123519000514 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000515 S-adenosylmethionine binding site [chemical binding]; other site 1123519000516 PilZ domain; Region: PilZ; pfam07238 1123519000517 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1123519000518 FHIPEP family; Region: FHIPEP; pfam00771 1123519000519 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1123519000520 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1123519000521 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 1123519000522 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1123519000523 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1123519000524 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1123519000525 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1123519000526 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519000527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1123519000528 active site 1123519000529 phosphorylation site [posttranslational modification] 1123519000530 dimerization interface [polypeptide binding]; other site 1123519000531 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519000532 Walker A motif; other site 1123519000533 ATP binding site [chemical binding]; other site 1123519000534 Walker B motif; other site 1123519000535 arginine finger; other site 1123519000536 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1123519000537 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 1123519000538 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 1123519000539 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1123519000540 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1123519000541 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 1123519000542 MgtE intracellular N domain; Region: MgtE_N; smart00924 1123519000543 FliG C-terminal domain; Region: FliG_C; pfam01706 1123519000544 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 1123519000545 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1123519000546 Flagellar assembly protein FliH; Region: FliH; pfam02108 1123519000547 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 1123519000548 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 1123519000549 Walker A motif/ATP binding site; other site 1123519000550 Walker B motif; other site 1123519000551 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1123519000552 FlgN protein; Region: FlgN; pfam05130 1123519000553 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1123519000554 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1123519000555 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1123519000556 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1123519000557 Flagellar protein FliS; Region: FliS; cl00654 1123519000558 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1123519000559 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1123519000560 flagellar biosynthesis sigma factor; Provisional; Region: PRK12427 1123519000561 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519000562 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1123519000563 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 1123519000564 DNA binding residues [nucleotide binding] 1123519000565 flagellar motor protein MotA; Provisional; Region: PRK12482 1123519000566 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1123519000567 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1123519000568 hypothetical protein; Validated; Region: PRK06778 1123519000569 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519000570 ligand binding site [chemical binding]; other site 1123519000571 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1123519000572 DNA binding site [nucleotide binding] 1123519000573 flagellin; Provisional; Region: PRK12802 1123519000574 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1123519000575 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1123519000576 SAF-like; Region: SAF_2; pfam13144 1123519000577 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1123519000578 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1123519000579 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 1123519000580 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 1123519000581 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1123519000582 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 1123519000583 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519000584 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1123519000585 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 1123519000586 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1123519000587 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 1123519000588 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1123519000589 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1123519000590 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519000591 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1123519000592 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1123519000593 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1123519000594 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519000595 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 1123519000596 Flagellar L-ring protein; Region: FlgH; pfam02107 1123519000597 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1123519000598 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1123519000599 Rod binding protein; Region: Rod-binding; cl01626 1123519000600 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1123519000601 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 1123519000602 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519000603 catalytic residue [active] 1123519000604 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 1123519000605 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519000606 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 1123519000607 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1123519000608 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1123519000609 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519000610 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519000611 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1123519000612 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 1123519000613 N-terminal plug; other site 1123519000614 ligand-binding site [chemical binding]; other site 1123519000615 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 1123519000616 SnoaL-like domain; Region: SnoaL_3; pfam13474 1123519000617 YCII-related domain; Region: YCII; cl00999 1123519000618 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 1123519000619 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1123519000620 DNA binding residues [nucleotide binding] 1123519000621 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519000622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519000623 active site 1123519000624 phosphorylation site [posttranslational modification] 1123519000625 intermolecular recognition site; other site 1123519000626 dimerization interface [polypeptide binding]; other site 1123519000627 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519000628 Walker A motif; other site 1123519000629 ATP binding site [chemical binding]; other site 1123519000630 Walker B motif; other site 1123519000631 arginine finger; other site 1123519000632 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519000633 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 1123519000634 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 1123519000635 dimer interface [polypeptide binding]; other site 1123519000636 phosphorylation site [posttranslational modification] 1123519000637 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519000638 ATP binding site [chemical binding]; other site 1123519000639 Mg2+ binding site [ion binding]; other site 1123519000640 G-X-G motif; other site 1123519000641 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1123519000642 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1123519000643 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1123519000644 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 1123519000645 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 1123519000646 Ligand Binding Site [chemical binding]; other site 1123519000647 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 1123519000648 Ligand Binding Site [chemical binding]; other site 1123519000649 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1123519000650 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000651 S-adenosylmethionine binding site [chemical binding]; other site 1123519000652 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1123519000653 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1123519000654 G1 box; other site 1123519000655 putative GEF interaction site [polypeptide binding]; other site 1123519000656 GTP/Mg2+ binding site [chemical binding]; other site 1123519000657 Switch I region; other site 1123519000658 G2 box; other site 1123519000659 G3 box; other site 1123519000660 Switch II region; other site 1123519000661 G4 box; other site 1123519000662 G5 box; other site 1123519000663 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 1123519000664 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 1123519000665 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1123519000666 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1123519000667 selenocysteine synthase; Provisional; Region: PRK04311 1123519000668 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1123519000669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519000670 catalytic residue [active] 1123519000671 Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]; Region: FdhE; COG3058 1123519000672 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1123519000673 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 1123519000674 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1123519000675 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1123519000676 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1123519000677 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1123519000678 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 1123519000679 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 1123519000680 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 1123519000681 molybdopterin cofactor binding site; other site 1123519000682 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 1123519000683 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1123519000684 TM2 domain; Region: TM2; pfam05154 1123519000685 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1123519000686 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1123519000687 Part of AAA domain; Region: AAA_19; pfam13245 1123519000688 Family description; Region: UvrD_C_2; pfam13538 1123519000689 PAS fold; Region: PAS_3; pfam08447 1123519000690 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 1123519000691 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 1123519000692 PAS domain; Region: PAS_9; pfam13426 1123519000693 putative active site [active] 1123519000694 heme pocket [chemical binding]; other site 1123519000695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519000696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519000697 metal binding site [ion binding]; metal-binding site 1123519000698 active site 1123519000699 I-site; other site 1123519000700 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 1123519000701 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1123519000702 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1123519000703 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1123519000704 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1123519000705 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 1123519000706 active site flap/lid [active] 1123519000707 nucleophilic elbow; other site 1123519000708 catalytic triad [active] 1123519000709 putative protease; Provisional; Region: PRK15452 1123519000710 Peptidase family U32; Region: Peptidase_U32; pfam01136 1123519000711 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1123519000712 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1123519000713 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 1123519000714 N-terminal plug; other site 1123519000715 ligand-binding site [chemical binding]; other site 1123519000716 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1123519000717 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519000718 aspartate kinase; Validated; Region: PRK09181 1123519000719 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1123519000720 nucleotide binding site [chemical binding]; other site 1123519000721 substrate binding site [chemical binding]; other site 1123519000722 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 1123519000723 allosteric regulatory residue; other site 1123519000724 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1123519000725 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1123519000726 Ectoine synthase; Region: Ectoine_synth; pfam06339 1123519000727 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 1123519000728 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 1123519000729 inhibitor-cofactor binding pocket; inhibition site 1123519000730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519000731 catalytic residue [active] 1123519000732 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1123519000733 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519000734 Coenzyme A binding pocket [chemical binding]; other site 1123519000735 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1123519000736 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1123519000737 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1123519000738 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1123519000739 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1123519000740 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 1123519000741 putative active site [active] 1123519000742 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519000743 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519000744 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 1123519000745 putative dimerization interface [polypeptide binding]; other site 1123519000746 pyruvate carboxylase subunit A; Validated; Region: PRK07178 1123519000747 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1123519000748 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1123519000749 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1123519000750 pyruvate carboxylase subunit B; Validated; Region: PRK09282 1123519000751 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1123519000752 active site 1123519000753 catalytic residues [active] 1123519000754 metal binding site [ion binding]; metal-binding site 1123519000755 homodimer binding site [polypeptide binding]; other site 1123519000756 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 1123519000757 carboxyltransferase (CT) interaction site; other site 1123519000758 biotinylation site [posttranslational modification]; other site 1123519000759 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 1123519000760 active site clefts [active] 1123519000761 zinc binding site [ion binding]; other site 1123519000762 dimer interface [polypeptide binding]; other site 1123519000763 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1123519000764 active site 1123519000765 homodimer interface [polypeptide binding]; other site 1123519000766 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1123519000767 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1123519000768 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 1123519000769 non-specific DNA binding site [nucleotide binding]; other site 1123519000770 salt bridge; other site 1123519000771 sequence-specific DNA binding site [nucleotide binding]; other site 1123519000772 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1123519000773 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519000774 Coenzyme A binding pocket [chemical binding]; other site 1123519000775 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1123519000776 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1123519000777 Aspartase; Region: Aspartase; cd01357 1123519000778 active sites [active] 1123519000779 tetramer interface [polypeptide binding]; other site 1123519000780 cell density-dependent motility repressor; Provisional; Region: PRK10082 1123519000781 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519000782 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 1123519000783 dimerization interface [polypeptide binding]; other site 1123519000784 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1123519000785 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1123519000786 ATP-grasp domain; Region: ATP-grasp; pfam02222 1123519000787 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1123519000788 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1123519000789 active site 1123519000790 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1123519000791 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1123519000792 active site 1123519000793 phosphate binding residues; other site 1123519000794 catalytic residues [active] 1123519000795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1123519000796 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519000797 dimer interface [polypeptide binding]; other site 1123519000798 conserved gate region; other site 1123519000799 putative PBP binding loops; other site 1123519000800 ABC-ATPase subunit interface; other site 1123519000801 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1123519000802 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519000803 dimer interface [polypeptide binding]; other site 1123519000804 conserved gate region; other site 1123519000805 putative PBP binding loops; other site 1123519000806 ABC-ATPase subunit interface; other site 1123519000807 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519000808 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 1123519000809 substrate binding pocket [chemical binding]; other site 1123519000810 membrane-bound complex binding site; other site 1123519000811 hinge residues; other site 1123519000812 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 1123519000813 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1123519000814 Walker A/P-loop; other site 1123519000815 ATP binding site [chemical binding]; other site 1123519000816 Q-loop/lid; other site 1123519000817 ABC transporter signature motif; other site 1123519000818 Walker B; other site 1123519000819 D-loop; other site 1123519000820 H-loop/switch region; other site 1123519000821 BCCT family transporter; Region: BCCT; pfam02028 1123519000822 potential frameshift: common BLAST hit: gi|339496145|ref|YP_004716438.1| amino acid ABC transporter periplasmic protein 1123519000823 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1123519000824 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1123519000825 xanthine permease; Region: pbuX; TIGR03173 1123519000826 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1123519000827 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1123519000828 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1123519000829 putative RNA binding site [nucleotide binding]; other site 1123519000830 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000831 S-adenosylmethionine binding site [chemical binding]; other site 1123519000832 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1123519000833 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1123519000834 proposed catalytic triad [active] 1123519000835 conserved cys residue [active] 1123519000836 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1123519000837 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1123519000838 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1123519000839 DNA binding site [nucleotide binding] 1123519000840 catalytic residue [active] 1123519000841 H2TH interface [polypeptide binding]; other site 1123519000842 putative catalytic residues [active] 1123519000843 turnover-facilitating residue; other site 1123519000844 intercalation triad [nucleotide binding]; other site 1123519000845 8OG recognition residue [nucleotide binding]; other site 1123519000846 putative reading head residues; other site 1123519000847 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1123519000848 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1123519000849 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 1123519000850 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1123519000851 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1123519000852 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1123519000853 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1123519000854 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1123519000855 active site 1123519000856 (T/H)XGH motif; other site 1123519000857 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1123519000858 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1123519000859 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1123519000860 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1123519000861 NAD(P) binding site [chemical binding]; other site 1123519000862 catalytic residues [active] 1123519000863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519000864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519000865 Bacterial transcriptional repressor; Region: TetR; pfam13972 1123519000866 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 1123519000867 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1123519000868 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000869 S-adenosylmethionine binding site [chemical binding]; other site 1123519000870 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1123519000871 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1123519000872 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1123519000873 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1123519000874 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1123519000875 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1123519000876 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1123519000877 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1123519000878 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 1123519000879 P loop; other site 1123519000880 GTP binding site [chemical binding]; other site 1123519000881 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1123519000882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519000883 Walker A/P-loop; other site 1123519000884 ATP binding site [chemical binding]; other site 1123519000885 Q-loop/lid; other site 1123519000886 ABC transporter signature motif; other site 1123519000887 Walker B; other site 1123519000888 D-loop; other site 1123519000889 H-loop/switch region; other site 1123519000890 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1123519000891 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1123519000892 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1123519000893 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1123519000894 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519000895 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 1123519000896 DNA binding residues [nucleotide binding] 1123519000897 CHASE domain; Region: CHASE; pfam03924 1123519000898 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 1123519000899 PAS fold; Region: PAS_3; pfam08447 1123519000900 putative active site [active] 1123519000901 heme pocket [chemical binding]; other site 1123519000902 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 1123519000903 dimer interface [polypeptide binding]; other site 1123519000904 phosphorylation site [posttranslational modification] 1123519000905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519000906 ATP binding site [chemical binding]; other site 1123519000907 Mg2+ binding site [ion binding]; other site 1123519000908 G-X-G motif; other site 1123519000909 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519000910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519000911 active site 1123519000912 phosphorylation site [posttranslational modification] 1123519000913 intermolecular recognition site; other site 1123519000914 dimerization interface [polypeptide binding]; other site 1123519000915 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 1123519000916 PAS domain; Region: PAS_9; pfam13426 1123519000917 putative active site [active] 1123519000918 heme pocket [chemical binding]; other site 1123519000919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519000920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519000921 metal binding site [ion binding]; metal-binding site 1123519000922 active site 1123519000923 I-site; other site 1123519000924 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 1123519000925 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1123519000926 Transglycosylase; Region: Transgly; cl17702 1123519000927 Protein of unknown function (DUF423); Region: DUF423; pfam04241 1123519000928 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1123519000929 thiS-thiF/thiG interaction site; other site 1123519000930 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 1123519000931 ThiS interaction site; other site 1123519000932 putative active site [active] 1123519000933 tetramer interface [polypeptide binding]; other site 1123519000934 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000935 S-adenosylmethionine binding site [chemical binding]; other site 1123519000936 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1123519000937 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1123519000938 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 1123519000939 HemN family oxidoreductase; Provisional; Region: PRK05660 1123519000940 FeS/SAM binding site; other site 1123519000941 HemN C-terminal domain; Region: HemN_C; pfam06969 1123519000942 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 1123519000943 active site 1123519000944 dimerization interface [polypeptide binding]; other site 1123519000945 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1123519000946 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519000947 S-adenosylmethionine binding site [chemical binding]; other site 1123519000948 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 1123519000949 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 1123519000950 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519000951 Dynamin family; Region: Dynamin_N; pfam00350 1123519000952 G1 box; other site 1123519000953 GTP/Mg2+ binding site [chemical binding]; other site 1123519000954 G2 box; other site 1123519000955 Switch I region; other site 1123519000956 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519000957 G3 box; other site 1123519000958 Switch II region; other site 1123519000959 GTP/Mg2+ binding site [chemical binding]; other site 1123519000960 G4 box; other site 1123519000961 G5 box; other site 1123519000962 YGGT family; Region: YGGT; pfam02325 1123519000963 YGGT family; Region: YGGT; pfam02325 1123519000964 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1123519000965 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1123519000966 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1123519000967 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519000968 catalytic residue [active] 1123519000969 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1123519000970 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1123519000971 Walker A motif; other site 1123519000972 ATP binding site [chemical binding]; other site 1123519000973 Walker B motif; other site 1123519000974 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 1123519000975 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 1123519000976 Walker A motif; other site 1123519000977 ATP binding site [chemical binding]; other site 1123519000978 Walker B motif; other site 1123519000979 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 1123519000980 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 1123519000981 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 1123519000982 FeS/SAM binding site; other site 1123519000983 TM2 domain; Region: TM2; cl00984 1123519000984 TM2 domain; Region: TM2; cl00984 1123519000985 dihydroorotase; Validated; Region: pyrC; PRK09357 1123519000986 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 1123519000987 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 1123519000988 active site 1123519000989 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1123519000990 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1123519000991 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1123519000992 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519000993 active site 1123519000994 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1123519000995 hypothetical protein; Validated; Region: PRK00228 1123519000996 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1123519000997 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1123519000998 glutathione synthetase; Provisional; Region: PRK05246 1123519000999 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1123519001000 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1123519001001 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001003 active site 1123519001004 phosphorylation site [posttranslational modification] 1123519001005 intermolecular recognition site; other site 1123519001006 dimerization interface [polypeptide binding]; other site 1123519001007 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001009 active site 1123519001010 phosphorylation site [posttranslational modification] 1123519001011 intermolecular recognition site; other site 1123519001012 dimerization interface [polypeptide binding]; other site 1123519001013 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 1123519001014 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1123519001015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519001016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519001017 dimer interface [polypeptide binding]; other site 1123519001018 putative CheW interface [polypeptide binding]; other site 1123519001019 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1123519001020 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1123519001021 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1123519001022 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 1123519001023 putative binding surface; other site 1123519001024 active site 1123519001025 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 1123519001026 putative binding surface; other site 1123519001027 active site 1123519001028 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 1123519001029 putative binding surface; other site 1123519001030 active site 1123519001031 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1123519001032 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 1123519001033 putative binding surface; other site 1123519001034 active site 1123519001035 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 1123519001036 putative binding surface; other site 1123519001037 active site 1123519001038 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1123519001039 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519001040 ATP binding site [chemical binding]; other site 1123519001041 Mg2+ binding site [ion binding]; other site 1123519001042 G-X-G motif; other site 1123519001043 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 1123519001044 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001046 active site 1123519001047 phosphorylation site [posttranslational modification] 1123519001048 intermolecular recognition site; other site 1123519001049 dimerization interface [polypeptide binding]; other site 1123519001050 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 1123519001051 CheB methylesterase; Region: CheB_methylest; pfam01339 1123519001052 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 1123519001053 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1123519001054 RNA methyltransferase, RsmE family; Region: TIGR00046 1123519001055 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 1123519001056 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 1123519001057 inhibitor-cofactor binding pocket; inhibition site 1123519001058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519001059 catalytic residue [active] 1123519001060 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1123519001061 hypothetical protein; Provisional; Region: PRK03757 1123519001062 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1123519001063 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519001064 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519001065 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1123519001066 Protein export membrane protein; Region: SecD_SecF; cl14618 1123519001067 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519001068 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1123519001069 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 1123519001070 ATP binding site [chemical binding]; other site 1123519001071 Mg++ binding site [ion binding]; other site 1123519001072 motif III; other site 1123519001073 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 1123519001074 nucleotide binding region [chemical binding]; other site 1123519001075 ATP-binding site [chemical binding]; other site 1123519001076 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 1123519001077 FAD binding site [chemical binding]; other site 1123519001078 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1123519001079 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1123519001080 homotetramer interface [polypeptide binding]; other site 1123519001081 ligand binding site [chemical binding]; other site 1123519001082 catalytic site [active] 1123519001083 NAD binding site [chemical binding]; other site 1123519001084 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1123519001085 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1123519001086 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1123519001087 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 1123519001088 nucleotide binding pocket [chemical binding]; other site 1123519001089 K-X-D-G motif; other site 1123519001090 catalytic site [active] 1123519001091 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1123519001092 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 1123519001093 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 1123519001094 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 1123519001095 FAD binding pocket [chemical binding]; other site 1123519001096 FAD binding motif [chemical binding]; other site 1123519001097 phosphate binding motif [ion binding]; other site 1123519001098 beta-alpha-beta structure motif; other site 1123519001099 NAD binding pocket [chemical binding]; other site 1123519001100 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1123519001101 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519001102 Walker A/P-loop; other site 1123519001103 ATP binding site [chemical binding]; other site 1123519001104 Q-loop/lid; other site 1123519001105 ABC transporter signature motif; other site 1123519001106 Walker B; other site 1123519001107 D-loop; other site 1123519001108 H-loop/switch region; other site 1123519001109 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1123519001110 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1123519001111 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1123519001112 PAAR motif; Region: PAAR_motif; pfam05488 1123519001113 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1123519001114 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1123519001115 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1123519001116 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1123519001117 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1123519001118 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 1123519001119 putative DNA binding site [nucleotide binding]; other site 1123519001120 putative Zn2+ binding site [ion binding]; other site 1123519001121 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1123519001122 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519001123 S-adenosylmethionine binding site [chemical binding]; other site 1123519001124 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519001125 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 1123519001126 substrate binding pocket [chemical binding]; other site 1123519001127 active site 1123519001128 iron coordination sites [ion binding]; other site 1123519001129 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1123519001130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519001131 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 1123519001132 dimerization interface [polypeptide binding]; other site 1123519001133 substrate binding pocket [chemical binding]; other site 1123519001134 transketolase; Reviewed; Region: PRK12753 1123519001135 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 1123519001136 TPP-binding site [chemical binding]; other site 1123519001137 dimer interface [polypeptide binding]; other site 1123519001138 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 1123519001139 PYR/PP interface [polypeptide binding]; other site 1123519001140 dimer interface [polypeptide binding]; other site 1123519001141 TPP binding site [chemical binding]; other site 1123519001142 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1123519001143 erythrose-4-phosphate dehydrogenase; Region: E4PD_g-proteo; TIGR01532 1123519001144 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1123519001145 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1123519001146 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1123519001147 Phosphoglycerate kinase; Region: PGK; pfam00162 1123519001148 substrate binding site [chemical binding]; other site 1123519001149 hinge regions; other site 1123519001150 ADP binding site [chemical binding]; other site 1123519001151 catalytic site [active] 1123519001152 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1123519001153 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 1123519001154 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1123519001155 intersubunit interface [polypeptide binding]; other site 1123519001156 active site 1123519001157 zinc binding site [ion binding]; other site 1123519001158 Na+ binding site [ion binding]; other site 1123519001159 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519001160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001161 active site 1123519001162 phosphorylation site [posttranslational modification] 1123519001163 intermolecular recognition site; other site 1123519001164 dimerization interface [polypeptide binding]; other site 1123519001165 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1123519001166 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519001167 S-adenosylmethionine binding site [chemical binding]; other site 1123519001168 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1123519001169 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1123519001170 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1123519001171 heme-binding site [chemical binding]; other site 1123519001172 PAS domain S-box; Region: sensory_box; TIGR00229 1123519001173 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 1123519001174 putative active site [active] 1123519001175 heme pocket [chemical binding]; other site 1123519001176 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519001177 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519001178 metal binding site [ion binding]; metal-binding site 1123519001179 active site 1123519001180 I-site; other site 1123519001181 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 1123519001182 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1123519001183 HI0933-like protein; Region: HI0933_like; pfam03486 1123519001184 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1123519001185 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1123519001186 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1123519001187 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1123519001188 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1123519001189 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1123519001190 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1123519001191 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 1123519001192 ATP binding site [chemical binding]; other site 1123519001193 Mg++ binding site [ion binding]; other site 1123519001194 motif III; other site 1123519001195 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 1123519001196 nucleotide binding region [chemical binding]; other site 1123519001197 ATP-binding site [chemical binding]; other site 1123519001198 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1123519001199 putative RNA binding site [nucleotide binding]; other site 1123519001200 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1123519001201 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1123519001202 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1123519001203 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1123519001204 Na binding site [ion binding]; other site 1123519001205 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1123519001206 active site 1123519001207 catalytic site [active] 1123519001208 substrate binding site [chemical binding]; other site 1123519001209 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1123519001210 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 1123519001211 ligand binding site [chemical binding]; other site 1123519001212 flexible hinge region; other site 1123519001213 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 1123519001214 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1123519001215 metal binding triad; other site 1123519001216 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 1123519001217 active site 1123519001218 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1123519001219 ACT domain; Region: ACT_6; pfam13740 1123519001220 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1123519001221 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1123519001222 EamA-like transporter family; Region: EamA; cl17759 1123519001223 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1123519001224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519001225 NAD(P) binding site [chemical binding]; other site 1123519001226 active site 1123519001227 trehalase; Provisional; Region: treF; PRK13270 1123519001228 Trehalase; Region: Trehalase; cl17346 1123519001229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519001230 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519001231 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1123519001232 Water Stress and Hypersensitive response; Region: WHy; smart00769 1123519001233 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1123519001234 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 1123519001235 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 1123519001236 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 1123519001237 dimer interface [polypeptide binding]; other site 1123519001238 active site residues [active] 1123519001239 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 1123519001240 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1123519001241 short chain dehydrogenase; Provisional; Region: PRK07109 1123519001242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519001243 NAD(P) binding site [chemical binding]; other site 1123519001244 active site 1123519001245 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 1123519001246 CHASE3 domain; Region: CHASE3; pfam05227 1123519001247 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1123519001248 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1123519001249 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 1123519001250 dimer interface [polypeptide binding]; other site 1123519001251 phosphorylation site [posttranslational modification] 1123519001252 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519001253 ATP binding site [chemical binding]; other site 1123519001254 Mg2+ binding site [ion binding]; other site 1123519001255 G-X-G motif; other site 1123519001256 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001258 active site 1123519001259 phosphorylation site [posttranslational modification] 1123519001260 intermolecular recognition site; other site 1123519001261 dimerization interface [polypeptide binding]; other site 1123519001262 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519001263 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001264 active site 1123519001265 phosphorylation site [posttranslational modification] 1123519001266 intermolecular recognition site; other site 1123519001267 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001269 active site 1123519001270 phosphorylation site [posttranslational modification] 1123519001271 intermolecular recognition site; other site 1123519001272 dimerization interface [polypeptide binding]; other site 1123519001273 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1123519001274 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1123519001275 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1123519001276 CheB methylesterase; Region: CheB_methylest; pfam01339 1123519001277 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001278 active site 1123519001279 phosphorylation site [posttranslational modification] 1123519001280 intermolecular recognition site; other site 1123519001281 dimerization interface [polypeptide binding]; other site 1123519001282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519001283 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 1123519001284 dimer interface [polypeptide binding]; other site 1123519001285 phosphorylation site [posttranslational modification] 1123519001286 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519001287 ATP binding site [chemical binding]; other site 1123519001288 Mg2+ binding site [ion binding]; other site 1123519001289 G-X-G motif; other site 1123519001290 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1123519001291 hypothetical protein; Validated; Region: PRK00029 1123519001292 hypothetical protein; Provisional; Region: PRK11281 1123519001293 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1123519001294 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519001295 potassium/proton antiporter; Reviewed; Region: PRK05326 1123519001296 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1123519001297 TrkA-C domain; Region: TrkA_C; pfam02080 1123519001298 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519001299 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1123519001300 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1123519001301 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519001302 active site 1123519001303 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1123519001304 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1123519001305 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1123519001306 homotetramer interface [polypeptide binding]; other site 1123519001307 FMN binding site [chemical binding]; other site 1123519001308 homodimer contacts [polypeptide binding]; other site 1123519001309 putative active site [active] 1123519001310 putative substrate binding site [chemical binding]; other site 1123519001311 Nitronate monooxygenase; Region: NMO; pfam03060 1123519001312 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 1123519001313 FMN binding site [chemical binding]; other site 1123519001314 substrate binding site [chemical binding]; other site 1123519001315 putative catalytic residue [active] 1123519001316 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1123519001317 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1123519001318 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1123519001319 putative active site [active] 1123519001320 catalytic triad [active] 1123519001321 putative dimer interface [polypeptide binding]; other site 1123519001322 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1123519001323 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 1123519001324 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519001325 metal-binding heat shock protein; Provisional; Region: PRK00016 1123519001326 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1123519001327 PhoH-like protein; Region: PhoH; pfam02562 1123519001328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1123519001329 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1123519001330 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 1123519001331 FeS/SAM binding site; other site 1123519001332 TRAM domain; Region: TRAM; pfam01938 1123519001333 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1123519001334 Sel1-like repeats; Region: SEL1; smart00671 1123519001335 Sel1-like repeats; Region: SEL1; smart00671 1123519001336 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1123519001337 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 1123519001338 inhibitor-cofactor binding pocket; inhibition site 1123519001339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519001340 catalytic residue [active] 1123519001341 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 1123519001342 thiamine phosphate binding site [chemical binding]; other site 1123519001343 active site 1123519001344 pyrophosphate binding site [ion binding]; other site 1123519001345 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 1123519001346 dimer interface [polypeptide binding]; other site 1123519001347 substrate binding site [chemical binding]; other site 1123519001348 ATP binding site [chemical binding]; other site 1123519001349 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1123519001350 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519001351 active site 1123519001352 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1123519001353 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 1123519001354 E3 interaction surface; other site 1123519001355 lipoyl attachment site [posttranslational modification]; other site 1123519001356 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 1123519001357 E3 interaction surface; other site 1123519001358 lipoyl attachment site [posttranslational modification]; other site 1123519001359 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 1123519001360 E3 interaction surface; other site 1123519001361 lipoyl attachment site [posttranslational modification]; other site 1123519001362 e3 binding domain; Region: E3_binding; pfam02817 1123519001363 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1123519001364 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1123519001365 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 1123519001366 dimer interface [polypeptide binding]; other site 1123519001367 TPP-binding site [chemical binding]; other site 1123519001368 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1123519001369 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1123519001370 metal binding triad; other site 1123519001371 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1123519001372 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1123519001373 metal binding triad; other site 1123519001374 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1123519001375 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1123519001376 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 1123519001377 homodimer interface [polypeptide binding]; other site 1123519001378 substrate-cofactor binding pocket; other site 1123519001379 catalytic residue [active] 1123519001380 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1123519001381 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 1123519001382 putative active site [active] 1123519001383 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1123519001384 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 1123519001385 putative active site [active] 1123519001386 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519001387 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 1123519001388 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1123519001389 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1123519001390 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1123519001391 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1123519001392 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 1123519001393 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1123519001394 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1123519001395 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 1123519001396 active site 1123519001397 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 1123519001398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519001399 putative ADP-binding pocket [chemical binding]; other site 1123519001400 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1123519001401 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 1123519001402 active site 1123519001403 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1123519001404 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 1123519001405 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 1123519001406 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1123519001407 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1123519001408 Walker A/P-loop; other site 1123519001409 ATP binding site [chemical binding]; other site 1123519001410 Q-loop/lid; other site 1123519001411 ABC transporter signature motif; other site 1123519001412 Walker B; other site 1123519001413 D-loop; other site 1123519001414 H-loop/switch region; other site 1123519001415 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1123519001416 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 1123519001417 putative ribose interaction site [chemical binding]; other site 1123519001418 putative ADP binding site [chemical binding]; other site 1123519001419 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1123519001420 active site 1123519001421 nucleotide binding site [chemical binding]; other site 1123519001422 HIGH motif; other site 1123519001423 KMSKS motif; other site 1123519001424 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 1123519001425 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1123519001426 active site 1123519001427 catalytic tetrad [active] 1123519001428 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 1123519001429 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519001430 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1123519001431 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1123519001432 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 1123519001433 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 1123519001434 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519001435 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1123519001436 putative acyl-acceptor binding pocket; other site 1123519001437 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1123519001438 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1123519001439 ThiC-associated domain; Region: ThiC-associated; pfam13667 1123519001440 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1123519001441 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 1123519001442 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 1123519001443 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1123519001444 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 1123519001445 dimer interface [polypeptide binding]; other site 1123519001446 ADP-ribose binding site [chemical binding]; other site 1123519001447 active site 1123519001448 nudix motif; other site 1123519001449 metal binding site [ion binding]; metal-binding site 1123519001450 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1123519001451 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1123519001452 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1123519001453 active site 1123519001454 metal binding site [ion binding]; metal-binding site 1123519001455 hexamer interface [polypeptide binding]; other site 1123519001456 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 1123519001457 putative active site [active] 1123519001458 putative catalytic site [active] 1123519001459 putative DNA binding site [nucleotide binding]; other site 1123519001460 putative phosphate binding site [ion binding]; other site 1123519001461 metal binding site A [ion binding]; metal-binding site 1123519001462 putative AP binding site [nucleotide binding]; other site 1123519001463 putative metal binding site B [ion binding]; other site 1123519001464 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519001465 active site 1123519001466 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 1123519001467 feedback inhibition sensing region; other site 1123519001468 homohexameric interface [polypeptide binding]; other site 1123519001469 nucleotide binding site [chemical binding]; other site 1123519001470 N-acetyl-L-glutamate binding site [chemical binding]; other site 1123519001471 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1123519001472 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 1123519001473 active site 1123519001474 substrate binding site [chemical binding]; other site 1123519001475 metal binding site [ion binding]; metal-binding site 1123519001476 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1123519001477 trimer interface [polypeptide binding]; other site 1123519001478 active site 1123519001479 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1123519001480 Flavoprotein; Region: Flavoprotein; pfam02441 1123519001481 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1123519001482 hypothetical protein; Reviewed; Region: PRK00024 1123519001483 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1123519001484 MPN+ (JAMM) motif; other site 1123519001485 Zinc-binding site [ion binding]; other site 1123519001486 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519001487 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519001488 dimer interface [polypeptide binding]; other site 1123519001489 putative CheW interface [polypeptide binding]; other site 1123519001490 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1123519001491 PLD-like domain; Region: PLDc_2; pfam13091 1123519001492 putative active site [active] 1123519001493 catalytic site [active] 1123519001494 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1123519001495 PLD-like domain; Region: PLDc_2; pfam13091 1123519001496 putative active site [active] 1123519001497 catalytic site [active] 1123519001498 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1123519001499 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1123519001500 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1123519001501 putative DNA binding site [nucleotide binding]; other site 1123519001502 putative Zn2+ binding site [ion binding]; other site 1123519001503 AsnC family; Region: AsnC_trans_reg; pfam01037 1123519001504 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1123519001505 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1123519001506 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1123519001507 homotrimer interaction site [polypeptide binding]; other site 1123519001508 putative active site [active] 1123519001509 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1123519001510 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 1123519001511 non-specific DNA binding site [nucleotide binding]; other site 1123519001512 salt bridge; other site 1123519001513 sequence-specific DNA binding site [nucleotide binding]; other site 1123519001514 Cupin domain; Region: Cupin_2; pfam07883 1123519001515 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1123519001516 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 1123519001517 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519001518 active site 1123519001519 trehalose synthase; Region: treS_nterm; TIGR02456 1123519001520 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1123519001521 active site 1123519001522 catalytic site [active] 1123519001523 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 1123519001524 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1123519001525 active site 1123519001526 catalytic site [active] 1123519001527 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1123519001528 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1123519001529 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1123519001530 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1123519001531 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 1123519001532 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1123519001533 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 1123519001534 putative active site [active] 1123519001535 metal binding site [ion binding]; metal-binding site 1123519001536 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1123519001537 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1123519001538 tetrameric interface [polypeptide binding]; other site 1123519001539 NAD binding site [chemical binding]; other site 1123519001540 catalytic residues [active] 1123519001541 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1123519001542 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1123519001543 Bacterial transcriptional regulator; Region: IclR; pfam01614 1123519001544 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1123519001545 Part of AAA domain; Region: AAA_19; pfam13245 1123519001546 Family description; Region: UvrD_C_2; pfam13538 1123519001547 potential frameshift: common BLAST hit: gi|339492613|ref|YP_004712906.1| choline transporter 1123519001548 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1123519001549 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1123519001550 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1123519001551 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1123519001552 Membrane fusogenic activity; Region: BMFP; cl01115 1123519001553 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1123519001554 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1123519001555 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1123519001556 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1123519001557 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1123519001558 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 1123519001559 motif II; other site 1123519001560 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1123519001561 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 1123519001562 active site 1123519001563 DNA binding site [nucleotide binding] 1123519001564 Int/Topo IB signature motif; other site 1123519001565 Protein of unknown function, DUF484; Region: DUF484; cl17449 1123519001566 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1123519001567 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1123519001568 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1123519001569 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1123519001570 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1123519001571 active site 1123519001572 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519001573 substrate binding site [chemical binding]; other site 1123519001574 catalytic residues [active] 1123519001575 dimer interface [polypeptide binding]; other site 1123519001576 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 1123519001577 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1123519001578 putative iron binding site [ion binding]; other site 1123519001579 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1123519001580 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1123519001581 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1123519001582 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1123519001583 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1123519001584 TIGR02647 family protein; Region: DNA 1123519001585 NnrS protein; Region: NnrS; pfam05940 1123519001586 argininosuccinate lyase; Provisional; Region: PRK00855 1123519001587 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1123519001588 active sites [active] 1123519001589 tetramer interface [polypeptide binding]; other site 1123519001590 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 1123519001591 dimerization interface [polypeptide binding]; other site 1123519001592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519001593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519001594 dimer interface [polypeptide binding]; other site 1123519001595 putative CheW interface [polypeptide binding]; other site 1123519001596 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1123519001597 Histidine kinase; Region: His_kinase; pfam06580 1123519001598 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1123519001599 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001600 active site 1123519001601 phosphorylation site [posttranslational modification] 1123519001602 intermolecular recognition site; other site 1123519001603 dimerization interface [polypeptide binding]; other site 1123519001604 LytTr DNA-binding domain; Region: LytTR; pfam04397 1123519001605 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1123519001606 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 1123519001607 domain interfaces; other site 1123519001608 active site 1123519001609 uroporphyrinogen-III synthase; Validated; Region: PRK05752 1123519001610 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 1123519001611 active site 1123519001612 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1123519001613 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 1123519001614 HemY protein N-terminus; Region: HemY_N; pfam07219 1123519001615 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 1123519001616 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 1123519001617 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 1123519001618 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1123519001619 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519001620 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519001621 ABC transporter; Region: ABC_tran_2; pfam12848 1123519001622 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519001623 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1123519001624 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519001625 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1123519001626 LysE type translocator; Region: LysE; cl00565 1123519001627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1123519001628 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 1123519001629 CoenzymeA binding site [chemical binding]; other site 1123519001630 subunit interaction site [polypeptide binding]; other site 1123519001631 PHB binding site; other site 1123519001632 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1123519001633 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1123519001634 conserved cys residue [active] 1123519001635 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 1123519001636 dimer interface [polypeptide binding]; other site 1123519001637 active site 1123519001638 aspartate-rich active site metal binding site; other site 1123519001639 allosteric magnesium binding site [ion binding]; other site 1123519001640 Schiff base residues; other site 1123519001641 polyphosphate kinase; Provisional; Region: PRK05443 1123519001642 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1123519001643 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1123519001644 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1123519001645 putative active site [active] 1123519001646 catalytic site [active] 1123519001647 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1123519001648 putative domain interface [polypeptide binding]; other site 1123519001649 putative active site [active] 1123519001650 catalytic site [active] 1123519001651 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519001652 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1123519001653 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519001654 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519001655 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519001656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519001657 outer membrane receptor FepA; Provisional; Region: PRK13524 1123519001658 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 1123519001659 N-terminal plug; other site 1123519001660 ligand-binding site [chemical binding]; other site 1123519001661 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1123519001662 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1123519001663 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 1123519001664 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519001665 catalytic residues [active] 1123519001666 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1123519001667 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1123519001668 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 1123519001669 RNA binding site [nucleotide binding]; other site 1123519001670 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 1123519001671 multimer interface [polypeptide binding]; other site 1123519001672 Walker A motif; other site 1123519001673 ATP binding site [chemical binding]; other site 1123519001674 Walker B motif; other site 1123519001675 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1123519001676 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 1123519001677 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 1123519001678 catalytic loop [active] 1123519001679 iron binding site [ion binding]; other site 1123519001680 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 1123519001681 FAD binding pocket [chemical binding]; other site 1123519001682 FAD binding motif [chemical binding]; other site 1123519001683 phosphate binding motif [ion binding]; other site 1123519001684 beta-alpha-beta structure motif; other site 1123519001685 NAD binding pocket [chemical binding]; other site 1123519001686 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 1123519001687 Sporulation related domain; Region: SPOR; pfam05036 1123519001688 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1123519001689 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1123519001690 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1123519001691 active site 1123519001692 HIGH motif; other site 1123519001693 KMSK motif region; other site 1123519001694 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1123519001695 tRNA binding surface [nucleotide binding]; other site 1123519001696 anticodon binding site; other site 1123519001697 primosome assembly protein PriA; Validated; Region: PRK05580 1123519001698 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 1123519001699 ATP binding site [chemical binding]; other site 1123519001700 putative Mg++ binding site [ion binding]; other site 1123519001701 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 1123519001702 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 1123519001703 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1123519001704 Staphylococcal nuclease homologues; Region: SNc; smart00318 1123519001705 Catalytic site; other site 1123519001706 Staphylococcal nuclease homologue; Region: SNase; pfam00565 1123519001707 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1123519001708 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1123519001709 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1123519001710 putative NAD(P) binding site [chemical binding]; other site 1123519001711 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1123519001712 Transglycosylase; Region: Transgly; pfam00912 1123519001713 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1123519001714 Competence protein A; Region: Competence_A; pfam11104 1123519001715 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1123519001716 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1123519001717 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1123519001718 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 1123519001719 Pilus assembly protein, PilP; Region: PilP; pfam04351 1123519001720 AMIN domain; Region: AMIN; pfam11741 1123519001721 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1123519001722 Secretin and TonB N terminus short domain; Region: STN; smart00965 1123519001723 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1123519001724 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1123519001725 Shikimate kinase; Region: SKI; pfam01202 1123519001726 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 1123519001727 magnesium binding site [ion binding]; other site 1123519001728 putative shikimate binding site; other site 1123519001729 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1123519001730 active site 1123519001731 dimer interface [polypeptide binding]; other site 1123519001732 metal binding site [ion binding]; metal-binding site 1123519001733 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 1123519001734 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001735 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1123519001736 Sporulation related domain; Region: SPOR; cl10051 1123519001737 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1123519001738 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 1123519001739 active site 1123519001740 dimer interface [polypeptide binding]; other site 1123519001741 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1123519001742 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 1123519001743 active site 1123519001744 FMN binding site [chemical binding]; other site 1123519001745 substrate binding site [chemical binding]; other site 1123519001746 3Fe-4S cluster binding site [ion binding]; other site 1123519001747 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 1123519001748 domain interface; other site 1123519001749 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1123519001750 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 1123519001751 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1123519001752 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1123519001753 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 1123519001754 substrate binding site [chemical binding]; other site 1123519001755 active site 1123519001756 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1123519001757 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 1123519001758 dimer interface [polypeptide binding]; other site 1123519001759 active site 1123519001760 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1123519001761 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1123519001762 NAD(P) binding site [chemical binding]; other site 1123519001763 homotetramer interface [polypeptide binding]; other site 1123519001764 homodimer interface [polypeptide binding]; other site 1123519001765 active site 1123519001766 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 1123519001767 putative active site 1 [active] 1123519001768 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1123519001769 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 1123519001770 dimer interface [polypeptide binding]; other site 1123519001771 active site 1123519001772 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1123519001773 Predicted exporter [General function prediction only]; Region: COG4258 1123519001774 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 1123519001775 active site 1123519001776 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1123519001777 active sites [active] 1123519001778 tetramer interface [polypeptide binding]; other site 1123519001779 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1123519001780 putative acyl-acceptor binding pocket; other site 1123519001781 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1123519001782 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1123519001783 Ligand binding site; other site 1123519001784 Putative Catalytic site; other site 1123519001785 DXD motif; other site 1123519001786 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1123519001787 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1123519001788 acyl-activating enzyme (AAE) consensus motif; other site 1123519001789 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1123519001790 AMP binding site [chemical binding]; other site 1123519001791 active site 1123519001792 acyl-activating enzyme (AAE) consensus motif; other site 1123519001793 CoA binding site [chemical binding]; other site 1123519001794 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 1123519001795 active site 2 [active] 1123519001796 dimer interface [polypeptide binding]; other site 1123519001797 active site 1 [active] 1123519001798 Predicted membrane protein [Function unknown]; Region: COG4648 1123519001799 acyl carrier protein; Provisional; Region: PRK05350 1123519001800 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1123519001801 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519001802 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1123519001803 putative acyl-acceptor binding pocket; other site 1123519001804 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1123519001805 thioredoxin 2; Provisional; Region: PRK10996 1123519001806 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 1123519001807 catalytic residues [active] 1123519001808 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 1123519001809 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 1123519001810 homodimer interface [polypeptide binding]; other site 1123519001811 substrate-cofactor binding pocket; other site 1123519001812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519001813 catalytic residue [active] 1123519001814 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1123519001815 transmembrane helices; other site 1123519001816 TrkA-C domain; Region: TrkA_C; pfam02080 1123519001817 TrkA-C domain; Region: TrkA_C; pfam02080 1123519001818 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 1123519001819 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1123519001820 AAA ATPase domain; Region: AAA_16; pfam13191 1123519001821 NACHT domain; Region: NACHT; pfam05729 1123519001822 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 1123519001823 TPR motif; other site 1123519001824 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1123519001825 binding surface 1123519001826 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 1123519001827 RNA binding site [nucleotide binding]; other site 1123519001828 Nuclease-related domain; Region: NERD; pfam08378 1123519001829 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1123519001830 Fic family protein [Function unknown]; Region: COG3177 1123519001831 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1123519001832 Fic/DOC family; Region: Fic; pfam02661 1123519001833 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1123519001834 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1123519001835 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1123519001836 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1123519001837 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1123519001838 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519001839 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1123519001840 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 1123519001841 DNA binding residues [nucleotide binding] 1123519001842 DNA primase, catalytic core; Region: dnaG; TIGR01391 1123519001843 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1123519001844 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1123519001845 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 1123519001846 active site 1123519001847 metal binding site [ion binding]; metal-binding site 1123519001848 interdomain interaction site; other site 1123519001849 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1123519001850 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1123519001851 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1123519001852 UGMP family protein; Validated; Region: PRK09604 1123519001853 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1123519001854 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1123519001855 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1123519001856 homooctamer interface [polypeptide binding]; other site 1123519001857 active site 1123519001858 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 1123519001859 catalytic center binding site [active] 1123519001860 ATP binding site [chemical binding]; other site 1123519001861 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1123519001862 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1123519001863 active site 1123519001864 NTP binding site [chemical binding]; other site 1123519001865 metal binding triad [ion binding]; metal-binding site 1123519001866 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1123519001867 alanine racemase; Reviewed; Region: alr; PRK00053 1123519001868 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1123519001869 active site 1123519001870 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519001871 substrate binding site [chemical binding]; other site 1123519001872 catalytic residues [active] 1123519001873 dimer interface [polypeptide binding]; other site 1123519001874 hypothetical protein; Provisional; Region: PRK01254 1123519001875 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1123519001876 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1123519001877 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519001878 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519001879 dimer interface [polypeptide binding]; other site 1123519001880 putative CheW interface [polypeptide binding]; other site 1123519001881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1123519001882 active site 1123519001883 phosphorylation site [posttranslational modification] 1123519001884 intermolecular recognition site; other site 1123519001885 dimerization interface [polypeptide binding]; other site 1123519001886 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519001887 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001888 active site 1123519001889 phosphorylation site [posttranslational modification] 1123519001890 intermolecular recognition site; other site 1123519001891 dimerization interface [polypeptide binding]; other site 1123519001892 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519001893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519001894 metal binding site [ion binding]; metal-binding site 1123519001895 active site 1123519001896 I-site; other site 1123519001897 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 1123519001898 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519001899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519001900 active site 1123519001901 phosphorylation site [posttranslational modification] 1123519001902 intermolecular recognition site; other site 1123519001903 dimerization interface [polypeptide binding]; other site 1123519001904 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001905 Walker A motif; other site 1123519001906 ATP binding site [chemical binding]; other site 1123519001907 Walker B motif; other site 1123519001908 arginine finger; other site 1123519001909 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519001910 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519001911 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 1123519001912 dimer interface [polypeptide binding]; other site 1123519001913 phosphorylation site [posttranslational modification] 1123519001914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519001915 ATP binding site [chemical binding]; other site 1123519001916 Mg2+ binding site [ion binding]; other site 1123519001917 G-X-G motif; other site 1123519001918 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 1123519001919 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1123519001920 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1123519001921 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 1123519001922 RNA binding surface [nucleotide binding]; other site 1123519001923 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1123519001924 active site 1123519001925 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1123519001926 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1123519001927 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 1123519001928 diiron binding motif [ion binding]; other site 1123519001929 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 1123519001930 nucleotide binding site/active site [active] 1123519001931 HIT family signature motif; other site 1123519001932 catalytic residue [active] 1123519001933 Ycf46; Provisional; Region: ycf46; CHL00195 1123519001934 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001935 Walker A motif; other site 1123519001936 ATP binding site [chemical binding]; other site 1123519001937 Walker B motif; other site 1123519001938 arginine finger; other site 1123519001939 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1123519001940 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1123519001941 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 1123519001942 FMN binding site [chemical binding]; other site 1123519001943 substrate binding site [chemical binding]; other site 1123519001944 putative catalytic residue [active] 1123519001945 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1123519001946 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1123519001947 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1123519001948 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1123519001949 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1123519001950 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1123519001951 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519001952 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1123519001953 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1123519001954 active site 1123519001955 HIGH motif; other site 1123519001956 dimer interface [polypeptide binding]; other site 1123519001957 KMSKS motif; other site 1123519001958 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1123519001959 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001960 Walker A motif; other site 1123519001961 ATP binding site [chemical binding]; other site 1123519001962 Walker B motif; other site 1123519001963 arginine finger; other site 1123519001964 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519001965 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1123519001966 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001967 Walker A motif; other site 1123519001968 ATP binding site [chemical binding]; other site 1123519001969 Walker B motif; other site 1123519001970 arginine finger; other site 1123519001971 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519001972 Walker A motif; other site 1123519001973 ATP binding site [chemical binding]; other site 1123519001974 Walker B motif; other site 1123519001975 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1123519001976 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 1123519001977 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1123519001978 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1123519001979 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 1123519001980 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1123519001981 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1123519001982 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1123519001983 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1123519001984 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1123519001985 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1123519001986 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1123519001987 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1123519001988 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1123519001989 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519001990 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519001991 active site 1123519001992 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1123519001993 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1123519001994 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1123519001995 nitrous-oxide reductase; Validated; Region: PRK02888 1123519001996 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1123519001997 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1123519001998 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1123519001999 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1123519002000 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1123519002001 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519002002 Walker A/P-loop; other site 1123519002003 ATP binding site [chemical binding]; other site 1123519002004 Q-loop/lid; other site 1123519002005 ABC transporter signature motif; other site 1123519002006 Walker B; other site 1123519002007 D-loop; other site 1123519002008 H-loop/switch region; other site 1123519002009 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1123519002010 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1123519002011 NosL; Region: NosL; pfam05573 1123519002012 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1123519002013 NnrS protein; Region: NnrS; pfam05940 1123519002014 short chain dehydrogenase; Provisional; Region: PRK06500 1123519002015 classical (c) SDRs; Region: SDR_c; cd05233 1123519002016 NAD(P) binding site [chemical binding]; other site 1123519002017 active site 1123519002018 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519002019 dimer interface [polypeptide binding]; other site 1123519002020 putative CheW interface [polypeptide binding]; other site 1123519002021 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1123519002022 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 1123519002023 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1123519002024 Low-spin heme binding site [chemical binding]; other site 1123519002025 Putative water exit pathway; other site 1123519002026 Binuclear center (active site) [active] 1123519002027 Putative proton exit pathway; other site 1123519002028 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 1123519002029 HPP family; Region: HPP; pfam04982 1123519002030 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 1123519002031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519002032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519002033 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1123519002034 dimerization interface [polypeptide binding]; other site 1123519002035 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1123519002036 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519002037 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1123519002038 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 1123519002039 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1123519002040 active site 1123519002041 SAM binding site [chemical binding]; other site 1123519002042 homodimer interface [polypeptide binding]; other site 1123519002043 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 1123519002044 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 1123519002045 FeS/SAM binding site; other site 1123519002046 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519002047 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519002048 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1123519002049 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519002050 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519002051 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1123519002052 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519002053 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1123519002054 Cytochrome c; Region: Cytochrom_C; cl11414 1123519002055 Ethylbenzene dehydrogenase; Region: EB_dh; smart00887 1123519002056 putative ligand binding site [chemical binding]; other site 1123519002057 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1123519002058 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1123519002059 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1123519002060 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519002061 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 1123519002062 MoxR-like ATPases [General function prediction only]; Region: COG0714 1123519002063 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519002064 Walker A motif; other site 1123519002065 ATP binding site [chemical binding]; other site 1123519002066 Walker B motif; other site 1123519002067 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1123519002068 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1123519002069 Subunit I/III interface [polypeptide binding]; other site 1123519002070 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519002071 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1123519002072 Low-spin heme binding site [chemical binding]; other site 1123519002073 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1123519002074 D-pathway; other site 1123519002075 K-pathway; other site 1123519002076 Binuclear center (active site) [active] 1123519002077 Putative proton exit pathway; other site 1123519002078 Putative water exit pathway; other site 1123519002079 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1123519002080 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1123519002081 metal ion-dependent adhesion site (MIDAS); other site 1123519002082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519002083 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519002084 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1123519002085 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1123519002086 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519002087 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519002088 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519002089 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 1123519002090 ligand binding site [chemical binding]; other site 1123519002091 flexible hinge region; other site 1123519002092 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1123519002093 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1123519002094 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1123519002095 Hemerythrin-like domain; Region: Hr-like; cd12108 1123519002096 Fe binding site [ion binding]; other site 1123519002097 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1123519002098 GAF domain; Region: GAF; pfam01590 1123519002099 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519002100 Walker A motif; other site 1123519002101 ATP binding site [chemical binding]; other site 1123519002102 Walker B motif; other site 1123519002103 arginine finger; other site 1123519002104 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1123519002105 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1123519002106 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1123519002107 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1123519002108 SurA N-terminal domain; Region: SurA_N; pfam09312 1123519002109 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1123519002110 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1123519002111 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1123519002112 OstA-like protein; Region: OstA; cl00844 1123519002113 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1123519002114 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1123519002115 Phosphotransferase enzyme family; Region: APH; pfam01636 1123519002116 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 1123519002117 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1123519002118 Substrate binding site; other site 1123519002119 metal-binding site 1123519002120 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1123519002121 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1123519002122 putative metal binding site [ion binding]; other site 1123519002123 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 1123519002124 HSP70 interaction site [polypeptide binding]; other site 1123519002125 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1123519002126 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1123519002127 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 1123519002128 inhibitor-cofactor binding pocket; inhibition site 1123519002129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519002130 catalytic residue [active] 1123519002131 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 1123519002132 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1123519002133 substrate binding site [chemical binding]; other site 1123519002134 hexamer interface [polypeptide binding]; other site 1123519002135 metal binding site [ion binding]; metal-binding site 1123519002136 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1123519002137 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 1123519002138 motif II; other site 1123519002139 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1123519002140 anthranilate synthase component I; Provisional; Region: PRK13565 1123519002141 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1123519002142 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1123519002143 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1123519002144 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1123519002145 glutamine binding [chemical binding]; other site 1123519002146 catalytic triad [active] 1123519002147 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1123519002148 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1123519002149 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1123519002150 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 1123519002151 active site 1123519002152 ribulose/triose binding site [chemical binding]; other site 1123519002153 phosphate binding site [ion binding]; other site 1123519002154 substrate (anthranilate) binding pocket [chemical binding]; other site 1123519002155 product (indole) binding pocket [chemical binding]; other site 1123519002156 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1123519002157 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 1123519002158 ligand binding site [chemical binding]; other site 1123519002159 flexible hinge region; other site 1123519002160 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 1123519002161 putative switch regulator; other site 1123519002162 non-specific DNA interactions [nucleotide binding]; other site 1123519002163 DNA binding site [nucleotide binding] 1123519002164 sequence specific DNA binding site [nucleotide binding]; other site 1123519002165 putative cAMP binding site [chemical binding]; other site 1123519002166 OsmC-like protein; Region: OsmC; cl00767 1123519002167 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1123519002168 Clp amino terminal domain; Region: Clp_N; pfam02861 1123519002169 Clp amino terminal domain; Region: Clp_N; pfam02861 1123519002170 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519002171 Walker A motif; other site 1123519002172 ATP binding site [chemical binding]; other site 1123519002173 Walker B motif; other site 1123519002174 arginine finger; other site 1123519002175 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519002176 Walker A motif; other site 1123519002177 ATP binding site [chemical binding]; other site 1123519002178 Walker B motif; other site 1123519002179 arginine finger; other site 1123519002180 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1123519002181 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1123519002182 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519002183 Protein of unknown function (DUF3094); Region: DUF3094; pfam11293 1123519002184 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 1123519002185 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 1123519002186 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 1123519002187 dimerization interface [polypeptide binding]; other site 1123519002188 active site 1123519002189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1123519002190 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1123519002191 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1123519002192 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 1123519002193 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1123519002194 active site 1123519002195 HIGH motif; other site 1123519002196 dimer interface [polypeptide binding]; other site 1123519002197 KMSKS motif; other site 1123519002198 Predicted ATPase [General function prediction only]; Region: COG1485 1123519002199 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1123519002200 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1123519002201 conserved cys residue [active] 1123519002202 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519002203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519002204 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1123519002205 Active_site [active] 1123519002206 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1123519002207 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 1123519002208 amidase catalytic site [active] 1123519002209 Zn binding residues [ion binding]; other site 1123519002210 substrate binding site [chemical binding]; other site 1123519002211 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 1123519002212 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 1123519002213 dimerization interface [polypeptide binding]; other site 1123519002214 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519002215 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519002216 dimer interface [polypeptide binding]; other site 1123519002217 putative CheW interface [polypeptide binding]; other site 1123519002218 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1123519002219 active site 1123519002220 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1123519002221 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1123519002222 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519002223 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1123519002224 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 1123519002225 DNA binding site [nucleotide binding] 1123519002226 active site 1123519002227 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 1123519002228 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 1123519002229 ATP binding site [chemical binding]; other site 1123519002230 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1123519002231 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1123519002232 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1123519002233 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519002234 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519002235 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1123519002236 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1123519002237 heme binding site [chemical binding]; other site 1123519002238 ferroxidase pore; other site 1123519002239 ferroxidase diiron center [ion binding]; other site 1123519002240 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1123519002241 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519002242 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 1123519002243 dimerization interface [polypeptide binding]; other site 1123519002244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519002245 dimer interface [polypeptide binding]; other site 1123519002246 putative CheW interface [polypeptide binding]; other site 1123519002247 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1123519002248 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519002249 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1123519002250 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1123519002251 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519002252 putative substrate translocation pore; other site 1123519002253 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1123519002254 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 1123519002255 active site 1123519002256 purine riboside binding site [chemical binding]; other site 1123519002257 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1123519002258 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1123519002259 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1123519002260 dimerization interface [polypeptide binding]; other site 1123519002261 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1123519002262 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1123519002263 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1123519002264 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1123519002265 aminoglycoside resistance protein; Provisional; Region: PRK13746 1123519002266 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 1123519002267 active site 1123519002268 NTP binding site [chemical binding]; other site 1123519002269 metal binding triad [ion binding]; metal-binding site 1123519002270 antibiotic binding site [chemical binding]; other site 1123519002271 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 1123519002272 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1123519002273 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1123519002274 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 1123519002275 putative metal binding site [ion binding]; other site 1123519002276 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1123519002277 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 1123519002278 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 1123519002279 PAS domain; Region: PAS_9; pfam13426 1123519002280 putative active site [active] 1123519002281 heme pocket [chemical binding]; other site 1123519002282 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 1123519002283 dimer interface [polypeptide binding]; other site 1123519002284 phosphorylation site [posttranslational modification] 1123519002285 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519002286 ATP binding site [chemical binding]; other site 1123519002287 Mg2+ binding site [ion binding]; other site 1123519002288 G-X-G motif; other site 1123519002289 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519002290 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519002291 active site 1123519002292 phosphorylation site [posttranslational modification] 1123519002293 intermolecular recognition site; other site 1123519002294 dimerization interface [polypeptide binding]; other site 1123519002295 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 1123519002296 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1123519002297 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1123519002298 SdiA-regulated; Region: SdiA-regulated; pfam06977 1123519002299 SdiA-regulated; Region: SdiA-regulated; cd09971 1123519002300 putative active site [active] 1123519002301 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1123519002302 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 1123519002303 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519002304 S-adenosylmethionine binding site [chemical binding]; other site 1123519002305 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 1123519002306 homodimer interface [polypeptide binding]; other site 1123519002307 chemical substrate binding site [chemical binding]; other site 1123519002308 oligomer interface [polypeptide binding]; other site 1123519002309 metal binding site [ion binding]; metal-binding site 1123519002310 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1123519002311 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1123519002312 Trp docking motif [polypeptide binding]; other site 1123519002313 putative active site [active] 1123519002314 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1123519002315 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1123519002316 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1123519002317 G1 box; other site 1123519002318 putative GEF interaction site [polypeptide binding]; other site 1123519002319 GTP/Mg2+ binding site [chemical binding]; other site 1123519002320 Switch I region; other site 1123519002321 G2 box; other site 1123519002322 G3 box; other site 1123519002323 Switch II region; other site 1123519002324 G4 box; other site 1123519002325 G5 box; other site 1123519002326 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 1123519002327 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1123519002328 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1123519002329 dimer interface [polypeptide binding]; other site 1123519002330 active site 1123519002331 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519002332 catalytic residues [active] 1123519002333 substrate binding site [chemical binding]; other site 1123519002334 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1123519002335 Flavodoxin; Region: Flavodoxin_1; pfam00258 1123519002336 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 1123519002337 FAD binding pocket [chemical binding]; other site 1123519002338 FAD binding motif [chemical binding]; other site 1123519002339 catalytic residues [active] 1123519002340 NAD binding pocket [chemical binding]; other site 1123519002341 phosphate binding motif [ion binding]; other site 1123519002342 beta-alpha-beta structure motif; other site 1123519002343 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1123519002344 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1123519002345 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1123519002346 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1123519002347 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1123519002348 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 1123519002349 N-terminal plug; other site 1123519002350 ligand-binding site [chemical binding]; other site 1123519002351 Protein of unknown function (DUF541); Region: SIMPL; cl01077 1123519002352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519002353 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519002354 ATP binding site [chemical binding]; other site 1123519002355 G-X-G motif; other site 1123519002356 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1123519002357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519002358 active site 1123519002359 phosphorylation site [posttranslational modification] 1123519002360 intermolecular recognition site; other site 1123519002361 dimerization interface [polypeptide binding]; other site 1123519002362 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519002363 Predicted permeases [General function prediction only]; Region: COG0679 1123519002364 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1123519002365 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519002366 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1123519002367 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1123519002368 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1123519002369 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1123519002370 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 1123519002371 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1123519002372 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1123519002373 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1123519002374 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1123519002375 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1123519002376 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1123519002377 GatB domain; Region: GatB_Yqey; smart00845 1123519002378 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1123519002379 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1123519002380 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1123519002381 rod shape-determining protein MreB; Provisional; Region: PRK13927 1123519002382 MreB and similar proteins; Region: MreB_like; cd10225 1123519002383 nucleotide binding site [chemical binding]; other site 1123519002384 Mg binding site [ion binding]; other site 1123519002385 putative protofilament interaction site [polypeptide binding]; other site 1123519002386 RodZ interaction site [polypeptide binding]; other site 1123519002387 rod shape-determining protein MreC; Provisional; Region: PRK13922 1123519002388 rod shape-determining protein MreC; Region: MreC; pfam04085 1123519002389 rod shape-determining protein MreD; Region: MreD; cl01087 1123519002390 PEGA domain; Region: PEGA; pfam08308 1123519002391 Maf-like protein; Region: Maf; pfam02545 1123519002392 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 1123519002393 active site 1123519002394 dimer interface [polypeptide binding]; other site 1123519002395 ribonuclease G; Provisional; Region: PRK11712 1123519002396 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 1123519002397 homodimer interface [polypeptide binding]; other site 1123519002398 oligonucleotide binding site [chemical binding]; other site 1123519002399 TIGR02099 family protein; Region: TIGR02099 1123519002400 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1123519002401 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1123519002402 nitrilase; Region: PLN02798 1123519002403 putative active site [active] 1123519002404 catalytic triad [active] 1123519002405 dimer interface [polypeptide binding]; other site 1123519002406 protease TldD; Provisional; Region: tldD; PRK10735 1123519002407 hypothetical protein; Provisional; Region: PRK05255 1123519002408 peptidase PmbA; Provisional; Region: PRK11040 1123519002409 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 1123519002410 dimerization domain swap beta strand [polypeptide binding]; other site 1123519002411 regulatory protein interface [polypeptide binding]; other site 1123519002412 active site 1123519002413 regulatory phosphorylation site [posttranslational modification]; other site 1123519002414 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1123519002415 AAA domain; Region: AAA_18; pfam13238 1123519002416 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 1123519002417 active site 1123519002418 phosphorylation site [posttranslational modification] 1123519002419 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 1123519002420 30S subunit binding site; other site 1123519002421 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1123519002422 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1123519002423 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1123519002424 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1123519002425 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1123519002426 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1123519002427 Walker A/P-loop; other site 1123519002428 ATP binding site [chemical binding]; other site 1123519002429 Q-loop/lid; other site 1123519002430 ABC transporter signature motif; other site 1123519002431 Walker B; other site 1123519002432 D-loop; other site 1123519002433 H-loop/switch region; other site 1123519002434 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1123519002435 OstA-like protein; Region: OstA; pfam03968 1123519002436 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1123519002437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1123519002438 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1123519002439 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 1123519002440 active site 1123519002441 motif I; other site 1123519002442 motif II; other site 1123519002443 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1123519002444 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 1123519002445 putative active site [active] 1123519002446 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 1123519002447 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1123519002448 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1123519002449 Walker A/P-loop; other site 1123519002450 ATP binding site [chemical binding]; other site 1123519002451 Q-loop/lid; other site 1123519002452 ABC transporter signature motif; other site 1123519002453 Walker B; other site 1123519002454 D-loop; other site 1123519002455 H-loop/switch region; other site 1123519002456 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1123519002457 Permease; Region: Permease; cl00510 1123519002458 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1123519002459 mce related protein; Region: MCE; pfam02470 1123519002460 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1123519002461 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 1123519002462 anti sigma factor interaction site; other site 1123519002463 regulatory phosphorylation site [posttranslational modification]; other site 1123519002464 Predicted membrane protein [Function unknown]; Region: COG3223 1123519002465 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1123519002466 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1123519002467 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 1123519002468 hinge; other site 1123519002469 active site 1123519002470 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 1123519002471 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1123519002472 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1123519002473 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 1123519002474 NAD binding site [chemical binding]; other site 1123519002475 dimerization interface [polypeptide binding]; other site 1123519002476 product binding site; other site 1123519002477 substrate binding site [chemical binding]; other site 1123519002478 zinc binding site [ion binding]; other site 1123519002479 catalytic residues [active] 1123519002480 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1123519002481 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 1123519002482 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519002483 homodimer interface [polypeptide binding]; other site 1123519002484 catalytic residue [active] 1123519002485 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1123519002486 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 1123519002487 protein binding site [polypeptide binding]; other site 1123519002488 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1123519002489 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1123519002490 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1123519002491 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 1123519002492 Active Sites [active] 1123519002493 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 1123519002494 four helix bundle protein; Region: TIGR02436 1123519002495 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1123519002496 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1123519002497 CysD dimerization site [polypeptide binding]; other site 1123519002498 G1 box; other site 1123519002499 putative GEF interaction site [polypeptide binding]; other site 1123519002500 GTP/Mg2+ binding site [chemical binding]; other site 1123519002501 Switch I region; other site 1123519002502 G2 box; other site 1123519002503 G3 box; other site 1123519002504 Switch II region; other site 1123519002505 G4 box; other site 1123519002506 G5 box; other site 1123519002507 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 1123519002508 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 1123519002509 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 1123519002510 ligand-binding site [chemical binding]; other site 1123519002511 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 1123519002512 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1123519002513 O-Antigen ligase; Region: Wzy_C; pfam04932 1123519002514 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1123519002515 Pilin (bacterial filament); Region: Pilin; pfam00114 1123519002516 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 1123519002517 Pilin (bacterial filament); Region: Pilin; pfam00114 1123519002518 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 1123519002519 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1123519002520 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 1123519002521 Walker A motif; other site 1123519002522 ATP binding site [chemical binding]; other site 1123519002523 Walker B motif; other site 1123519002524 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1123519002525 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519002526 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519002527 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 1123519002528 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1123519002529 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1123519002530 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1123519002531 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 1123519002532 CoA-binding site [chemical binding]; other site 1123519002533 ATP-binding [chemical binding]; other site 1123519002534 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1123519002535 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 1123519002536 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 1123519002537 phosphopeptide binding site; other site 1123519002538 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 1123519002539 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1123519002540 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1123519002541 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1123519002542 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 1123519002543 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1123519002544 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1123519002545 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 1123519002546 Protein phosphatase 2C; Region: PP2C; pfam00481 1123519002547 active site 1123519002548 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1123519002549 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1123519002550 active site 1123519002551 ATP binding site [chemical binding]; other site 1123519002552 substrate binding site [chemical binding]; other site 1123519002553 activation loop (A-loop); other site 1123519002554 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1123519002555 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1123519002556 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1123519002557 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 1123519002558 Predicted membrane protein [Function unknown]; Region: COG3235 1123519002559 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1123519002560 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 1123519002561 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1123519002562 active site 1123519002563 catalytic tetrad [active] 1123519002564 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 1123519002565 23S rRNA interface [nucleotide binding]; other site 1123519002566 L3 interface [polypeptide binding]; other site 1123519002567 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1123519002568 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1123519002569 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 1123519002570 [2Fe-2S] cluster binding site [ion binding]; other site 1123519002571 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1123519002572 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 1123519002573 Qi binding site; other site 1123519002574 intrachain domain interface; other site 1123519002575 interchain domain interface [polypeptide binding]; other site 1123519002576 heme bH binding site [chemical binding]; other site 1123519002577 heme bL binding site [chemical binding]; other site 1123519002578 Qo binding site; other site 1123519002579 interchain domain interface [polypeptide binding]; other site 1123519002580 intrachain domain interface; other site 1123519002581 Qi binding site; other site 1123519002582 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1123519002583 Qo binding site; other site 1123519002584 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1123519002585 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1123519002586 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 1123519002587 C-terminal domain interface [polypeptide binding]; other site 1123519002588 putative GSH binding site (G-site) [chemical binding]; other site 1123519002589 dimer interface [polypeptide binding]; other site 1123519002590 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1123519002591 dimer interface [polypeptide binding]; other site 1123519002592 N-terminal domain interface [polypeptide binding]; other site 1123519002593 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1123519002594 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1123519002595 BON domain; Region: BON; pfam04972 1123519002596 BON domain; Region: BON; pfam04972 1123519002597 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 1123519002598 dimer interface [polypeptide binding]; other site 1123519002599 active site 1123519002600 hypothetical protein; Reviewed; Region: PRK12497 1123519002601 LppC putative lipoprotein; Region: LppC; pfam04348 1123519002602 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1123519002603 putative ligand binding site [chemical binding]; other site 1123519002604 Predicted methyltransferases [General function prediction only]; Region: COG0313 1123519002605 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1123519002606 putative SAM binding site [chemical binding]; other site 1123519002607 putative homodimer interface [polypeptide binding]; other site 1123519002608 cell division protein MraZ; Reviewed; Region: PRK00326 1123519002609 MraZ protein; Region: MraZ; pfam02381 1123519002610 MraZ protein; Region: MraZ; pfam02381 1123519002611 MraW methylase family; Region: Methyltransf_5; cl17771 1123519002612 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1123519002613 Cell division protein FtsL; Region: FtsL; pfam04999 1123519002614 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1123519002615 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1123519002616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1123519002617 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1123519002618 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1123519002619 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519002620 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1123519002621 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1123519002622 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 1123519002623 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519002624 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1123519002625 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1123519002626 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 1123519002627 Mg++ binding site [ion binding]; other site 1123519002628 putative catalytic motif [active] 1123519002629 putative substrate binding site [chemical binding]; other site 1123519002630 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1123519002631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519002632 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519002633 cell division protein FtsW; Region: ftsW; TIGR02614 1123519002634 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1123519002635 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 1123519002636 active site 1123519002637 homodimer interface [polypeptide binding]; other site 1123519002638 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1123519002639 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1123519002640 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519002641 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1123519002642 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1123519002643 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1123519002644 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1123519002645 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1123519002646 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1123519002647 Cell division protein FtsQ; Region: FtsQ; pfam03799 1123519002648 cell division protein FtsA; Region: ftsA; TIGR01174 1123519002649 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1123519002650 nucleotide binding site [chemical binding]; other site 1123519002651 Cell division protein FtsA; Region: FtsA; pfam14450 1123519002652 cell division protein FtsZ; Validated; Region: PRK09330 1123519002653 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 1123519002654 nucleotide binding site [chemical binding]; other site 1123519002655 SulA interaction site; other site 1123519002656 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1123519002657 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1123519002658 Ferritin-like domain; Region: Ferritin; pfam00210 1123519002659 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1123519002660 dinuclear metal binding motif [ion binding]; other site 1123519002661 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1123519002662 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1123519002663 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1123519002664 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1123519002665 NADP binding site [chemical binding]; other site 1123519002666 active site 1123519002667 putative substrate binding site [chemical binding]; other site 1123519002668 Predicted permeases [General function prediction only]; Region: COG0679 1123519002669 Predicted integral membrane protein [Function unknown]; Region: COG0392 1123519002670 potential frameshift: common BLAST hit: gi|339495406|ref|YP_004715699.1| fatty acid alpha hydroxylase 1123519002671 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1123519002672 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1123519002673 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 1123519002674 dimer interface [polypeptide binding]; other site 1123519002675 phosphorylation site [posttranslational modification] 1123519002676 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519002677 ATP binding site [chemical binding]; other site 1123519002678 Mg2+ binding site [ion binding]; other site 1123519002679 G-X-G motif; other site 1123519002680 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519002681 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519002682 active site 1123519002683 phosphorylation site [posttranslational modification] 1123519002684 intermolecular recognition site; other site 1123519002685 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519002686 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519002687 active site 1123519002688 phosphorylation site [posttranslational modification] 1123519002689 intermolecular recognition site; other site 1123519002690 dimerization interface [polypeptide binding]; other site 1123519002691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519002692 putative substrate translocation pore; other site 1123519002693 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1123519002694 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1123519002695 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1123519002696 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1123519002697 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1123519002698 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 1123519002699 purine monophosphate binding site [chemical binding]; other site 1123519002700 dimer interface [polypeptide binding]; other site 1123519002701 putative catalytic residues [active] 1123519002702 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1123519002703 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1123519002704 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1123519002705 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1123519002706 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1123519002707 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 1123519002708 FMN binding site [chemical binding]; other site 1123519002709 active site 1123519002710 catalytic residues [active] 1123519002711 substrate binding site [chemical binding]; other site 1123519002712 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 1123519002713 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 1123519002714 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1123519002715 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519002716 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1123519002717 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1123519002718 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1123519002719 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1123519002720 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1123519002721 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 1123519002722 carboxyltransferase (CT) interaction site; other site 1123519002723 biotinylation site [posttranslational modification]; other site 1123519002724 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 1123519002725 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1123519002726 trimer interface [polypeptide binding]; other site 1123519002727 active site 1123519002728 dimer interface [polypeptide binding]; other site 1123519002729 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1123519002730 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1123519002731 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1123519002732 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 1123519002733 DsbD alpha interface [polypeptide binding]; other site 1123519002734 catalytic residues [active] 1123519002735 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 1123519002736 iron-sulfur cluster [ion binding]; other site 1123519002737 [2Fe-2S] cluster binding site [ion binding]; other site 1123519002738 Protein of unknown function, DUF399; Region: DUF399; cl01139 1123519002739 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 1123519002740 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519002741 ligand binding site [chemical binding]; other site 1123519002742 flexible hinge region; other site 1123519002743 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1123519002744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 1123519002745 Predicted kinase [General function prediction only]; Region: COG0645 1123519002746 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 1123519002747 active site 1123519002748 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1123519002749 Transglycosylase; Region: Transgly; pfam00912 1123519002750 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1123519002751 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1123519002752 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1123519002753 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519002754 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 1123519002755 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1123519002756 PYR/PP interface [polypeptide binding]; other site 1123519002757 dimer interface [polypeptide binding]; other site 1123519002758 TPP binding site [chemical binding]; other site 1123519002759 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1123519002760 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 1123519002761 TPP-binding site [chemical binding]; other site 1123519002762 dimer interface [polypeptide binding]; other site 1123519002763 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1123519002764 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1123519002765 putative valine binding site [chemical binding]; other site 1123519002766 dimer interface [polypeptide binding]; other site 1123519002767 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1123519002768 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1123519002769 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1123519002770 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1123519002771 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1123519002772 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1123519002773 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1123519002774 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 1123519002775 Moco binding site; other site 1123519002776 metal coordination site [ion binding]; other site 1123519002777 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1123519002778 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519002779 cardiolipin synthase 2; Provisional; Region: PRK11263 1123519002780 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1123519002781 putative active site [active] 1123519002782 catalytic site [active] 1123519002783 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1123519002784 putative active site [active] 1123519002785 catalytic site [active] 1123519002786 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1123519002787 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1123519002788 conserved cys residue [active] 1123519002789 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1123519002790 putative fumarate hydratase; Provisional; Region: PRK15392 1123519002791 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1123519002792 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1123519002793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519002794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519002795 metal binding site [ion binding]; metal-binding site 1123519002796 active site 1123519002797 I-site; other site 1123519002798 pyruvate kinase; Provisional; Region: PRK05826 1123519002799 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 1123519002800 domain interfaces; other site 1123519002801 active site 1123519002802 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519002803 PilZ domain; Region: PilZ; pfam07238 1123519002804 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1123519002805 Protein of unknown function DUF58; Region: DUF58; pfam01882 1123519002806 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519002807 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1123519002808 Walker A motif; other site 1123519002809 ATP binding site [chemical binding]; other site 1123519002810 Walker B motif; other site 1123519002811 arginine finger; other site 1123519002812 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1123519002813 Integral membrane protein DUF95; Region: DUF95; pfam01944 1123519002814 RDD family; Region: RDD; pfam06271 1123519002815 exonuclease I; Provisional; Region: sbcB; PRK11779 1123519002816 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1123519002817 active site 1123519002818 catalytic site [active] 1123519002819 substrate binding site [chemical binding]; other site 1123519002820 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1123519002821 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1123519002822 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1123519002823 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1123519002824 putative active site [active] 1123519002825 putative substrate binding site [chemical binding]; other site 1123519002826 putative cosubstrate binding site; other site 1123519002827 catalytic site [active] 1123519002828 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1123519002829 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519002830 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1123519002831 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1123519002832 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1123519002833 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1123519002834 Substrate binding site; other site 1123519002835 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1123519002836 hypothetical protein; Validated; Region: PRK02101 1123519002837 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1123519002838 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1123519002839 putative active site [active] 1123519002840 PhoH-like protein; Region: PhoH; pfam02562 1123519002841 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 1123519002842 trimer interface [polypeptide binding]; other site 1123519002843 dimer interface [polypeptide binding]; other site 1123519002844 putative active site [active] 1123519002845 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1123519002846 MoaE interaction surface [polypeptide binding]; other site 1123519002847 MoeB interaction surface [polypeptide binding]; other site 1123519002848 thiocarboxylated glycine; other site 1123519002849 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 1123519002850 MoaE homodimer interface [polypeptide binding]; other site 1123519002851 MoaD interaction [polypeptide binding]; other site 1123519002852 active site residues [active] 1123519002853 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 1123519002854 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 1123519002855 ATP binding site [chemical binding]; other site 1123519002856 Mg++ binding site [ion binding]; other site 1123519002857 motif III; other site 1123519002858 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 1123519002859 nucleotide binding region [chemical binding]; other site 1123519002860 ATP-binding site [chemical binding]; other site 1123519002861 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1123519002862 putative hydrolase; Provisional; Region: PRK11460 1123519002863 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1123519002864 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 1123519002865 substrate binding pocket [chemical binding]; other site 1123519002866 membrane-bound complex binding site; other site 1123519002867 hinge residues; other site 1123519002868 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1123519002869 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1123519002870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1123519002871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519002872 dimer interface [polypeptide binding]; other site 1123519002873 conserved gate region; other site 1123519002874 putative PBP binding loops; other site 1123519002875 ABC-ATPase subunit interface; other site 1123519002876 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1123519002877 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1123519002878 Walker A/P-loop; other site 1123519002879 ATP binding site [chemical binding]; other site 1123519002880 Q-loop/lid; other site 1123519002881 ABC transporter signature motif; other site 1123519002882 Walker B; other site 1123519002883 D-loop; other site 1123519002884 H-loop/switch region; other site 1123519002885 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1123519002886 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 1123519002887 dimerization interface [polypeptide binding]; other site 1123519002888 ATP binding site [chemical binding]; other site 1123519002889 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 1123519002890 dimerization interface [polypeptide binding]; other site 1123519002891 ATP binding site [chemical binding]; other site 1123519002892 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1123519002893 putative active site [active] 1123519002894 catalytic triad [active] 1123519002895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1123519002896 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1123519002897 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 1123519002898 putative active site [active] 1123519002899 putative CoA binding site [chemical binding]; other site 1123519002900 nudix motif; other site 1123519002901 metal binding site [ion binding]; metal-binding site 1123519002902 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1123519002903 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 1123519002904 trimer interface [polypeptide binding]; other site 1123519002905 putative metal binding site [ion binding]; other site 1123519002906 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1123519002907 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1123519002908 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519002909 ATP-grasp domain; Region: ATP-grasp; pfam02222 1123519002910 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1123519002911 Domain of unknown function DUF21; Region: DUF21; pfam01595 1123519002912 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 1123519002913 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519002914 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1123519002915 signal recognition particle protein; Provisional; Region: PRK10867 1123519002916 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1123519002917 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 1123519002918 P loop; other site 1123519002919 GTP binding site [chemical binding]; other site 1123519002920 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1123519002921 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1123519002922 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1123519002923 RimM N-terminal domain; Region: RimM; pfam01782 1123519002924 PRC-barrel domain; Region: PRC; pfam05239 1123519002925 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1123519002926 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1123519002927 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 1123519002928 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1123519002929 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 1123519002930 active site 1123519002931 Int/Topo IB signature motif; other site 1123519002932 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 1123519002933 dimerization domain [polypeptide binding]; other site 1123519002934 dimer interface [polypeptide binding]; other site 1123519002935 catalytic residues [active] 1123519002936 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1123519002937 homoserine dehydrogenase; Provisional; Region: PRK06349 1123519002938 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1123519002939 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1123519002940 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 1123519002941 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1123519002942 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 1123519002943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519002944 catalytic residue [active] 1123519002945 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1123519002946 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1123519002947 dimer interface [polypeptide binding]; other site 1123519002948 catalytic site [active] 1123519002949 putative active site [active] 1123519002950 putative substrate binding site [chemical binding]; other site 1123519002951 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 1123519002952 active site 1123519002953 substrate binding pocket [chemical binding]; other site 1123519002954 dimer interface [polypeptide binding]; other site 1123519002955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1123519002956 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1123519002957 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1123519002958 mce related protein; Region: MCE; pfam02470 1123519002959 mce related protein; Region: MCE; pfam02470 1123519002960 mce related protein; Region: MCE; pfam02470 1123519002961 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 1123519002962 Paraquat-inducible protein A; Region: PqiA; pfam04403 1123519002963 Paraquat-inducible protein A; Region: PqiA; pfam04403 1123519002964 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1123519002965 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1123519002966 putative active site [active] 1123519002967 catalytic site [active] 1123519002968 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1123519002969 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1123519002970 putative active site [active] 1123519002971 catalytic site [active] 1123519002972 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519002973 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519002974 ligand binding site [chemical binding]; other site 1123519002975 argininosuccinate synthase; Provisional; Region: PRK13820 1123519002976 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 1123519002977 ANP binding site [chemical binding]; other site 1123519002978 Substrate Binding Site II [chemical binding]; other site 1123519002979 Substrate Binding Site I [chemical binding]; other site 1123519002980 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519002981 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1123519002982 dimer interface [polypeptide binding]; other site 1123519002983 active site 1123519002984 metal binding site [ion binding]; metal-binding site 1123519002985 glutathione binding site [chemical binding]; other site 1123519002986 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1123519002987 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1123519002988 minor groove reading motif; other site 1123519002989 helix-hairpin-helix signature motif; other site 1123519002990 substrate binding pocket [chemical binding]; other site 1123519002991 active site 1123519002992 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1123519002993 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1123519002994 FMN-binding domain; Region: FMN_bind; cl01081 1123519002995 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1123519002996 electron transport complex protein RnfC; Provisional; Region: PRK05035 1123519002997 SLBB domain; Region: SLBB; pfam10531 1123519002998 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 1123519002999 ferredoxin; Provisional; Region: PRK08764 1123519003000 Putative Fe-S cluster; Region: FeS; pfam04060 1123519003001 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1123519003002 electron transport complex protein RsxA; Provisional; Region: PRK05151 1123519003003 enoyl-CoA hydratase; Provisional; Region: PRK09076 1123519003004 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 1123519003005 substrate binding site [chemical binding]; other site 1123519003006 oxyanion hole (OAH) forming residues; other site 1123519003007 trimer interface [polypeptide binding]; other site 1123519003008 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1123519003009 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1123519003010 putative ligand binding site [chemical binding]; other site 1123519003011 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1123519003012 ligand binding site [chemical binding]; other site 1123519003013 active site 1123519003014 UGI interface [polypeptide binding]; other site 1123519003015 catalytic site [active] 1123519003016 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 1123519003017 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 1123519003018 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 1123519003019 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1123519003020 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1123519003021 L-aspartate oxidase; Provisional; Region: PRK09077 1123519003022 L-aspartate oxidase; Provisional; Region: PRK06175 1123519003023 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1123519003024 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1123519003025 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519003026 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 1123519003027 DNA binding residues [nucleotide binding] 1123519003028 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 1123519003029 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1123519003030 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1123519003031 MucB/RseB family; Region: MucB_RseB; pfam03888 1123519003032 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1123519003033 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1123519003034 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1123519003035 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1123519003036 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 1123519003037 protein binding site [polypeptide binding]; other site 1123519003038 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 1123519003039 protein binding site [polypeptide binding]; other site 1123519003040 GTP-binding protein LepA; Provisional; Region: PRK05433 1123519003041 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1123519003042 G1 box; other site 1123519003043 putative GEF interaction site [polypeptide binding]; other site 1123519003044 GTP/Mg2+ binding site [chemical binding]; other site 1123519003045 Switch I region; other site 1123519003046 G2 box; other site 1123519003047 G3 box; other site 1123519003048 Switch II region; other site 1123519003049 G4 box; other site 1123519003050 G5 box; other site 1123519003051 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 1123519003052 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 1123519003053 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1123519003054 signal peptidase I; Provisional; Region: PRK10861 1123519003055 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 1123519003056 Catalytic site [active] 1123519003057 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 1123519003058 ribonuclease III; Reviewed; Region: rnc; PRK00102 1123519003059 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 1123519003060 dimerization interface [polypeptide binding]; other site 1123519003061 active site 1123519003062 metal binding site [ion binding]; metal-binding site 1123519003063 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 1123519003064 dsRNA binding site [nucleotide binding]; other site 1123519003065 GTPase Era; Reviewed; Region: era; PRK00089 1123519003066 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1123519003067 G1 box; other site 1123519003068 GTP/Mg2+ binding site [chemical binding]; other site 1123519003069 Switch I region; other site 1123519003070 G2 box; other site 1123519003071 Switch II region; other site 1123519003072 G3 box; other site 1123519003073 G4 box; other site 1123519003074 G5 box; other site 1123519003075 KH domain; Region: KH_2; pfam07650 1123519003076 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1123519003077 Recombination protein O N terminal; Region: RecO_N; pfam11967 1123519003078 Recombination protein O C terminal; Region: RecO_C; pfam02565 1123519003079 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 1123519003080 active site 1123519003081 hydrophilic channel; other site 1123519003082 dimerization interface [polypeptide binding]; other site 1123519003083 catalytic residues [active] 1123519003084 active site lid [active] 1123519003085 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 1123519003086 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519003087 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 1123519003088 dimerization interface [polypeptide binding]; other site 1123519003089 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1123519003090 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003091 S-adenosylmethionine binding site [chemical binding]; other site 1123519003092 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003093 S-adenosylmethionine binding site [chemical binding]; other site 1123519003094 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 1123519003095 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1123519003096 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519003097 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519003098 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1123519003099 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519003100 Walker A motif; other site 1123519003101 ATP binding site [chemical binding]; other site 1123519003102 Walker B motif; other site 1123519003103 arginine finger; other site 1123519003104 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1123519003105 Protein of unknown function (DUF3203); Region: DUF3203; pfam11462 1123519003106 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1123519003107 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1123519003108 Na binding site [ion binding]; other site 1123519003109 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519003110 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1123519003111 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1123519003112 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 1123519003113 non-specific DNA binding site [nucleotide binding]; other site 1123519003114 salt bridge; other site 1123519003115 sequence-specific DNA binding site [nucleotide binding]; other site 1123519003116 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1123519003117 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 1123519003118 RNA binding surface [nucleotide binding]; other site 1123519003119 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1123519003120 active site 1123519003121 uracil binding [chemical binding]; other site 1123519003122 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 1123519003123 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1123519003124 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1123519003125 active site 1123519003126 HIGH motif; other site 1123519003127 KMSKS motif; other site 1123519003128 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1123519003129 tRNA binding surface [nucleotide binding]; other site 1123519003130 anticodon binding site; other site 1123519003131 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 1123519003132 dimer interface [polypeptide binding]; other site 1123519003133 putative tRNA-binding site [nucleotide binding]; other site 1123519003134 antiporter inner membrane protein; Provisional; Region: PRK11670 1123519003135 Domain of unknown function DUF59; Region: DUF59; pfam01883 1123519003136 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 1123519003137 Walker A motif; other site 1123519003138 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 1123519003139 DNA-binding site [nucleotide binding]; DNA binding site 1123519003140 RNA-binding motif; other site 1123519003141 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1123519003142 trimer interface [polypeptide binding]; other site 1123519003143 active site 1123519003144 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1123519003145 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1123519003146 Walker A/P-loop; other site 1123519003147 ATP binding site [chemical binding]; other site 1123519003148 Q-loop/lid; other site 1123519003149 ABC transporter signature motif; other site 1123519003150 Walker B; other site 1123519003151 D-loop; other site 1123519003152 H-loop/switch region; other site 1123519003153 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1123519003154 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1123519003155 Walker A/P-loop; other site 1123519003156 ATP binding site [chemical binding]; other site 1123519003157 Q-loop/lid; other site 1123519003158 ABC transporter signature motif; other site 1123519003159 Walker B; other site 1123519003160 D-loop; other site 1123519003161 H-loop/switch region; other site 1123519003162 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1123519003163 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1123519003164 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 1123519003165 TM-ABC transporter signature motif; other site 1123519003166 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519003167 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 1123519003168 TM-ABC transporter signature motif; other site 1123519003169 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1123519003170 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 1123519003171 dimerization interface [polypeptide binding]; other site 1123519003172 ligand binding site [chemical binding]; other site 1123519003173 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 1123519003174 Peptidase family M48; Region: Peptidase_M48; cl12018 1123519003175 CHASE2 domain; Region: CHASE2; cl01732 1123519003176 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1123519003177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1123519003178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519003179 dimer interface [polypeptide binding]; other site 1123519003180 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1123519003181 conserved gate region; other site 1123519003182 putative PBP binding loops; other site 1123519003183 ABC-ATPase subunit interface; other site 1123519003184 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 1123519003185 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519003186 Walker A/P-loop; other site 1123519003187 ATP binding site [chemical binding]; other site 1123519003188 Q-loop/lid; other site 1123519003189 ABC transporter signature motif; other site 1123519003190 Walker B; other site 1123519003191 D-loop; other site 1123519003192 H-loop/switch region; other site 1123519003193 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 1123519003194 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 1123519003195 substrate binding pocket [chemical binding]; other site 1123519003196 membrane-bound complex binding site; other site 1123519003197 hinge residues; other site 1123519003198 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 1123519003199 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 1123519003200 active site 1123519003201 Zn binding site [ion binding]; other site 1123519003202 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1123519003203 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1123519003204 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1123519003205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519003206 putative substrate translocation pore; other site 1123519003207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519003208 putative chaperone; Provisional; Region: PRK11678 1123519003209 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1123519003210 nucleotide binding site [chemical binding]; other site 1123519003211 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1123519003212 SBD interface [polypeptide binding]; other site 1123519003213 CHAD domain; Region: CHAD; pfam05235 1123519003214 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519003215 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519003216 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1123519003217 ATP-dependent helicase HepA; Validated; Region: PRK04914 1123519003218 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 1123519003219 ATP binding site [chemical binding]; other site 1123519003220 putative Mg++ binding site [ion binding]; other site 1123519003221 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 1123519003222 nucleotide binding region [chemical binding]; other site 1123519003223 ATP-binding site [chemical binding]; other site 1123519003224 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 1123519003225 (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 1123519003226 dimer interaction site [polypeptide binding]; other site 1123519003227 substrate-binding tunnel; other site 1123519003228 active site 1123519003229 catalytic site [active] 1123519003230 substrate binding site [chemical binding]; other site 1123519003231 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12492 1123519003232 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1123519003233 acyl-activating enzyme (AAE) consensus motif; other site 1123519003234 putative AMP binding site [chemical binding]; other site 1123519003235 putative active site [active] 1123519003236 putative CoA binding site [chemical binding]; other site 1123519003237 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 1123519003238 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1123519003239 acyl-activating enzyme (AAE) consensus motif; other site 1123519003240 putative AMP binding site [chemical binding]; other site 1123519003241 putative active site [active] 1123519003242 putative CoA binding site [chemical binding]; other site 1123519003243 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1123519003244 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 1123519003245 dimerization interface [polypeptide binding]; other site 1123519003246 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519003247 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519003248 dimer interface [polypeptide binding]; other site 1123519003249 putative CheW interface [polypeptide binding]; other site 1123519003250 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 1123519003251 ATP binding site [chemical binding]; other site 1123519003252 putative Mg++ binding site [ion binding]; other site 1123519003253 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 1123519003254 nucleotide binding region [chemical binding]; other site 1123519003255 ATP-binding site [chemical binding]; other site 1123519003256 Helicase associated domain (HA2); Region: HA2; pfam04408 1123519003257 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1123519003258 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1123519003259 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1123519003260 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519003261 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519003262 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 1123519003263 dimerization interface [polypeptide binding]; other site 1123519003264 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1123519003265 Predicted membrane protein [Function unknown]; Region: COG4541 1123519003266 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1123519003267 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 1123519003268 putative FMN binding site [chemical binding]; other site 1123519003269 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519003270 potential frameshift: common BLAST hit: gi|114797598|ref|YP_759221.1| signalling protein N terminal repeat/GGDEF/EAL domain-containing 1123519003271 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1123519003272 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519003273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519003274 putative substrate translocation pore; other site 1123519003275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519003276 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 1123519003277 dimer interface [polypeptide binding]; other site 1123519003278 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1123519003279 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1123519003280 glutamate carboxypeptidase; Reviewed; Region: PRK06133 1123519003281 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1123519003282 metal binding site [ion binding]; metal-binding site 1123519003283 dimer interface [polypeptide binding]; other site 1123519003284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1123519003285 MOSC domain; Region: MOSC; pfam03473 1123519003286 3-alpha domain; Region: 3-alpha; pfam03475 1123519003287 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1123519003288 HIT family signature motif; other site 1123519003289 catalytic residue [active] 1123519003290 Protein of unknown function (DUF445); Region: DUF445; pfam04286 1123519003291 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519003292 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519003293 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519003294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519003295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519003296 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519003297 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 1123519003298 C-terminal domain interface [polypeptide binding]; other site 1123519003299 GSH binding site (G-site) [chemical binding]; other site 1123519003300 dimer interface [polypeptide binding]; other site 1123519003301 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 1123519003302 dimer interface [polypeptide binding]; other site 1123519003303 N-terminal domain interface [polypeptide binding]; other site 1123519003304 Nitrate and nitrite sensing; Region: NIT; pfam08376 1123519003305 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519003306 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 1123519003307 dimerization interface [polypeptide binding]; other site 1123519003308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519003309 dimer interface [polypeptide binding]; other site 1123519003310 putative CheW interface [polypeptide binding]; other site 1123519003311 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 1123519003312 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 1123519003313 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1123519003314 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1123519003315 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 1123519003316 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 1123519003317 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 1123519003318 dimer interface [polypeptide binding]; other site 1123519003319 active site 1123519003320 CoA binding pocket [chemical binding]; other site 1123519003321 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1123519003322 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1123519003323 eyelet of channel; other site 1123519003324 trimer interface [polypeptide binding]; other site 1123519003325 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 1123519003326 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1123519003327 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1123519003328 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 1123519003329 substrate binding site [chemical binding]; other site 1123519003330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519003331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519003332 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1123519003333 dimerization interface [polypeptide binding]; other site 1123519003334 helicase 45; Provisional; Region: PTZ00424 1123519003335 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 1123519003336 ATP binding site [chemical binding]; other site 1123519003337 Mg++ binding site [ion binding]; other site 1123519003338 motif III; other site 1123519003339 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 1123519003340 nucleotide binding region [chemical binding]; other site 1123519003341 ATP-binding site [chemical binding]; other site 1123519003342 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1123519003343 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 1123519003344 active site 1123519003345 catalytic residues [active] 1123519003346 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 1123519003347 Methyltransferase domain; Region: Methyltransf_25; pfam13649 1123519003348 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 1123519003349 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 1123519003350 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1123519003351 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 1123519003352 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1123519003353 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1123519003354 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 1123519003355 RNA binding surface [nucleotide binding]; other site 1123519003356 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1123519003357 active site 1123519003358 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1123519003359 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1123519003360 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1123519003361 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1123519003362 Trp docking motif [polypeptide binding]; other site 1123519003363 putative active site [active] 1123519003364 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1123519003365 S1 domain; Region: S1_2; pfam13509 1123519003366 S1 domain; Region: S1_2; pfam13509 1123519003367 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1123519003368 transcriptional activator RfaH; Region: RfaH; TIGR01955 1123519003369 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1123519003370 heterodimer interface [polypeptide binding]; other site 1123519003371 homodimer interface [polypeptide binding]; other site 1123519003372 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1123519003373 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1123519003374 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1123519003375 SLBB domain; Region: SLBB; pfam10531 1123519003376 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1123519003377 Chain length determinant protein; Region: Wzz; cl15801 1123519003378 Chain length determinant protein; Region: Wzz; cl15801 1123519003379 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1123519003380 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 1123519003381 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1123519003382 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1123519003383 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1123519003384 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1123519003385 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1123519003386 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 1123519003387 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1123519003388 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1123519003389 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1123519003390 NADP-binding site; other site 1123519003391 homotetramer interface [polypeptide binding]; other site 1123519003392 substrate binding site [chemical binding]; other site 1123519003393 homodimer interface [polypeptide binding]; other site 1123519003394 active site 1123519003395 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1123519003396 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1123519003397 NADP binding site [chemical binding]; other site 1123519003398 active site 1123519003399 putative substrate binding site [chemical binding]; other site 1123519003400 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 1123519003401 active site 1123519003402 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519003403 active site 1123519003404 Uncharacterized conserved protein [Function unknown]; Region: COG5663 1123519003405 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1123519003406 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 1123519003407 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 1123519003408 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1123519003409 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 1123519003410 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 1123519003411 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 1123519003412 integrase; Provisional; Region: int; PHA02601 1123519003413 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 1123519003414 active site 1123519003415 DNA binding site [nucleotide binding] 1123519003416 Int/Topo IB signature motif; other site 1123519003417 Helix-turn-helix domain; Region: HTH_17; cl17695 1123519003418 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1123519003419 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 1123519003420 sequence-specific DNA binding site [nucleotide binding]; other site 1123519003421 salt bridge; other site 1123519003422 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1123519003423 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1123519003424 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1123519003425 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 1123519003426 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519003427 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 1123519003428 Predicted deacetylase [General function prediction only]; Region: COG3233 1123519003429 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 1123519003430 putative active site [active] 1123519003431 putative Zn binding site [ion binding]; other site 1123519003432 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1123519003433 CsbD-like; Region: CsbD; pfam05532 1123519003434 Ferredoxin [Energy production and conversion]; Region: COG1146 1123519003435 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1123519003436 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1123519003437 MutS domain I; Region: MutS_I; pfam01624 1123519003438 MutS domain II; Region: MutS_II; pfam05188 1123519003439 MutS domain III; Region: MutS_III; pfam05192 1123519003440 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1123519003441 Walker A/P-loop; other site 1123519003442 ATP binding site [chemical binding]; other site 1123519003443 Q-loop/lid; other site 1123519003444 ABC transporter signature motif; other site 1123519003445 Walker B; other site 1123519003446 D-loop; other site 1123519003447 H-loop/switch region; other site 1123519003448 Competence-damaged protein; Region: CinA; pfam02464 1123519003449 recombinase A; Provisional; Region: recA; PRK09354 1123519003450 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 1123519003451 hexamer interface [polypeptide binding]; other site 1123519003452 Walker A motif; other site 1123519003453 ATP binding site [chemical binding]; other site 1123519003454 Walker B motif; other site 1123519003455 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1123519003456 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 1123519003457 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003458 S-adenosylmethionine binding site [chemical binding]; other site 1123519003459 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1123519003460 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 1123519003461 Na binding site [ion binding]; other site 1123519003462 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519003463 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 1123519003464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519003465 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 1123519003466 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1123519003467 active site 1123519003468 catalytic tetrad [active] 1123519003469 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1123519003470 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 1123519003471 putative NAD(P) binding site [chemical binding]; other site 1123519003472 active site 1123519003473 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1123519003474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519003475 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 1123519003476 putative dimerization interface [polypeptide binding]; other site 1123519003477 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 1123519003478 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1123519003479 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 1123519003480 THF binding site; other site 1123519003481 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 1123519003482 substrate binding site [chemical binding]; other site 1123519003483 THF binding site; other site 1123519003484 zinc-binding site [ion binding]; other site 1123519003485 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 1123519003486 putative deacylase active site [active] 1123519003487 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1123519003488 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 1123519003489 substrate binding pocket [chemical binding]; other site 1123519003490 membrane-bound complex binding site; other site 1123519003491 hinge residues; other site 1123519003492 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 1123519003493 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519003494 catalytic residue [active] 1123519003495 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1123519003496 GIY-YIG motif/motif A; other site 1123519003497 putative active site [active] 1123519003498 putative metal binding site [ion binding]; other site 1123519003499 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519003500 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 1123519003501 C-terminal domain interface [polypeptide binding]; other site 1123519003502 GSH binding site (G-site) [chemical binding]; other site 1123519003503 dimer interface [polypeptide binding]; other site 1123519003504 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1123519003505 N-terminal domain interface [polypeptide binding]; other site 1123519003506 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1123519003507 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1123519003508 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519003509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519003510 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 1123519003511 dimerization interface [polypeptide binding]; other site 1123519003512 substrate binding pocket [chemical binding]; other site 1123519003513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519003514 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519003515 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1123519003516 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003517 S-adenosylmethionine binding site [chemical binding]; other site 1123519003518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519003519 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519003520 putative substrate translocation pore; other site 1123519003521 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 1123519003522 transmembrane helices; other site 1123519003523 TrkA-C domain; Region: TrkA_C; pfam02080 1123519003524 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1123519003525 TrkA-C domain; Region: TrkA_C; pfam02080 1123519003526 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 1123519003527 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 1123519003528 NHAD transporter family protein; Provisional; Region: PLN00137 1123519003529 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1123519003530 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1123519003531 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1123519003532 HIGH motif; other site 1123519003533 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1123519003534 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1123519003535 active site 1123519003536 KMSKS motif; other site 1123519003537 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1123519003538 tRNA binding surface [nucleotide binding]; other site 1123519003539 anticodon binding site; other site 1123519003540 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1123519003541 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1123519003542 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1123519003543 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 1123519003544 interface (dimer of trimers) [polypeptide binding]; other site 1123519003545 Substrate-binding/catalytic site; other site 1123519003546 Zn-binding sites [ion binding]; other site 1123519003547 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1123519003548 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1123519003549 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1123519003550 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1123519003551 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1123519003552 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1123519003553 active site 1123519003554 aromatic amino acid transporter; Provisional; Region: PRK10238 1123519003555 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1123519003556 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 1123519003557 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519003558 catalytic residue [active] 1123519003559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519003560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519003561 WHG domain; Region: WHG; pfam13305 1123519003562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1123519003563 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1123519003564 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1123519003565 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1123519003566 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1123519003567 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 1123519003568 Ligand binding site [chemical binding]; other site 1123519003569 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1123519003570 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1123519003571 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 1123519003572 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1123519003573 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519003574 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 1123519003575 substrate binding pocket [chemical binding]; other site 1123519003576 membrane-bound complex binding site; other site 1123519003577 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1123519003578 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519003579 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519003580 ligand binding site [chemical binding]; other site 1123519003581 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 1123519003582 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519003583 DNA-binding site [nucleotide binding]; DNA binding site 1123519003584 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 1123519003585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519003586 homodimer interface [polypeptide binding]; other site 1123519003587 catalytic residue [active] 1123519003588 CHASE4 domain; Region: CHASE4; pfam05228 1123519003589 PAS domain S-box; Region: sensory_box; TIGR00229 1123519003590 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 1123519003591 putative active site [active] 1123519003592 heme pocket [chemical binding]; other site 1123519003593 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519003594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519003595 metal binding site [ion binding]; metal-binding site 1123519003596 active site 1123519003597 I-site; other site 1123519003598 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 1123519003599 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 1123519003600 active site 1123519003601 dimer interface [polypeptide binding]; other site 1123519003602 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1123519003603 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1123519003604 NAD(P) binding site [chemical binding]; other site 1123519003605 substrate binding site [chemical binding]; other site 1123519003606 dimer interface [polypeptide binding]; other site 1123519003607 short chain dehydrogenase; Provisional; Region: PRK06172 1123519003608 classical (c) SDRs; Region: SDR_c; cd05233 1123519003609 NAD(P) binding site [chemical binding]; other site 1123519003610 active site 1123519003611 benzoate transporter; Region: benE; TIGR00843 1123519003612 Benzoate membrane transport protein; Region: BenE; pfam03594 1123519003613 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1123519003614 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1123519003615 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1123519003616 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1123519003617 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1123519003618 MgtE intracellular N domain; Region: MgtE_N; smart00924 1123519003619 FliG C-terminal domain; Region: FliG_C; pfam01706 1123519003620 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1123519003621 Flagellar assembly protein FliH; Region: FliH; pfam02108 1123519003622 flagellum-specific ATP synthase; Validated; Region: fliI; PRK05688 1123519003623 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 1123519003624 Walker A motif/ATP binding site; other site 1123519003625 Walker B motif; other site 1123519003626 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1123519003627 Flagellar FliJ protein; Region: FliJ; pfam02050 1123519003628 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 1123519003629 anti sigma factor interaction site; other site 1123519003630 regulatory phosphorylation site [posttranslational modification]; other site 1123519003631 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519003632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519003633 active site 1123519003634 phosphorylation site [posttranslational modification] 1123519003635 intermolecular recognition site; other site 1123519003636 dimerization interface [polypeptide binding]; other site 1123519003637 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1123519003638 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1123519003639 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1123519003640 ATP binding site [chemical binding]; other site 1123519003641 Mg2+ binding site [ion binding]; other site 1123519003642 G-X-G motif; other site 1123519003643 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 1123519003644 putative binding surface; other site 1123519003645 active site 1123519003646 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1123519003647 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1123519003648 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1123519003649 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1123519003650 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1123519003651 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1123519003652 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1123519003653 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1123519003654 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1123519003655 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1123519003656 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1123519003657 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1123519003658 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1123519003659 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1123519003660 E-class dimer interface [polypeptide binding]; other site 1123519003661 P-class dimer interface [polypeptide binding]; other site 1123519003662 active site 1123519003663 Cu2+ binding site [ion binding]; other site 1123519003664 Zn2+ binding site [ion binding]; other site 1123519003665 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 1123519003666 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1123519003667 FHIPEP family; Region: FHIPEP; pfam00771 1123519003668 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1123519003669 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 1123519003670 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1123519003671 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 1123519003672 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 1123519003673 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1123519003674 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519003675 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1123519003676 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 1123519003677 DNA binding residues [nucleotide binding] 1123519003678 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1123519003679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519003680 active site 1123519003681 phosphorylation site [posttranslational modification] 1123519003682 intermolecular recognition site; other site 1123519003683 dimerization interface [polypeptide binding]; other site 1123519003684 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1123519003685 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 1123519003686 putative binding surface; other site 1123519003687 active site 1123519003688 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1123519003689 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1123519003690 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519003691 ATP binding site [chemical binding]; other site 1123519003692 Mg2+ binding site [ion binding]; other site 1123519003693 G-X-G motif; other site 1123519003694 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 1123519003695 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1123519003696 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519003697 active site 1123519003698 phosphorylation site [posttranslational modification] 1123519003699 intermolecular recognition site; other site 1123519003700 dimerization interface [polypeptide binding]; other site 1123519003701 CheB methylesterase; Region: CheB_methylest; pfam01339 1123519003702 flagellar motor protein; Reviewed; Region: motC; PRK09109 1123519003703 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1123519003704 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 1123519003705 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1123519003706 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519003707 ligand binding site [chemical binding]; other site 1123519003708 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1123519003709 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 1123519003710 P-loop; other site 1123519003711 Magnesium ion binding site [ion binding]; other site 1123519003712 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 1123519003713 Magnesium ion binding site [ion binding]; other site 1123519003714 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 1123519003715 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 1123519003716 putative CheA interaction surface; other site 1123519003717 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1123519003718 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 1123519003719 active site residue [active] 1123519003720 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1123519003721 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1123519003722 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1123519003723 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1123519003724 Walker A/P-loop; other site 1123519003725 ATP binding site [chemical binding]; other site 1123519003726 Q-loop/lid; other site 1123519003727 ABC transporter signature motif; other site 1123519003728 Walker B; other site 1123519003729 D-loop; other site 1123519003730 H-loop/switch region; other site 1123519003731 CcmB protein; Region: CcmB; cl17444 1123519003732 heme exporter protein CcmC; Region: ccmC; TIGR01191 1123519003733 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1123519003734 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1123519003735 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1123519003736 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1123519003737 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 1123519003738 catalytic residues [active] 1123519003739 central insert; other site 1123519003740 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1123519003741 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1123519003742 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 1123519003743 TPR motif; other site 1123519003744 TPR repeat; Region: TPR_11; pfam13414 1123519003745 binding surface 1123519003746 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519003747 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1123519003748 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519003749 Walker A motif; other site 1123519003750 ATP binding site [chemical binding]; other site 1123519003751 Walker B motif; other site 1123519003752 arginine finger; other site 1123519003753 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519003754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519003755 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 1123519003756 dimer interface [polypeptide binding]; other site 1123519003757 phosphorylation site [posttranslational modification] 1123519003758 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519003759 ATP binding site [chemical binding]; other site 1123519003760 Mg2+ binding site [ion binding]; other site 1123519003761 G-X-G motif; other site 1123519003762 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519003763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519003764 active site 1123519003765 phosphorylation site [posttranslational modification] 1123519003766 intermolecular recognition site; other site 1123519003767 dimerization interface [polypeptide binding]; other site 1123519003768 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519003769 Walker A motif; other site 1123519003770 ATP binding site [chemical binding]; other site 1123519003771 Walker B motif; other site 1123519003772 arginine finger; other site 1123519003773 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519003774 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 1123519003775 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1123519003776 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1123519003777 heat shock protein HtpX; Provisional; Region: PRK05457 1123519003778 aminotransferase AlaT; Validated; Region: PRK09265 1123519003779 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 1123519003780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519003781 homodimer interface [polypeptide binding]; other site 1123519003782 catalytic residue [active] 1123519003783 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1123519003784 SelR domain; Region: SelR; pfam01641 1123519003785 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 1123519003786 catalytic residues [active] 1123519003787 dimer interface [polypeptide binding]; other site 1123519003788 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1123519003789 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519003790 Walker A motif; other site 1123519003791 ATP binding site [chemical binding]; other site 1123519003792 Walker B motif; other site 1123519003793 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519003794 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 1123519003795 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1123519003796 N-terminal domain interface [polypeptide binding]; other site 1123519003797 dimer interface [polypeptide binding]; other site 1123519003798 substrate binding pocket (H-site) [chemical binding]; other site 1123519003799 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 1123519003800 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1123519003801 ZIP Zinc transporter; Region: Zip; pfam02535 1123519003802 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 1123519003803 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1123519003804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 1123519003805 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 1123519003806 elongation factor P; Validated; Region: PRK00529 1123519003807 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1123519003808 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 1123519003809 RNA binding site [nucleotide binding]; other site 1123519003810 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 1123519003811 RNA binding site [nucleotide binding]; other site 1123519003812 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1123519003813 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 1123519003814 transmembrane helices; other site 1123519003815 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1123519003816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003817 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1123519003818 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1123519003819 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 1123519003820 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1123519003821 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1123519003822 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1123519003823 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 1123519003824 [4Fe-4S] binding site [ion binding]; other site 1123519003825 molybdopterin cofactor binding site; other site 1123519003826 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 1123519003827 molybdopterin cofactor binding site; other site 1123519003828 NapD protein; Region: NapD; pfam03927 1123519003829 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 1123519003830 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1123519003831 hypothetical protein; Provisional; Region: PRK04860 1123519003832 SprT homologues; Region: SprT; cl01182 1123519003833 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1123519003834 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1123519003835 DNA-J related protein; Region: DNAJ_related; pfam12339 1123519003836 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1123519003837 HSP70 interaction site [polypeptide binding]; other site 1123519003838 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1123519003839 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 1123519003840 Ligand Binding Site [chemical binding]; other site 1123519003841 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1123519003842 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1123519003843 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1123519003844 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1123519003845 NlpC/P60 family; Region: NLPC_P60; pfam00877 1123519003846 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1123519003847 NlpC/P60 family; Region: NLPC_P60; pfam00877 1123519003848 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1123519003849 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1123519003850 active site 1123519003851 metal binding site [ion binding]; metal-binding site 1123519003852 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 1123519003853 catalytic residues [active] 1123519003854 dimer interface [polypeptide binding]; other site 1123519003855 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 1123519003856 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1123519003857 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 1123519003858 active site residue [active] 1123519003859 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 1123519003860 active site residue [active] 1123519003861 ribonuclease D; Region: rnd; TIGR01388 1123519003862 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1123519003863 catalytic site [active] 1123519003864 putative active site [active] 1123519003865 putative substrate binding site [chemical binding]; other site 1123519003866 HRDC domain; Region: HRDC; cl02578 1123519003867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 1123519003868 hypothetical protein; Provisional; Region: PRK05170 1123519003869 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1123519003870 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1123519003871 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 1123519003872 motif 1; other site 1123519003873 active site 1123519003874 motif 2; other site 1123519003875 motif 3; other site 1123519003876 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1123519003877 aspartate kinase; Reviewed; Region: PRK06635 1123519003878 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 1123519003879 putative nucleotide binding site [chemical binding]; other site 1123519003880 putative catalytic residues [active] 1123519003881 putative Mg ion binding site [ion binding]; other site 1123519003882 putative aspartate binding site [chemical binding]; other site 1123519003883 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 1123519003884 putative allosteric regulatory site; other site 1123519003885 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 1123519003886 putative allosteric regulatory residue; other site 1123519003887 carbon storage regulator; Provisional; Region: PRK01712 1123519003888 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519003889 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1123519003890 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1123519003891 MgtE intracellular N domain; Region: MgtE_N; smart00924 1123519003892 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 1123519003893 Arc-like DNA binding domain; Region: Arc; pfam03869 1123519003894 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1123519003895 PilZ domain; Region: PilZ; pfam07238 1123519003896 FlgN protein; Region: FlgN; pfam05130 1123519003897 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 1123519003898 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1123519003899 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1123519003900 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1123519003901 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1123519003902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519003903 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519003904 active site 1123519003905 phosphorylation site [posttranslational modification] 1123519003906 intermolecular recognition site; other site 1123519003907 dimerization interface [polypeptide binding]; other site 1123519003908 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1123519003909 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1123519003910 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003911 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1123519003912 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1123519003913 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1123519003914 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1123519003915 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519003916 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1123519003917 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1123519003918 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1123519003919 flagellar hook protein FlgE; Provisional; Region: flgE; PRK12637 1123519003920 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1123519003921 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1123519003922 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519003923 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1123519003924 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1123519003925 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1123519003926 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1123519003927 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519003928 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1123519003929 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1123519003930 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1123519003931 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1123519003932 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1123519003933 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1123519003934 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 1123519003935 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1123519003936 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1123519003937 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1123519003938 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1123519003939 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1123519003940 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 1123519003941 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 1123519003942 salt bridge; other site 1123519003943 non-specific DNA binding site [nucleotide binding]; other site 1123519003944 sequence-specific DNA binding site [nucleotide binding]; other site 1123519003945 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 1123519003946 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 1123519003947 carboxy-terminal protease; Provisional; Region: PRK11186 1123519003948 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1123519003949 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 1123519003950 protein binding site [polypeptide binding]; other site 1123519003951 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1123519003952 Catalytic dyad [active] 1123519003953 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1123519003954 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1123519003955 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1123519003956 NAD(P) binding site [chemical binding]; other site 1123519003957 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 1123519003958 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 1123519003959 active site 1123519003960 metal binding site [ion binding]; metal-binding site 1123519003961 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519003962 S-adenosylmethionine binding site [chemical binding]; other site 1123519003963 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1123519003964 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1123519003965 active site 1123519003966 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1123519003967 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1123519003968 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 1123519003969 Switch I; other site 1123519003970 Switch II; other site 1123519003971 septum formation inhibitor; Reviewed; Region: minC; PRK00339 1123519003972 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1123519003973 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1123519003974 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1123519003975 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1123519003976 putative acyl-acceptor binding pocket; other site 1123519003977 VacJ like lipoprotein; Region: VacJ; cl01073 1123519003978 Predicted membrane protein [Function unknown]; Region: COG3162 1123519003979 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1123519003980 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1123519003981 Na binding site [ion binding]; other site 1123519003982 short chain dehydrogenase; Provisional; Region: PRK05650 1123519003983 classical (c) SDRs; Region: SDR_c; cd05233 1123519003984 NAD(P) binding site [chemical binding]; other site 1123519003985 active site 1123519003986 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1123519003987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519003988 putative substrate translocation pore; other site 1123519003989 hypothetical protein; Provisional; Region: PRK00304 1123519003990 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1123519003991 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 1123519003992 putative oligomer interface [polypeptide binding]; other site 1123519003993 putative active site [active] 1123519003994 metal binding site [ion binding]; metal-binding site 1123519003995 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 1123519003996 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519003997 Coenzyme A binding pocket [chemical binding]; other site 1123519003998 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1123519003999 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 1123519004000 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 1123519004001 active site 1123519004002 dimer interface [polypeptide binding]; other site 1123519004003 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 1123519004004 Ligand Binding Site [chemical binding]; other site 1123519004005 Molecular Tunnel; other site 1123519004006 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519004007 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004008 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 1123519004009 dimerization interface [polypeptide binding]; other site 1123519004010 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1123519004011 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1123519004012 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1123519004013 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 1123519004014 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1123519004015 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 1123519004016 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 1123519004017 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 1123519004018 dimer interface [polypeptide binding]; other site 1123519004019 active site 1123519004020 fumarate hydratase; Provisional; Region: PRK12425 1123519004021 Class II fumarases; Region: Fumarase_classII; cd01362 1123519004022 active site 1123519004023 tetramer interface [polypeptide binding]; other site 1123519004024 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 1123519004025 BolA-like protein; Region: BolA; pfam01722 1123519004026 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1123519004027 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1123519004028 active site residue [active] 1123519004029 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 1123519004030 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 1123519004031 catalytic residues [active] 1123519004032 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1123519004033 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519004034 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1123519004035 Walker A/P-loop; other site 1123519004036 ATP binding site [chemical binding]; other site 1123519004037 Q-loop/lid; other site 1123519004038 ABC transporter signature motif; other site 1123519004039 Walker B; other site 1123519004040 D-loop; other site 1123519004041 H-loop/switch region; other site 1123519004042 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 1123519004043 dimerization interface [polypeptide binding]; other site 1123519004044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519004045 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519004046 dimer interface [polypeptide binding]; other site 1123519004047 putative CheW interface [polypeptide binding]; other site 1123519004048 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 1123519004049 hypothetical protein; Provisional; Region: PRK09256 1123519004050 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1123519004051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519004052 putative substrate translocation pore; other site 1123519004053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519004054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004055 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 1123519004056 putative dimerization interface [polypeptide binding]; other site 1123519004057 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1123519004058 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 1123519004059 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 1123519004060 active site 2 [active] 1123519004061 active site 1 [active] 1123519004062 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519004063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519004064 active site 1123519004065 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 1123519004066 dimer interface [polypeptide binding]; other site 1123519004067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519004068 metal binding site [ion binding]; metal-binding site 1123519004069 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1123519004070 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1123519004071 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1123519004072 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1123519004073 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519004074 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519004075 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1123519004076 active site 1123519004077 catalytic residues [active] 1123519004078 metal binding site [ion binding]; metal-binding site 1123519004079 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1123519004080 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1123519004081 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519004082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004083 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 1123519004084 putative dimerization interface [polypeptide binding]; other site 1123519004085 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519004086 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519004087 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1123519004088 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1123519004089 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1123519004090 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1123519004091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519004092 Walker A/P-loop; other site 1123519004093 ATP binding site [chemical binding]; other site 1123519004094 ABC transporter; Region: ABC_tran; pfam00005 1123519004095 Q-loop/lid; other site 1123519004096 ABC transporter signature motif; other site 1123519004097 Walker B; other site 1123519004098 D-loop; other site 1123519004099 H-loop/switch region; other site 1123519004100 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1123519004101 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519004102 dimer interface [polypeptide binding]; other site 1123519004103 conserved gate region; other site 1123519004104 putative PBP binding loops; other site 1123519004105 ABC-ATPase subunit interface; other site 1123519004106 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1123519004107 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1123519004108 acetyl-CoA synthetase; Provisional; Region: PRK00174 1123519004109 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1123519004110 active site 1123519004111 CoA binding site [chemical binding]; other site 1123519004112 acyl-activating enzyme (AAE) consensus motif; other site 1123519004113 AMP binding site [chemical binding]; other site 1123519004114 acetate binding site [chemical binding]; other site 1123519004115 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1123519004116 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519004117 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 1123519004118 active site residue [active] 1123519004119 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1123519004120 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1123519004121 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1123519004122 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 1123519004123 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1123519004124 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1123519004125 NAD(P) binding site [chemical binding]; other site 1123519004126 catalytic residues [active] 1123519004127 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1123519004128 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519004129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004130 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 1123519004131 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 1123519004132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1123519004133 Zn2+ binding site [ion binding]; other site 1123519004134 Mg2+ binding site [ion binding]; other site 1123519004135 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1123519004136 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 1123519004137 substrate binding site [chemical binding]; other site 1123519004138 oxyanion hole (OAH) forming residues; other site 1123519004139 trimer interface [polypeptide binding]; other site 1123519004140 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1123519004141 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 1123519004142 inhibitor-cofactor binding pocket; inhibition site 1123519004143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004144 catalytic residue [active] 1123519004145 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1123519004146 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1123519004147 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1123519004148 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 1123519004149 substrate binding site [chemical binding]; other site 1123519004150 oxyanion hole (OAH) forming residues; other site 1123519004151 trimer interface [polypeptide binding]; other site 1123519004152 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1123519004153 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1123519004154 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1123519004155 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 1123519004156 dimer interface [polypeptide binding]; other site 1123519004157 active site 1123519004158 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1123519004159 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1123519004160 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 1123519004161 active site 1123519004162 interdomain interaction site; other site 1123519004163 putative metal-binding site [ion binding]; other site 1123519004164 nucleotide binding site [chemical binding]; other site 1123519004165 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 1123519004166 domain I; other site 1123519004167 DNA binding groove [nucleotide binding] 1123519004168 phosphate binding site [ion binding]; other site 1123519004169 domain II; other site 1123519004170 domain III; other site 1123519004171 nucleotide binding site [chemical binding]; other site 1123519004172 catalytic site [active] 1123519004173 domain IV; other site 1123519004174 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1123519004175 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1123519004176 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1123519004177 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1123519004178 Cell division inhibitor SulA; Region: SulA; cl01880 1123519004179 LexA repressor; Validated; Region: PRK00215 1123519004180 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1123519004181 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 1123519004182 Catalytic site [active] 1123519004183 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519004184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519004185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1123519004186 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1123519004187 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1123519004188 beta-hexosaminidase; Provisional; Region: PRK05337 1123519004189 Water Stress and Hypersensitive response; Region: WHy; smart00769 1123519004190 SEC-C motif; Region: SEC-C; pfam02810 1123519004191 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1123519004192 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1123519004193 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 1123519004194 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 1123519004195 active site 1123519004196 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1123519004197 homodimer interaction site [polypeptide binding]; other site 1123519004198 cofactor binding site; other site 1123519004199 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1123519004200 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1123519004201 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 1123519004202 FeS/SAM binding site; other site 1123519004203 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1123519004204 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1123519004205 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 1123519004206 active site 1123519004207 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519004208 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 1123519004209 putative ADP-binding pocket [chemical binding]; other site 1123519004210 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519004211 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1123519004212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519004213 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 1123519004214 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1123519004215 transcriptional activator RfaH; Region: RfaH; TIGR01955 1123519004216 WbqC-like protein family; Region: WbqC; pfam08889 1123519004217 tyrosine kinase; Provisional; Region: PRK11519 1123519004218 Chain length determinant protein; Region: Wzz; pfam02706 1123519004219 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1123519004220 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 1123519004221 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1123519004222 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 1123519004223 active site 1123519004224 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1123519004225 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1123519004226 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1123519004227 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 1123519004228 inhibitor-cofactor binding pocket; inhibition site 1123519004229 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004230 catalytic residue [active] 1123519004231 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519004232 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1123519004233 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1123519004234 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1123519004235 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 1123519004236 FMN binding site [chemical binding]; other site 1123519004237 active site 1123519004238 catalytic residues [active] 1123519004239 substrate binding site [chemical binding]; other site 1123519004240 short chain dehydrogenase; Provisional; Region: PRK06123 1123519004241 classical (c) SDRs; Region: SDR_c; cd05233 1123519004242 NAD(P) binding site [chemical binding]; other site 1123519004243 active site 1123519004244 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1123519004245 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 1123519004246 putative dimer interface [polypeptide binding]; other site 1123519004247 PAS fold; Region: PAS; pfam00989 1123519004248 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 1123519004249 PAS fold; Region: PAS_3; pfam08447 1123519004250 putative active site [active] 1123519004251 heme pocket [chemical binding]; other site 1123519004252 PAS domain S-box; Region: sensory_box; TIGR00229 1123519004253 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 1123519004254 putative active site [active] 1123519004255 heme pocket [chemical binding]; other site 1123519004256 PAS domain S-box; Region: sensory_box; TIGR00229 1123519004257 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 1123519004258 putative active site [active] 1123519004259 heme pocket [chemical binding]; other site 1123519004260 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519004261 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519004262 metal binding site [ion binding]; metal-binding site 1123519004263 active site 1123519004264 I-site; other site 1123519004265 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 1123519004266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519004267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004268 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 1123519004269 dimerization interface [polypeptide binding]; other site 1123519004270 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1123519004271 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1123519004272 substrate binding site [chemical binding]; other site 1123519004273 ligand binding site [chemical binding]; other site 1123519004274 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1123519004275 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 1123519004276 substrate binding site [chemical binding]; other site 1123519004277 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1123519004278 tartrate dehydrogenase; Region: TTC; TIGR02089 1123519004279 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1123519004280 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1123519004281 FimV N-terminal domain; Region: FimV_core; TIGR03505 1123519004282 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1123519004283 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1123519004284 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1123519004285 dimerization interface 3.5A [polypeptide binding]; other site 1123519004286 active site 1123519004287 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 1123519004288 active site 1123519004289 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1123519004290 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1123519004291 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1123519004292 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519004293 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1123519004294 Sporulation related domain; Region: SPOR; pfam05036 1123519004295 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1123519004296 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519004297 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519004298 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1123519004299 Colicin V production protein; Region: Colicin_V; cl00567 1123519004300 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1123519004301 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 1123519004302 active site 1123519004303 tetramer interface [polypeptide binding]; other site 1123519004304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519004305 active site 1123519004306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 1123519004307 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 1123519004308 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 1123519004309 homodimer interface [polypeptide binding]; other site 1123519004310 substrate-cofactor binding pocket; other site 1123519004311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004312 catalytic residue [active] 1123519004313 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1123519004314 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1123519004315 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1123519004316 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1123519004317 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1123519004318 Sporulation related domain; Region: SPOR; pfam05036 1123519004319 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1123519004320 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; cl08066 1123519004321 HTH-like domain; Region: HTH_21; pfam13276 1123519004322 Integrase core domain; Region: rve; pfam00665 1123519004323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1123519004324 Transposase; Region: HTH_Tnp_1; pfam01527 1123519004325 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519004326 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1123519004327 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1123519004328 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 1123519004329 nudix motif; other site 1123519004330 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1123519004331 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519004332 integron integrase; Region: integrase_gron; TIGR02249 1123519004333 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1123519004334 Int/Topo IB signature motif; other site 1123519004335 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 1123519004336 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519004337 Walker A/P-loop; other site 1123519004338 ATP binding site [chemical binding]; other site 1123519004339 Q-loop/lid; other site 1123519004340 ABC transporter signature motif; other site 1123519004341 Walker B; other site 1123519004342 D-loop; other site 1123519004343 H-loop/switch region; other site 1123519004344 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 1123519004345 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1123519004346 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 1123519004347 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 1123519004348 DNA-binding site [nucleotide binding]; DNA binding site 1123519004349 RNA-binding motif; other site 1123519004350 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1123519004351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519004352 S-adenosylmethionine binding site [chemical binding]; other site 1123519004353 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1123519004354 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1123519004355 metal binding site [ion binding]; metal-binding site 1123519004356 dimer interface [polypeptide binding]; other site 1123519004357 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1123519004358 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 1123519004359 putative ATP binding site [chemical binding]; other site 1123519004360 putative substrate interface [chemical binding]; other site 1123519004361 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1123519004362 Fe-S metabolism associated domain; Region: SufE; cl00951 1123519004363 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1123519004364 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 1123519004365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519004366 catalytic residue [active] 1123519004367 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 1123519004368 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 1123519004369 putative trimer interface [polypeptide binding]; other site 1123519004370 putative CoA binding site [chemical binding]; other site 1123519004371 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 1123519004372 ArsC family; Region: ArsC; pfam03960 1123519004373 putative catalytic residues [active] 1123519004374 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 1123519004375 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519004376 catalytic residues [active] 1123519004377 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 1123519004378 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 1123519004379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004380 homodimer interface [polypeptide binding]; other site 1123519004381 catalytic residue [active] 1123519004382 Predicted membrane protein [Function unknown]; Region: COG3650 1123519004383 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1123519004384 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1123519004385 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1123519004386 active site 1123519004387 substrate binding site [chemical binding]; other site 1123519004388 cosubstrate binding site; other site 1123519004389 catalytic site [active] 1123519004390 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1123519004391 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 1123519004392 dimerization interface [polypeptide binding]; other site 1123519004393 putative ATP binding site [chemical binding]; other site 1123519004394 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1123519004395 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1123519004396 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1123519004397 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1123519004398 DNA replication initiation factor; Validated; Region: PRK05642 1123519004399 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1123519004400 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1123519004401 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1123519004402 Predicted membrane protein [Function unknown]; Region: COG3308 1123519004403 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1123519004404 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519004405 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 1123519004406 ArsC family; Region: ArsC; pfam03960 1123519004407 catalytic residues [active] 1123519004408 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1123519004409 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 1123519004410 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519004411 catalytic residues [active] 1123519004412 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1123519004413 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 1123519004414 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519004415 catalytic residue [active] 1123519004416 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1123519004417 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 1123519004418 dimer interface [polypeptide binding]; other site 1123519004419 motif 1; other site 1123519004420 active site 1123519004421 motif 2; other site 1123519004422 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 1123519004423 putative deacylase active site [active] 1123519004424 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 1123519004425 active site 1123519004426 motif 3; other site 1123519004427 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 1123519004428 anticodon binding site; other site 1123519004429 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519004430 HIT domain; Region: HIT; pfam01230 1123519004431 nucleotide binding site/active site [active] 1123519004432 HIT family signature motif; other site 1123519004433 catalytic residue [active] 1123519004434 hypothetical protein; Provisional; Region: PRK00295 1123519004435 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 1123519004436 DNA-binding site [nucleotide binding]; DNA binding site 1123519004437 RNA-binding motif; other site 1123519004438 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1123519004439 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1123519004440 dimerization interface [polypeptide binding]; other site 1123519004441 DPS ferroxidase diiron center [ion binding]; other site 1123519004442 ion pore; other site 1123519004443 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1123519004444 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 1123519004445 dimer interface [polypeptide binding]; other site 1123519004446 anticodon binding site; other site 1123519004447 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 1123519004448 homodimer interface [polypeptide binding]; other site 1123519004449 motif 1; other site 1123519004450 active site 1123519004451 motif 2; other site 1123519004452 GAD domain; Region: GAD; pfam02938 1123519004453 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 1123519004454 active site 1123519004455 motif 3; other site 1123519004456 hypothetical protein; Validated; Region: PRK00110 1123519004457 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 1123519004458 active site 1123519004459 putative DNA-binding cleft [nucleotide binding]; other site 1123519004460 dimer interface [polypeptide binding]; other site 1123519004461 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1123519004462 RuvA N terminal domain; Region: RuvA_N; pfam01330 1123519004463 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1123519004464 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1123519004465 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519004466 Walker A motif; other site 1123519004467 ATP binding site [chemical binding]; other site 1123519004468 Walker B motif; other site 1123519004469 arginine finger; other site 1123519004470 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1123519004471 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 1123519004472 active site 1123519004473 TolQ protein; Region: tolQ; TIGR02796 1123519004474 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1123519004475 TolR protein; Region: tolR; TIGR02801 1123519004476 TolA protein; Region: tolA_full; TIGR02794 1123519004477 TolA protein; Region: tolA_full; TIGR02794 1123519004478 TonB C terminal; Region: TonB_2; pfam13103 1123519004479 translocation protein TolB; Provisional; Region: tolB; PRK00178 1123519004480 TolB amino-terminal domain; Region: TolB_N; pfam04052 1123519004481 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1123519004482 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1123519004483 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1123519004484 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519004485 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519004486 ligand binding site [chemical binding]; other site 1123519004487 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1123519004488 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 1123519004489 binding surface 1123519004490 TPR motif; other site 1123519004491 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 1123519004492 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 1123519004493 FeS/SAM binding site; other site 1123519004494 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 1123519004495 Ligand Binding Site [chemical binding]; other site 1123519004496 quinolinate synthetase; Provisional; Region: PRK09375 1123519004497 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1123519004498 Peptidase family M48; Region: Peptidase_M48; cl12018 1123519004499 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 1123519004500 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1123519004501 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 1123519004502 catalytic triad [active] 1123519004503 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1123519004504 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1123519004505 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 1123519004506 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1123519004507 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1123519004508 dimer interface [polypeptide binding]; other site 1123519004509 active site 1123519004510 catalytic residue [active] 1123519004511 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1123519004512 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 1123519004513 ATP binding site [chemical binding]; other site 1123519004514 active site 1123519004515 substrate binding site [chemical binding]; other site 1123519004516 integrase; Provisional; Region: int; PHA02601 1123519004517 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 1123519004518 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 1123519004519 active site 1123519004520 DNA binding site [nucleotide binding] 1123519004521 Int/Topo IB signature motif; other site 1123519004522 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 1123519004523 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1123519004524 DNA binding residues [nucleotide binding] 1123519004525 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519004526 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1123519004527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519004528 Coenzyme A binding pocket [chemical binding]; other site 1123519004529 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 1123519004530 dimer interface [polypeptide binding]; other site 1123519004531 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1123519004532 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1123519004533 Walker A/P-loop; other site 1123519004534 ATP binding site [chemical binding]; other site 1123519004535 Q-loop/lid; other site 1123519004536 ABC transporter signature motif; other site 1123519004537 Walker B; other site 1123519004538 D-loop; other site 1123519004539 H-loop/switch region; other site 1123519004540 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1123519004541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519004542 dimer interface [polypeptide binding]; other site 1123519004543 conserved gate region; other site 1123519004544 putative PBP binding loops; other site 1123519004545 ABC-ATPase subunit interface; other site 1123519004546 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519004547 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 1123519004548 substrate binding pocket [chemical binding]; other site 1123519004549 membrane-bound complex binding site; other site 1123519004550 hinge residues; other site 1123519004551 D-cysteine desulfhydrase; Validated; Region: PRK03910 1123519004552 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 1123519004553 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519004554 catalytic residue [active] 1123519004555 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1123519004556 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1123519004557 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 1123519004558 catalytic residues [active] 1123519004559 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 1123519004560 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519004561 catalytic residues [active] 1123519004562 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 1123519004563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519004564 DNA-binding site [nucleotide binding]; DNA binding site 1123519004565 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 1123519004566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004567 homodimer interface [polypeptide binding]; other site 1123519004568 catalytic residue [active] 1123519004569 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1123519004570 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1123519004571 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1123519004572 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 1123519004573 conserved cys residue [active] 1123519004574 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004575 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 1123519004576 Isochorismatase family; Region: Isochorismatase; pfam00857 1123519004577 catalytic triad [active] 1123519004578 conserved cis-peptide bond; other site 1123519004579 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 1123519004580 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 1123519004581 conserved cys residue [active] 1123519004582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004583 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519004584 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519004585 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004586 Helix-turn-helix domain; Region: HTH_18; pfam12833 1123519004587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004588 Predicted thioesterase [General function prediction only]; Region: COG5496 1123519004589 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1123519004590 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519004591 S-adenosylmethionine binding site [chemical binding]; other site 1123519004592 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 1123519004593 dimerization interface [polypeptide binding]; other site 1123519004594 putative DNA binding site [nucleotide binding]; other site 1123519004595 putative Zn2+ binding site [ion binding]; other site 1123519004596 Predicted transporter component [General function prediction only]; Region: COG2391 1123519004597 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1123519004598 Predicted transporter component [General function prediction only]; Region: COG2391 1123519004599 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1123519004600 OsmC-like protein; Region: OsmC; pfam02566 1123519004601 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 1123519004602 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1123519004603 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1123519004604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519004605 DNA-binding site [nucleotide binding]; DNA binding site 1123519004606 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 1123519004607 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 1123519004608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004609 homodimer interface [polypeptide binding]; other site 1123519004610 catalytic residue [active] 1123519004611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519004612 Coenzyme A binding pocket [chemical binding]; other site 1123519004613 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 1123519004614 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519004615 LysE type translocator; Region: LysE; cl00565 1123519004616 Uncharacterized conserved protein [Function unknown]; Region: COG4104 1123519004617 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 1123519004618 Cupin; Region: Cupin_6; pfam12852 1123519004619 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004620 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519004621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004622 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1123519004623 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1123519004624 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519004625 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1123519004626 Nitrate and nitrite sensing; Region: NIT; pfam08376 1123519004627 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 1123519004628 dimerization interface [polypeptide binding]; other site 1123519004629 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519004630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519004631 dimer interface [polypeptide binding]; other site 1123519004632 putative CheW interface [polypeptide binding]; other site 1123519004633 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1123519004634 transcriptional activator TtdR; Provisional; Region: PRK09801 1123519004635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004636 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 1123519004637 putative effector binding pocket; other site 1123519004638 putative dimerization interface [polypeptide binding]; other site 1123519004639 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 1123519004640 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 1123519004641 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1123519004642 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 1123519004643 tetramer interface [polypeptide binding]; other site 1123519004644 active site 1123519004645 Mg2+/Mn2+ binding site [ion binding]; other site 1123519004646 potential frameshift: common BLAST hit: gi|170720416|ref|YP_001748104.1| tartrate dehydrogenase 1123519004647 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1123519004648 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 1123519004649 transmembrane helices; other site 1123519004650 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1123519004651 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1123519004652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519004653 putative substrate translocation pore; other site 1123519004654 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1123519004655 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1123519004656 putative NAD(P) binding site [chemical binding]; other site 1123519004657 putative active site [active] 1123519004658 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 1123519004659 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519004660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519004661 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 1123519004662 putative dimerization interface [polypeptide binding]; other site 1123519004663 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 1123519004664 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519004665 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1123519004666 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1123519004667 active site 1123519004668 arsenical pump membrane protein; Provisional; Region: PRK15445 1123519004669 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 1123519004670 transmembrane helices; other site 1123519004671 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 1123519004672 dimerization interface [polypeptide binding]; other site 1123519004673 putative DNA binding site [nucleotide binding]; other site 1123519004674 putative Zn2+ binding site [ion binding]; other site 1123519004675 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1123519004676 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1123519004677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519004678 putative substrate translocation pore; other site 1123519004679 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519004680 Cupin domain; Region: Cupin_2; pfam07883 1123519004681 Helix-turn-helix domain; Region: HTH_18; pfam12833 1123519004682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519004683 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1123519004684 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1123519004685 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 1123519004686 DNA binding site [nucleotide binding] 1123519004687 active site 1123519004688 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 1123519004689 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1123519004690 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1123519004691 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1123519004692 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1123519004693 RmuC family; Region: RmuC; pfam02646 1123519004694 MgtC family; Region: MgtC; pfam02308 1123519004695 Predicted membrane protein [Function unknown]; Region: COG3174 1123519004696 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1123519004697 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1123519004698 Na binding site [ion binding]; other site 1123519004699 PAS domain; Region: PAS; smart00091 1123519004700 PAS fold; Region: PAS_7; pfam12860 1123519004701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519004702 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 1123519004703 dimer interface [polypeptide binding]; other site 1123519004704 phosphorylation site [posttranslational modification] 1123519004705 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519004706 ATP binding site [chemical binding]; other site 1123519004707 Mg2+ binding site [ion binding]; other site 1123519004708 G-X-G motif; other site 1123519004709 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519004710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519004711 active site 1123519004712 phosphorylation site [posttranslational modification] 1123519004713 intermolecular recognition site; other site 1123519004714 dimerization interface [polypeptide binding]; other site 1123519004715 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1123519004716 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1123519004717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1123519004718 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1123519004719 Predicted membrane protein [Function unknown]; Region: COG4392 1123519004720 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 1123519004721 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1123519004722 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1123519004723 Maltose operon periplasmic protein precursor (MalM); Region: MalM; pfam07148 1123519004724 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1123519004725 trimer interface; other site 1123519004726 sugar binding site [chemical binding]; other site 1123519004727 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 1123519004728 active site 1123519004729 substrate binding site [chemical binding]; other site 1123519004730 ATP binding site [chemical binding]; other site 1123519004731 alpha-amylase; Reviewed; Region: malS; PRK09505 1123519004732 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1123519004733 active site 1123519004734 catalytic site [active] 1123519004735 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1123519004736 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1123519004737 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 1123519004738 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519004739 dimer interface [polypeptide binding]; other site 1123519004740 conserved gate region; other site 1123519004741 putative PBP binding loops; other site 1123519004742 ABC-ATPase subunit interface; other site 1123519004743 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1123519004744 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519004745 dimer interface [polypeptide binding]; other site 1123519004746 conserved gate region; other site 1123519004747 putative PBP binding loops; other site 1123519004748 ABC-ATPase subunit interface; other site 1123519004749 transcriptional regulator MalT; Provisional; Region: PRK04841 1123519004750 AAA ATPase domain; Region: AAA_16; pfam13191 1123519004751 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 1123519004752 DNA binding residues [nucleotide binding] 1123519004753 dimerization interface [polypeptide binding]; other site 1123519004754 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 1123519004755 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1123519004756 active site 1123519004757 catalytic site [active] 1123519004758 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1123519004759 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1123519004760 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1123519004761 Walker A/P-loop; other site 1123519004762 ATP binding site [chemical binding]; other site 1123519004763 Q-loop/lid; other site 1123519004764 ABC transporter signature motif; other site 1123519004765 Walker B; other site 1123519004766 D-loop; other site 1123519004767 H-loop/switch region; other site 1123519004768 TOBE domain; Region: TOBE_2; pfam08402 1123519004769 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1123519004770 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1123519004771 maltose O-acetyltransferase; Provisional; Region: PRK10092 1123519004772 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 1123519004773 active site 1123519004774 substrate binding site [chemical binding]; other site 1123519004775 trimer interface [polypeptide binding]; other site 1123519004776 CoA binding site [chemical binding]; other site 1123519004777 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1123519004778 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1123519004779 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519004780 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1123519004781 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 1123519004782 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519004783 homodimer interface [polypeptide binding]; other site 1123519004784 catalytic residue [active] 1123519004785 excinuclease ABC subunit B; Provisional; Region: PRK05298 1123519004786 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 1123519004787 ATP binding site [chemical binding]; other site 1123519004788 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 1123519004789 nucleotide binding region [chemical binding]; other site 1123519004790 ATP-binding site [chemical binding]; other site 1123519004791 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1123519004792 UvrB/uvrC motif; Region: UVR; pfam02151 1123519004793 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1123519004794 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 1123519004795 N-terminal plug; other site 1123519004796 ligand-binding site [chemical binding]; other site 1123519004797 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1123519004798 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519004799 putative substrate translocation pore; other site 1123519004800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519004801 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1123519004802 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519004803 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 1123519004804 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519004805 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1123519004806 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1123519004807 HIGH motif; other site 1123519004808 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1123519004809 active site 1123519004810 KMSKS motif; other site 1123519004811 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 1123519004812 active site 1123519004813 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1123519004814 active site 1123519004815 DNA polymerase IV; Validated; Region: PRK02406 1123519004816 DNA binding site [nucleotide binding] 1123519004817 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1123519004818 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1123519004819 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1123519004820 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1123519004821 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1123519004822 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1123519004823 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519004824 Walker A motif; other site 1123519004825 ATP binding site [chemical binding]; other site 1123519004826 Walker B motif; other site 1123519004827 arginine finger; other site 1123519004828 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1123519004829 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1123519004830 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1123519004831 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 1123519004832 Walker A motif; other site 1123519004833 ATP binding site [chemical binding]; other site 1123519004834 Walker B motif; other site 1123519004835 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1123519004836 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519004837 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1123519004838 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1123519004839 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1123519004840 Type II transport protein GspH; Region: GspH; pfam12019 1123519004841 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1123519004842 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1123519004843 legume lectins; Region: lectin_L-type; cl14058 1123519004844 homotetramer interaction site [polypeptide binding]; other site 1123519004845 carbohydrate binding site [chemical binding]; other site 1123519004846 metal binding site [ion binding]; metal-binding site 1123519004847 META domain; Region: META; pfam03724 1123519004848 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1123519004849 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 1123519004850 ATP binding site [chemical binding]; other site 1123519004851 Mg++ binding site [ion binding]; other site 1123519004852 motif III; other site 1123519004853 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 1123519004854 nucleotide binding region [chemical binding]; other site 1123519004855 ATP-binding site [chemical binding]; other site 1123519004856 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1123519004857 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 1123519004858 IHF dimer interface [polypeptide binding]; other site 1123519004859 IHF - DNA interface [nucleotide binding]; other site 1123519004860 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1123519004861 Chain length determinant protein; Region: Wzz; cl15801 1123519004862 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 1123519004863 potential frameshift: common BLAST hit: gi|146306887|ref|YP_001187352.1| beta-lactamase domain-containing protein 1123519004864 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 1123519004865 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1123519004866 homodimer interface [polypeptide binding]; other site 1123519004867 active site 1123519004868 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1123519004869 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1123519004870 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1123519004871 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 1123519004872 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519004873 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1123519004874 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 1123519004875 trimer interface [polypeptide binding]; other site 1123519004876 active site 1123519004877 substrate binding site [chemical binding]; other site 1123519004878 CoA binding site [chemical binding]; other site 1123519004879 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 1123519004880 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 1123519004881 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1123519004882 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1123519004883 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 1123519004884 putative NAD(P) binding site [chemical binding]; other site 1123519004885 active site 1123519004886 putative substrate binding site [chemical binding]; other site 1123519004887 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1123519004888 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1123519004889 CoA binding domain; Region: CoA_binding; cl17356 1123519004890 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1123519004891 NAD(P) binding site [chemical binding]; other site 1123519004892 homodimer interface [polypeptide binding]; other site 1123519004893 substrate binding site [chemical binding]; other site 1123519004894 active site 1123519004895 Fic/DOC family; Region: Fic; pfam02661 1123519004896 Fic family protein [Function unknown]; Region: COG3177 1123519004897 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1123519004898 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1123519004899 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1123519004900 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1123519004901 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1123519004902 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1123519004903 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1123519004904 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1123519004905 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1123519004906 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1123519004907 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1123519004908 4Fe-4S binding domain; Region: Fer4; pfam00037 1123519004909 4Fe-4S binding domain; Region: Fer4; pfam00037 1123519004910 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1123519004911 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1123519004912 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1123519004913 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 1123519004914 catalytic loop [active] 1123519004915 iron binding site [ion binding]; other site 1123519004916 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1123519004917 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 1123519004918 [4Fe-4S] binding site [ion binding]; other site 1123519004919 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 1123519004920 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1123519004921 SLBB domain; Region: SLBB; pfam10531 1123519004922 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1123519004923 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1123519004924 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 1123519004925 putative dimer interface [polypeptide binding]; other site 1123519004926 [2Fe-2S] cluster binding site [ion binding]; other site 1123519004927 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1123519004928 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1123519004929 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1123519004930 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1123519004931 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1123519004932 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1123519004933 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 1123519004934 non-specific DNA binding site [nucleotide binding]; other site 1123519004935 salt bridge; other site 1123519004936 sequence-specific DNA binding site [nucleotide binding]; other site 1123519004937 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 1123519004938 dimerization interface [polypeptide binding]; other site 1123519004939 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519004940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519004941 dimer interface [polypeptide binding]; other site 1123519004942 putative CheW interface [polypeptide binding]; other site 1123519004943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519004944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519004945 metal binding site [ion binding]; metal-binding site 1123519004946 active site 1123519004947 I-site; other site 1123519004948 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 1123519004949 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 1123519004950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519004951 active site 1123519004952 phosphorylation site [posttranslational modification] 1123519004953 intermolecular recognition site; other site 1123519004954 dimerization interface [polypeptide binding]; other site 1123519004955 ANTAR domain; Region: ANTAR; pfam03861 1123519004956 Oxygen tolerance; Region: BatD; pfam13584 1123519004957 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1123519004958 metal ion-dependent adhesion site (MIDAS); other site 1123519004959 TPR repeat; Region: TPR_11; pfam13414 1123519004960 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 1123519004961 binding surface 1123519004962 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 1123519004963 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 1123519004964 metal ion-dependent adhesion site (MIDAS); other site 1123519004965 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1123519004966 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1123519004967 Protein of unknown function DUF58; Region: DUF58; pfam01882 1123519004968 MoxR-like ATPases [General function prediction only]; Region: COG0714 1123519004969 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 1123519004970 Walker A motif; other site 1123519004971 ATP binding site [chemical binding]; other site 1123519004972 Walker B motif; other site 1123519004973 arginine finger; other site 1123519004974 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1123519004975 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1123519004976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519004977 Walker A/P-loop; other site 1123519004978 ATP binding site [chemical binding]; other site 1123519004979 Q-loop/lid; other site 1123519004980 ABC transporter signature motif; other site 1123519004981 Walker B; other site 1123519004982 D-loop; other site 1123519004983 H-loop/switch region; other site 1123519004984 inner membrane transport permease; Provisional; Region: PRK15066 1123519004985 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1123519004986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1123519004987 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1123519004988 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1123519004989 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 1123519004990 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 1123519004991 PilZ domain; Region: PilZ; pfam07238 1123519004992 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519004993 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519004994 active site 1123519004995 phosphorylation site [posttranslational modification] 1123519004996 intermolecular recognition site; other site 1123519004997 dimerization interface [polypeptide binding]; other site 1123519004998 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1123519004999 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 1123519005000 anti sigma factor interaction site; other site 1123519005001 regulatory phosphorylation site [posttranslational modification]; other site 1123519005002 transaldolase-like protein; Provisional; Region: PTZ00411 1123519005003 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1123519005004 active site 1123519005005 dimer interface [polypeptide binding]; other site 1123519005006 catalytic residue [active] 1123519005007 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1123519005008 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 1123519005009 FMN binding site [chemical binding]; other site 1123519005010 active site 1123519005011 catalytic residues [active] 1123519005012 substrate binding site [chemical binding]; other site 1123519005013 polysaccharide export protein Wza; Provisional; Region: PRK15078 1123519005014 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1123519005015 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1123519005016 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 1123519005017 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1123519005018 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1123519005019 Probable Catalytic site; other site 1123519005020 metal-binding site 1123519005021 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 1123519005022 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1123519005023 tyrosine kinase; Provisional; Region: PRK11519 1123519005024 Chain length determinant protein; Region: Wzz; pfam02706 1123519005025 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1123519005026 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 1123519005027 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1123519005028 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1123519005029 active site 1123519005030 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1123519005031 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1123519005032 lipid kinase; Reviewed; Region: PRK13054 1123519005033 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1123519005034 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1123519005035 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519005036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005037 active site 1123519005038 phosphorylation site [posttranslational modification] 1123519005039 intermolecular recognition site; other site 1123519005040 dimerization interface [polypeptide binding]; other site 1123519005041 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1123519005042 MOSC domain; Region: MOSC; pfam03473 1123519005043 lytic murein transglycosylase; Provisional; Region: PRK11619 1123519005044 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 1123519005045 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519005046 catalytic residue [active] 1123519005047 ABC transporter ATPase component; Reviewed; Region: PRK11147 1123519005048 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519005049 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519005050 ABC transporter; Region: ABC_tran_2; pfam12848 1123519005051 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519005052 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 1123519005053 Ligand Binding Site [chemical binding]; other site 1123519005054 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1123519005055 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 1123519005056 putative active site [active] 1123519005057 putative dimer interface [polypeptide binding]; other site 1123519005058 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1123519005059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1123519005060 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1123519005061 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1123519005062 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519005063 Walker A motif; other site 1123519005064 ATP binding site [chemical binding]; other site 1123519005065 Walker B motif; other site 1123519005066 arginine finger; other site 1123519005067 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1123519005068 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1123519005069 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 1123519005070 dimer interface [polypeptide binding]; other site 1123519005071 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519005072 catalytic residue [active] 1123519005073 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1123519005074 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1123519005075 DTW domain; Region: DTW; cl01221 1123519005076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1123519005077 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 1123519005078 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1123519005079 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1123519005080 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 1123519005081 ATP binding site [chemical binding]; other site 1123519005082 putative Mg++ binding site [ion binding]; other site 1123519005083 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 1123519005084 nucleotide binding region [chemical binding]; other site 1123519005085 ATP-binding site [chemical binding]; other site 1123519005086 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1123519005087 HRDC domain; Region: HRDC; pfam00570 1123519005088 MarR family; Region: MarR_2; pfam12802 1123519005089 transcriptional regulator SlyA; Provisional; Region: PRK03573 1123519005090 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1123519005091 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1123519005092 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 1123519005093 quinone interaction residues [chemical binding]; other site 1123519005094 active site 1123519005095 catalytic residues [active] 1123519005096 FMN binding site [chemical binding]; other site 1123519005097 substrate binding site [chemical binding]; other site 1123519005098 Ribosome modulation factor; Region: RMF; pfam04957 1123519005099 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1123519005100 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1123519005101 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519005102 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519005103 S-adenosylmethionine binding site [chemical binding]; other site 1123519005104 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 1123519005105 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1123519005106 Protein with unknown function (DUF469); Region: DUF469; cl01237 1123519005107 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1123519005108 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 1123519005109 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1123519005110 Zn2+ binding site [ion binding]; other site 1123519005111 Mg2+ binding site [ion binding]; other site 1123519005112 Predicted membrane protein [Function unknown]; Region: COG5393 1123519005113 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1123519005114 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519005115 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 1123519005116 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1123519005117 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1123519005118 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1123519005119 GTP binding site; other site 1123519005120 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 1123519005121 MPT binding site; other site 1123519005122 trimer interface [polypeptide binding]; other site 1123519005123 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 1123519005124 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1123519005125 dimer interface [polypeptide binding]; other site 1123519005126 putative functional site; other site 1123519005127 putative MPT binding site; other site 1123519005128 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 1123519005129 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1123519005130 VanZ like family; Region: VanZ; cl01971 1123519005131 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 1123519005132 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 1123519005133 putative active site [active] 1123519005134 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1123519005135 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1123519005136 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1123519005137 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 1123519005138 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1123519005139 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 1123519005140 active site 1123519005141 dimer interface [polypeptide binding]; other site 1123519005142 motif 1; other site 1123519005143 motif 2; other site 1123519005144 motif 3; other site 1123519005145 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 1123519005146 anticodon binding site; other site 1123519005147 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1123519005148 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1123519005149 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1123519005150 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1123519005151 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1123519005152 23S rRNA binding site [nucleotide binding]; other site 1123519005153 L21 binding site [polypeptide binding]; other site 1123519005154 L13 binding site [polypeptide binding]; other site 1123519005155 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1123519005156 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1123519005157 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 1123519005158 dimer interface [polypeptide binding]; other site 1123519005159 motif 1; other site 1123519005160 active site 1123519005161 motif 2; other site 1123519005162 motif 3; other site 1123519005163 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1123519005164 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 1123519005165 putative tRNA-binding site [nucleotide binding]; other site 1123519005166 B3/4 domain; Region: B3_4; pfam03483 1123519005167 tRNA synthetase B5 domain; Region: B5; smart00874 1123519005168 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 1123519005169 dimer interface [polypeptide binding]; other site 1123519005170 motif 1; other site 1123519005171 motif 3; other site 1123519005172 motif 2; other site 1123519005173 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1123519005174 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 1123519005175 IHF dimer interface [polypeptide binding]; other site 1123519005176 IHF - DNA interface [nucleotide binding]; other site 1123519005177 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1123519005178 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1123519005179 DNA binding residues [nucleotide binding] 1123519005180 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 1123519005181 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519005182 RES domain; Region: RES; pfam08808 1123519005183 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 1123519005184 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 1123519005185 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1123519005186 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 1123519005187 putative molybdopterin cofactor binding site [chemical binding]; other site 1123519005188 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 1123519005189 putative molybdopterin cofactor binding site; other site 1123519005190 benzoate transport; Region: 2A0115; TIGR00895 1123519005191 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005192 putative substrate translocation pore; other site 1123519005193 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005194 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1123519005195 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1123519005196 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1123519005197 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1123519005198 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1123519005199 aromatic amino acid exporter; Provisional; Region: PRK11689 1123519005200 EamA-like transporter family; Region: EamA; pfam00892 1123519005201 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1123519005202 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1123519005203 active site 1123519005204 NAD binding site [chemical binding]; other site 1123519005205 metal binding site [ion binding]; metal-binding site 1123519005206 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519005207 TAP-like protein; Region: Abhydrolase_4; pfam08386 1123519005208 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1123519005209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519005210 DNA-binding site [nucleotide binding]; DNA binding site 1123519005211 FCD domain; Region: FCD; pfam07729 1123519005212 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519005213 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1123519005214 PGAP1-like protein; Region: PGAP1; pfam07819 1123519005215 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1123519005216 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519005217 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519005218 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519005219 metal binding site [ion binding]; metal-binding site 1123519005220 active site 1123519005221 I-site; other site 1123519005222 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1123519005223 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 1123519005224 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 1123519005225 Phytase; Region: Phytase; cl17685 1123519005226 Phytase; Region: Phytase; cl17685 1123519005227 TolQ protein; Region: tolQ; TIGR02796 1123519005228 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1123519005229 TolR protein; Region: tolR; TIGR02801 1123519005230 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1123519005231 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1123519005232 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 1123519005233 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1123519005234 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 1123519005235 D-pathway; other site 1123519005236 Putative ubiquinol binding site [chemical binding]; other site 1123519005237 Low-spin heme (heme b) binding site [chemical binding]; other site 1123519005238 Putative water exit pathway; other site 1123519005239 Binuclear center (heme o3/CuB) [ion binding]; other site 1123519005240 K-pathway; other site 1123519005241 Putative proton exit pathway; other site 1123519005242 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1123519005243 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1123519005244 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519005245 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1123519005246 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1123519005247 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1123519005248 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 1123519005249 FeS/SAM binding site; other site 1123519005250 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1123519005251 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1123519005252 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1123519005253 Walker A/P-loop; other site 1123519005254 ATP binding site [chemical binding]; other site 1123519005255 Q-loop/lid; other site 1123519005256 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 1123519005257 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1123519005258 ABC transporter signature motif; other site 1123519005259 Walker B; other site 1123519005260 D-loop; other site 1123519005261 H-loop/switch region; other site 1123519005262 cell division protein ZipA; Reviewed; Region: zipA; PRK00269 1123519005263 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 1123519005264 FtsZ protein binding site [polypeptide binding]; other site 1123519005265 Ligase N family; Region: LIGANc; smart00532 1123519005266 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 1123519005267 nucleotide binding pocket [chemical binding]; other site 1123519005268 K-X-D-G motif; other site 1123519005269 catalytic site [active] 1123519005270 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1123519005271 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 1123519005272 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 1123519005273 Dimer interface [polypeptide binding]; other site 1123519005274 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1123519005275 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 1123519005276 motif II; other site 1123519005277 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1123519005278 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 1123519005279 Probable Catalytic site; other site 1123519005280 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1123519005281 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1123519005282 NADP binding site [chemical binding]; other site 1123519005283 active site 1123519005284 putative substrate binding site [chemical binding]; other site 1123519005285 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1123519005286 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1123519005287 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1123519005288 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1123519005289 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1123519005290 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 1123519005291 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 1123519005292 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 1123519005293 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1123519005294 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 1123519005295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1123519005296 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 1123519005297 dimer interface [polypeptide binding]; other site 1123519005298 phosphorylation site [posttranslational modification] 1123519005299 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005300 ATP binding site [chemical binding]; other site 1123519005301 Mg2+ binding site [ion binding]; other site 1123519005302 G-X-G motif; other site 1123519005303 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1123519005304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005305 active site 1123519005306 phosphorylation site [posttranslational modification] 1123519005307 intermolecular recognition site; other site 1123519005308 dimerization interface [polypeptide binding]; other site 1123519005309 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 1123519005310 DNA binding site [nucleotide binding] 1123519005311 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1123519005312 Flagellin N-methylase; Region: FliB; pfam03692 1123519005313 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 1123519005314 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 1123519005315 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 1123519005316 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 1123519005317 Acid Phosphatase; Region: Acid_PPase; cl17256 1123519005318 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 1123519005319 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519005320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519005321 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519005322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519005323 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 1123519005324 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 1123519005325 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 1123519005326 putative alpha subunit interface [polypeptide binding]; other site 1123519005327 putative active site [active] 1123519005328 putative substrate binding site [chemical binding]; other site 1123519005329 Fe binding site [ion binding]; other site 1123519005330 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 1123519005331 inter-subunit interface; other site 1123519005332 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 1123519005333 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 1123519005334 catalytic loop [active] 1123519005335 iron binding site [ion binding]; other site 1123519005336 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 1123519005337 FAD binding pocket [chemical binding]; other site 1123519005338 FAD binding motif [chemical binding]; other site 1123519005339 phosphate binding motif [ion binding]; other site 1123519005340 beta-alpha-beta structure motif; other site 1123519005341 NAD binding pocket [chemical binding]; other site 1123519005342 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 1123519005343 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 1123519005344 putative NAD(P) binding site [chemical binding]; other site 1123519005345 active site 1123519005346 benzoate transport; Region: 2A0115; TIGR00895 1123519005347 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005348 putative substrate translocation pore; other site 1123519005349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005350 putative substrate translocation pore; other site 1123519005351 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 1123519005352 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 1123519005353 octamer interface [polypeptide binding]; other site 1123519005354 active site 1123519005355 Muconolactone delta-isomerase; Region: MIase; cl01992 1123519005356 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 1123519005357 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 1123519005358 dimer interface [polypeptide binding]; other site 1123519005359 active site 1123519005360 benzoate transporter; Region: benE; TIGR00843 1123519005361 Benzoate membrane transport protein; Region: BenE; pfam03594 1123519005362 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519005363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1123519005364 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1123519005365 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1123519005366 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1123519005367 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1123519005368 O-methyltransferase; Region: Methyltransf_2; pfam00891 1123519005369 Leucine rich repeat; Region: LRR_8; pfam13855 1123519005370 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1123519005371 active site 1123519005372 ATP binding site [chemical binding]; other site 1123519005373 substrate binding site [chemical binding]; other site 1123519005374 activation loop (A-loop); other site 1123519005375 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14464 1123519005376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519005377 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005378 putative substrate translocation pore; other site 1123519005379 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 1123519005380 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1123519005381 AAA domain; Region: AAA_28; pfam13521 1123519005382 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1123519005383 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1123519005384 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1123519005385 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 1123519005386 substrate binding pocket [chemical binding]; other site 1123519005387 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 1123519005388 B12 binding site [chemical binding]; other site 1123519005389 cobalt ligand [ion binding]; other site 1123519005390 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1123519005391 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 1123519005392 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1123519005393 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 1123519005394 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1123519005395 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519005396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005397 active site 1123519005398 phosphorylation site [posttranslational modification] 1123519005399 intermolecular recognition site; other site 1123519005400 dimerization interface [polypeptide binding]; other site 1123519005401 PAS domain; Region: PAS; smart00091 1123519005402 PAS fold; Region: PAS_4; pfam08448 1123519005403 putative active site [active] 1123519005404 heme pocket [chemical binding]; other site 1123519005405 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519005406 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519005407 metal binding site [ion binding]; metal-binding site 1123519005408 active site 1123519005409 I-site; other site 1123519005410 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 1123519005411 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 1123519005412 active site 1123519005413 DNA binding site [nucleotide binding] 1123519005414 Int/Topo IB signature motif; other site 1123519005415 catalytic residues [active] 1123519005416 Predicted membrane protein [Function unknown]; Region: COG2323 1123519005417 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 1123519005418 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 1123519005419 dimerization interface [polypeptide binding]; other site 1123519005420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519005421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519005422 dimer interface [polypeptide binding]; other site 1123519005423 putative CheW interface [polypeptide binding]; other site 1123519005424 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1123519005425 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1123519005426 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519005427 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 1123519005428 DNA-binding site [nucleotide binding]; DNA binding site 1123519005429 RNA-binding motif; other site 1123519005430 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1123519005431 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1123519005432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519005433 Walker A/P-loop; other site 1123519005434 ATP binding site [chemical binding]; other site 1123519005435 Q-loop/lid; other site 1123519005436 ABC transporter signature motif; other site 1123519005437 Walker B; other site 1123519005438 D-loop; other site 1123519005439 H-loop/switch region; other site 1123519005440 ABC transporter; Region: ABC_tran_2; pfam12848 1123519005441 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519005442 potential frameshift: common BLAST hit: gi|26989656|ref|NP_745081.1| integrase 1123519005443 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1123519005444 active site 1123519005445 homotetramer interface [polypeptide binding]; other site 1123519005446 homodimer interface [polypeptide binding]; other site 1123519005447 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1123519005448 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 1123519005449 Protein of unknown function, DUF488; Region: DUF488; pfam04343 1123519005450 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1123519005451 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 1123519005452 dimerization interface [polypeptide binding]; other site 1123519005453 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519005454 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519005455 dimer interface [polypeptide binding]; other site 1123519005456 putative CheW interface [polypeptide binding]; other site 1123519005457 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519005458 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 1123519005459 dimer interface [polypeptide binding]; other site 1123519005460 phosphorylation site [posttranslational modification] 1123519005461 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005462 ATP binding site [chemical binding]; other site 1123519005463 Mg2+ binding site [ion binding]; other site 1123519005464 G-X-G motif; other site 1123519005465 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519005466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005467 active site 1123519005468 phosphorylation site [posttranslational modification] 1123519005469 intermolecular recognition site; other site 1123519005470 dimerization interface [polypeptide binding]; other site 1123519005471 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519005472 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519005473 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1123519005474 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519005475 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519005476 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005477 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519005478 putative substrate translocation pore; other site 1123519005479 elongation factor G; Reviewed; Region: PRK00007 1123519005480 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1123519005481 G1 box; other site 1123519005482 putative GEF interaction site [polypeptide binding]; other site 1123519005483 GTP/Mg2+ binding site [chemical binding]; other site 1123519005484 Switch I region; other site 1123519005485 G2 box; other site 1123519005486 G3 box; other site 1123519005487 Switch II region; other site 1123519005488 G4 box; other site 1123519005489 G5 box; other site 1123519005490 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 1123519005491 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 1123519005492 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 1123519005493 sensor protein QseC; Provisional; Region: PRK10337 1123519005494 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 1123519005495 dimer interface [polypeptide binding]; other site 1123519005496 phosphorylation site [posttranslational modification] 1123519005497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005498 ATP binding site [chemical binding]; other site 1123519005499 Mg2+ binding site [ion binding]; other site 1123519005500 G-X-G motif; other site 1123519005501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519005502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005503 active site 1123519005504 phosphorylation site [posttranslational modification] 1123519005505 intermolecular recognition site; other site 1123519005506 dimerization interface [polypeptide binding]; other site 1123519005507 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 1123519005508 DNA binding site [nucleotide binding] 1123519005509 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1123519005510 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1123519005511 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1123519005512 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 1123519005513 DsbD alpha interface [polypeptide binding]; other site 1123519005514 catalytic residues [active] 1123519005515 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 1123519005516 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1123519005517 catalytic residues [active] 1123519005518 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1123519005519 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 1123519005520 dimerization domain [polypeptide binding]; other site 1123519005521 dimer interface [polypeptide binding]; other site 1123519005522 catalytic residues [active] 1123519005523 Cytochrome c; Region: Cytochrom_C; cl11414 1123519005524 Cytochrome c; Region: Cytochrom_C; cl11414 1123519005525 Cytochrome c [Energy production and conversion]; Region: COG3258 1123519005526 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519005527 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1123519005528 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005529 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1123519005530 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1123519005531 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 1123519005532 N-terminal plug; other site 1123519005533 ligand-binding site [chemical binding]; other site 1123519005534 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519005535 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1123519005536 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519005537 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1123519005538 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 1123519005539 putative DNA binding site [nucleotide binding]; other site 1123519005540 putative Zn2+ binding site [ion binding]; other site 1123519005541 dimerization interface [polypeptide binding]; other site 1123519005542 NIPSNAP; Region: NIPSNAP; pfam07978 1123519005543 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1123519005544 Uncharacterized conserved protein (DUF2149); Region: DUF2149; cl01960 1123519005545 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1123519005546 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1123519005547 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1123519005548 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1123519005549 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1123519005550 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 1123519005551 N-terminal plug; other site 1123519005552 ligand-binding site [chemical binding]; other site 1123519005553 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1123519005554 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 1123519005555 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 1123519005556 N-terminal plug; other site 1123519005557 ligand-binding site [chemical binding]; other site 1123519005558 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1123519005559 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1123519005560 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 1123519005561 Walker A motif; other site 1123519005562 homodimer interface [polypeptide binding]; other site 1123519005563 ATP binding site [chemical binding]; other site 1123519005564 hydroxycobalamin binding site [chemical binding]; other site 1123519005565 Walker B motif; other site 1123519005566 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1123519005567 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 1123519005568 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1123519005569 catalytic triad [active] 1123519005570 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 1123519005571 putative FMN binding site [chemical binding]; other site 1123519005572 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1123519005573 threonine-phosphate decarboxylase; Reviewed; Region: PRK05664 1123519005574 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1123519005575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519005576 cobyric acid synthase; Provisional; Region: PRK00784 1123519005577 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1123519005578 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1123519005579 catalytic triad [active] 1123519005580 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 1123519005581 homotrimer interface [polypeptide binding]; other site 1123519005582 Walker A motif; other site 1123519005583 GTP binding site [chemical binding]; other site 1123519005584 Walker B motif; other site 1123519005585 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 1123519005586 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1123519005587 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 1123519005588 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 1123519005589 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1123519005590 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1123519005591 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1123519005592 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 1123519005593 dimer interface [polypeptide binding]; other site 1123519005594 phosphorylation site [posttranslational modification] 1123519005595 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005596 ATP binding site [chemical binding]; other site 1123519005597 Mg2+ binding site [ion binding]; other site 1123519005598 G-X-G motif; other site 1123519005599 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519005600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005601 active site 1123519005602 phosphorylation site [posttranslational modification] 1123519005603 intermolecular recognition site; other site 1123519005604 dimerization interface [polypeptide binding]; other site 1123519005605 PAS domain; Region: PAS; smart00091 1123519005606 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1123519005607 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005608 ATP binding site [chemical binding]; other site 1123519005609 Mg2+ binding site [ion binding]; other site 1123519005610 G-X-G motif; other site 1123519005611 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519005612 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005613 active site 1123519005614 phosphorylation site [posttranslational modification] 1123519005615 intermolecular recognition site; other site 1123519005616 dimerization interface [polypeptide binding]; other site 1123519005617 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1123519005618 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1123519005619 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1123519005620 homotrimer interaction site [polypeptide binding]; other site 1123519005621 putative active site [active] 1123519005622 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1123519005623 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519005624 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1123519005625 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1123519005626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519005627 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 1123519005628 dimerization interface [polypeptide binding]; other site 1123519005629 Predicted ATPase [General function prediction only]; Region: COG1485 1123519005630 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519005631 Walker A/P-loop; other site 1123519005632 ATP binding site [chemical binding]; other site 1123519005633 Q-loop/lid; other site 1123519005634 ABC transporter signature motif; other site 1123519005635 Walker B; other site 1123519005636 D-loop; other site 1123519005637 H-loop/switch region; other site 1123519005638 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1123519005639 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 1123519005640 AAA domain; Region: AAA_33; pfam13671 1123519005641 ATP-binding site [chemical binding]; other site 1123519005642 Gluconate-6-phosphate binding site [chemical binding]; other site 1123519005643 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1123519005644 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 1123519005645 DctM-like transporters; Region: DctM; pfam06808 1123519005646 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519005647 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519005648 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1123519005649 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1123519005650 DNA binding site [nucleotide binding] 1123519005651 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 1123519005652 putative ligand binding site [chemical binding]; other site 1123519005653 putative dimerization interface [polypeptide binding]; other site 1123519005654 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1123519005655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519005656 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 1123519005657 substrate binding pocket [chemical binding]; other site 1123519005658 dimerization interface [polypeptide binding]; other site 1123519005659 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519005660 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 1123519005661 FAD binding site [chemical binding]; other site 1123519005662 substrate binding site [chemical binding]; other site 1123519005663 catalytic base [active] 1123519005664 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 1123519005665 N- and C-terminal domain interface [polypeptide binding]; other site 1123519005666 D-xylulose kinase; Region: XylB; TIGR01312 1123519005667 active site 1123519005668 MgATP binding site [chemical binding]; other site 1123519005669 catalytic site [active] 1123519005670 metal binding site [ion binding]; metal-binding site 1123519005671 xylulose binding site [chemical binding]; other site 1123519005672 putative homodimer interface [polypeptide binding]; other site 1123519005673 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1123519005674 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1123519005675 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1123519005676 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1123519005677 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1123519005678 Walker A/P-loop; other site 1123519005679 ATP binding site [chemical binding]; other site 1123519005680 Q-loop/lid; other site 1123519005681 ABC transporter signature motif; other site 1123519005682 Walker B; other site 1123519005683 D-loop; other site 1123519005684 H-loop/switch region; other site 1123519005685 TOBE domain; Region: TOBE_2; pfam08402 1123519005686 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1123519005687 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519005688 dimer interface [polypeptide binding]; other site 1123519005689 conserved gate region; other site 1123519005690 putative PBP binding loops; other site 1123519005691 ABC-ATPase subunit interface; other site 1123519005692 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519005693 dimer interface [polypeptide binding]; other site 1123519005694 conserved gate region; other site 1123519005695 putative PBP binding loops; other site 1123519005696 ABC-ATPase subunit interface; other site 1123519005697 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1123519005698 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1123519005699 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519005700 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519005701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519005702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519005703 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 1123519005704 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1123519005705 putative substrate binding site [chemical binding]; other site 1123519005706 putative ATP binding site [chemical binding]; other site 1123519005707 PBP superfamily domain; Region: PBP_like_2; cl17296 1123519005708 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519005709 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519005710 ligand binding site [chemical binding]; other site 1123519005711 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 1123519005712 putative catalytic site [active] 1123519005713 putative phosphate binding site [ion binding]; other site 1123519005714 active site 1123519005715 metal binding site A [ion binding]; metal-binding site 1123519005716 DNA binding site [nucleotide binding] 1123519005717 putative AP binding site [nucleotide binding]; other site 1123519005718 putative metal binding site B [ion binding]; other site 1123519005719 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1123519005720 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1123519005721 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519005722 Surface antigen; Region: Bac_surface_Ag; pfam01103 1123519005723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1123519005724 Family of unknown function (DUF490); Region: DUF490; pfam04357 1123519005725 Family of unknown function (DUF490); Region: DUF490; pfam04357 1123519005726 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519005727 HAMP domain; Region: HAMP; pfam00672 1123519005728 dimerization interface [polypeptide binding]; other site 1123519005729 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519005730 dimer interface [polypeptide binding]; other site 1123519005731 putative CheW interface [polypeptide binding]; other site 1123519005732 Gram-negative porin; Region: Porin_4; pfam13609 1123519005733 Uncharacterized conserved protein [Function unknown]; Region: COG3287 1123519005734 FIST N domain; Region: FIST; pfam08495 1123519005735 FIST C domain; Region: FIST_C; pfam10442 1123519005736 PAS fold; Region: PAS_7; pfam12860 1123519005737 PAS fold; Region: PAS_7; pfam12860 1123519005738 PAS domain S-box; Region: sensory_box; TIGR00229 1123519005739 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519005740 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 1123519005741 dimer interface [polypeptide binding]; other site 1123519005742 phosphorylation site [posttranslational modification] 1123519005743 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519005744 ATP binding site [chemical binding]; other site 1123519005745 Mg2+ binding site [ion binding]; other site 1123519005746 G-X-G motif; other site 1123519005747 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519005748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005749 active site 1123519005750 phosphorylation site [posttranslational modification] 1123519005751 intermolecular recognition site; other site 1123519005752 dimerization interface [polypeptide binding]; other site 1123519005753 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1123519005754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005755 active site 1123519005756 phosphorylation site [posttranslational modification] 1123519005757 intermolecular recognition site; other site 1123519005758 dimerization interface [polypeptide binding]; other site 1123519005759 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 1123519005760 DNA binding residues [nucleotide binding] 1123519005761 dimerization interface [polypeptide binding]; other site 1123519005762 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 1123519005763 active site residue [active] 1123519005764 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1123519005765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519005766 active site 1123519005767 phosphorylation site [posttranslational modification] 1123519005768 intermolecular recognition site; other site 1123519005769 dimerization interface [polypeptide binding]; other site 1123519005770 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 1123519005771 DNA binding residues [nucleotide binding] 1123519005772 dimerization interface [polypeptide binding]; other site 1123519005773 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1123519005774 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1123519005775 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1123519005776 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1123519005777 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1123519005778 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 1123519005779 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 1123519005780 dimer interface [polypeptide binding]; other site 1123519005781 Trp docking motif [polypeptide binding]; other site 1123519005782 active site 1123519005783 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519005784 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 1123519005785 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 1123519005786 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1123519005787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519005788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519005789 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 1123519005790 putative substrate binding pocket [chemical binding]; other site 1123519005791 putative dimerization interface [polypeptide binding]; other site 1123519005792 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 1123519005793 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1123519005794 putative NAD(P) binding site [chemical binding]; other site 1123519005795 short chain dehydrogenase; Provisional; Region: PRK06701 1123519005796 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1123519005797 NAD binding site [chemical binding]; other site 1123519005798 metal binding site [ion binding]; metal-binding site 1123519005799 active site 1123519005800 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 1123519005801 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 1123519005802 putative DNA binding site [nucleotide binding]; other site 1123519005803 putative homodimer interface [polypeptide binding]; other site 1123519005804 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 1123519005805 nucleotide binding site [chemical binding]; other site 1123519005806 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 1123519005807 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 1123519005808 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 1123519005809 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 1123519005810 molybdopterin cofactor binding site; other site 1123519005811 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1123519005812 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1123519005813 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 1123519005814 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1123519005815 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 1123519005816 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1123519005817 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 1123519005818 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 1123519005819 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1123519005820 active site 1123519005821 homodimer interface [polypeptide binding]; other site 1123519005822 catalytic site [active] 1123519005823 acceptor binding site [chemical binding]; other site 1123519005824 trehalose synthase; Region: treS_nterm; TIGR02456 1123519005825 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 1123519005826 active site 1123519005827 catalytic site [active] 1123519005828 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 1123519005829 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 1123519005830 glycogen branching enzyme; Provisional; Region: PRK05402 1123519005831 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1123519005832 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1123519005833 active site 1123519005834 catalytic site [active] 1123519005835 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1123519005836 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519005837 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519005838 putative substrate translocation pore; other site 1123519005839 Predicted integral membrane protein [Function unknown]; Region: COG0392 1123519005840 cardiolipin synthase 2; Provisional; Region: PRK11263 1123519005841 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1123519005842 putative active site [active] 1123519005843 catalytic site [active] 1123519005844 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1123519005845 putative active site [active] 1123519005846 catalytic site [active] 1123519005847 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1123519005848 putative catalytic site [active] 1123519005849 putative metal binding site [ion binding]; other site 1123519005850 putative phosphate binding site [ion binding]; other site 1123519005851 Protein of unknown function DUF72; Region: DUF72; pfam01904 1123519005852 transcriptional regulator; Provisional; Region: PRK10632 1123519005853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519005854 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 1123519005855 putative effector binding pocket; other site 1123519005856 dimerization interface [polypeptide binding]; other site 1123519005857 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 1123519005858 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1123519005859 putative active site [active] 1123519005860 metal binding site [ion binding]; metal-binding site 1123519005861 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 1123519005862 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1123519005863 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1123519005864 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519005865 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 1123519005866 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 1123519005867 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1123519005868 active site 1123519005869 catalytic site [active] 1123519005870 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 1123519005871 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 1123519005872 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1123519005873 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 1123519005874 active site 1123519005875 catalytic site [active] 1123519005876 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1123519005877 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1123519005878 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 1123519005879 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 1123519005880 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 1123519005881 catalytic site [active] 1123519005882 active site 1123519005883 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 1123519005884 glycogen synthase; Provisional; Region: glgA; PRK00654 1123519005885 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 1123519005886 ADP-binding pocket [chemical binding]; other site 1123519005887 homodimer interface [polypeptide binding]; other site 1123519005888 Competence-damaged protein; Region: CinA; pfam02464 1123519005889 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1123519005890 dinuclear metal binding motif [ion binding]; other site 1123519005891 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1123519005892 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1123519005893 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 1123519005894 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 1123519005895 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 1123519005896 active site 1123519005897 DNA binding site [nucleotide binding] 1123519005898 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 1123519005899 DNA binding site [nucleotide binding] 1123519005900 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 1123519005901 nucleotide binding site [chemical binding]; other site 1123519005902 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1123519005903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519005904 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 1123519005905 putative effector binding pocket; other site 1123519005906 dimerization interface [polypeptide binding]; other site 1123519005907 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519005908 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1123519005909 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519005910 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519005911 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1123519005912 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1123519005913 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1123519005914 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1123519005915 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519005916 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1123519005917 Beta-lactamase; Region: Beta-lactamase; pfam00144 1123519005918 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1123519005919 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 1123519005920 tetramer interface [polypeptide binding]; other site 1123519005921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519005922 catalytic residue [active] 1123519005923 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1123519005924 Domain of unknown function (DUF202); Region: DUF202; cl09954 1123519005925 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1123519005926 glutathione reductase; Validated; Region: PRK06116 1123519005927 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519005928 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519005929 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519005930 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1123519005931 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519005932 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 1123519005933 active site 1123519005934 metal binding site [ion binding]; metal-binding site 1123519005935 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1123519005936 active site 1123519005937 tetramer interface; other site 1123519005938 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519005939 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519005940 dimer interface [polypeptide binding]; other site 1123519005941 putative CheW interface [polypeptide binding]; other site 1123519005942 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1123519005943 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 1123519005944 FeS/SAM binding site; other site 1123519005945 HemN C-terminal domain; Region: HemN_C; pfam06969 1123519005946 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1123519005947 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 1123519005948 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1123519005949 ferrochelatase; Reviewed; Region: hemH; PRK00035 1123519005950 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 1123519005951 C-terminal domain interface [polypeptide binding]; other site 1123519005952 active site 1123519005953 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 1123519005954 active site 1123519005955 N-terminal domain interface [polypeptide binding]; other site 1123519005956 NAD-dependent deacetylase; Provisional; Region: PRK00481 1123519005957 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 1123519005958 NAD+ binding site [chemical binding]; other site 1123519005959 substrate binding site [chemical binding]; other site 1123519005960 Zn binding site [ion binding]; other site 1123519005961 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1123519005962 Family description; Region: UvrD_C_2; pfam13538 1123519005963 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 1123519005964 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519005965 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 1123519005966 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 1123519005967 N-terminal plug; other site 1123519005968 ligand-binding site [chemical binding]; other site 1123519005969 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1123519005970 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 1123519005971 dimer interface [polypeptide binding]; other site 1123519005972 putative PBP binding regions; other site 1123519005973 ABC-ATPase subunit interface; other site 1123519005974 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1123519005975 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 1123519005976 ABC-ATPase subunit interface; other site 1123519005977 dimer interface [polypeptide binding]; other site 1123519005978 putative PBP binding regions; other site 1123519005979 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1123519005980 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1123519005981 Walker A/P-loop; other site 1123519005982 ATP binding site [chemical binding]; other site 1123519005983 Q-loop/lid; other site 1123519005984 ABC transporter signature motif; other site 1123519005985 Walker B; other site 1123519005986 D-loop; other site 1123519005987 H-loop/switch region; other site 1123519005988 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1123519005989 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1123519005990 siderophore binding site; other site 1123519005991 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 1123519005992 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519005993 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519005994 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 1123519005995 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1123519005996 acyl-activating enzyme (AAE) consensus motif; other site 1123519005997 AMP binding site [chemical binding]; other site 1123519005998 Condensation domain; Region: Condensation; pfam00668 1123519005999 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1123519006000 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 1123519006001 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1123519006002 acyl-activating enzyme (AAE) consensus motif; other site 1123519006003 AMP binding site [chemical binding]; other site 1123519006004 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1123519006005 Condensation domain; Region: Condensation; pfam00668 1123519006006 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1123519006007 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1123519006008 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519006009 NAD(P) binding site [chemical binding]; other site 1123519006010 active site 1123519006011 Condensation domain; Region: Condensation; pfam00668 1123519006012 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1123519006013 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1123519006014 acyl-activating enzyme (AAE) consensus motif; other site 1123519006015 AMP binding site [chemical binding]; other site 1123519006016 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1123519006017 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 1123519006018 Isochorismatase family; Region: Isochorismatase; pfam00857 1123519006019 catalytic triad [active] 1123519006020 conserved cis-peptide bond; other site 1123519006021 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1123519006022 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1123519006023 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1123519006024 acyl-activating enzyme (AAE) consensus motif; other site 1123519006025 active site 1123519006026 AMP binding site [chemical binding]; other site 1123519006027 substrate binding site [chemical binding]; other site 1123519006028 isochorismate synthase EntC; Provisional; Region: PRK15016 1123519006029 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1123519006030 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1123519006031 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1123519006032 putative active site [active] 1123519006033 putative PHP Thumb interface [polypeptide binding]; other site 1123519006034 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 1123519006035 generic binding surface I; other site 1123519006036 generic binding surface II; other site 1123519006037 DNA Polymerase Y-family; Region: PolY_like; cd03468 1123519006038 active site 1123519006039 DNA binding site [nucleotide binding] 1123519006040 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1123519006041 recA bacterial DNA recombination protein; Region: RecA; cl17211 1123519006042 LexA repressor; Provisional; Region: PRK12423 1123519006043 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1123519006044 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 1123519006045 Catalytic site [active] 1123519006046 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1123519006047 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 1123519006048 IHF dimer interface [polypeptide binding]; other site 1123519006049 IHF - DNA interface [nucleotide binding]; other site 1123519006050 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1123519006051 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1123519006052 tetrameric interface [polypeptide binding]; other site 1123519006053 NAD binding site [chemical binding]; other site 1123519006054 catalytic residues [active] 1123519006055 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1123519006056 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1123519006057 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1123519006058 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 1123519006059 substrate binding site [chemical binding]; other site 1123519006060 oxyanion hole (OAH) forming residues; other site 1123519006061 trimer interface [polypeptide binding]; other site 1123519006062 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1123519006063 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519006064 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519006065 active site 1123519006066 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519006067 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519006068 active site 1123519006069 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1123519006070 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 1123519006071 dimer interface [polypeptide binding]; other site 1123519006072 active site 1123519006073 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1123519006074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519006075 NAD(P) binding site [chemical binding]; other site 1123519006076 active site 1123519006077 isovaleryl-CoA dehydrogenase; Region: PLN02519 1123519006078 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1123519006079 substrate binding site [chemical binding]; other site 1123519006080 FAD binding site [chemical binding]; other site 1123519006081 catalytic base [active] 1123519006082 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1123519006083 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1123519006084 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 1123519006085 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 1123519006086 substrate binding site [chemical binding]; other site 1123519006087 oxyanion hole (OAH) forming residues; other site 1123519006088 trimer interface [polypeptide binding]; other site 1123519006089 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1123519006090 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1123519006091 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1123519006092 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1123519006093 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 1123519006094 carboxyltransferase (CT) interaction site; other site 1123519006095 biotinylation site [posttranslational modification]; other site 1123519006096 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1123519006097 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1123519006098 active site 1123519006099 catalytic residues [active] 1123519006100 metal binding site [ion binding]; metal-binding site 1123519006101 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1123519006102 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1123519006103 DNA binding residues [nucleotide binding] 1123519006104 putative dimer interface [polypeptide binding]; other site 1123519006105 Predicted membrane protein [Function unknown]; Region: COG2259 1123519006106 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519006107 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519006108 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1123519006109 DctM-like transporters; Region: DctM; pfam06808 1123519006110 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1123519006111 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519006112 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1123519006113 phosphoglucomutase; Validated; Region: PRK07564 1123519006114 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 1123519006115 active site 1123519006116 substrate binding site [chemical binding]; other site 1123519006117 metal binding site [ion binding]; metal-binding site 1123519006118 nucleoside transporter; Region: 2A0110; TIGR00889 1123519006119 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519006120 putative substrate translocation pore; other site 1123519006121 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1123519006122 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1123519006123 Metal-binding active site; metal-binding site 1123519006124 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1123519006125 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1123519006126 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1123519006127 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1123519006128 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1123519006129 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1123519006130 DNA binding site [nucleotide binding] 1123519006131 domain linker motif; other site 1123519006132 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1123519006133 dimerization interface [polypeptide binding]; other site 1123519006134 ligand binding site [chemical binding]; other site 1123519006135 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 1123519006136 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1123519006137 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 1123519006138 DEAD_2; Region: DEAD_2; pfam06733 1123519006139 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1123519006140 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519006141 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1123519006142 active site 1123519006143 catalytic residues [active] 1123519006144 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1123519006145 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1123519006146 putative ligand binding site [chemical binding]; other site 1123519006147 NAD binding site [chemical binding]; other site 1123519006148 catalytic site [active] 1123519006149 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1123519006150 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1123519006151 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1123519006152 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1123519006153 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 1123519006154 active site 1123519006155 tetramer interface [polypeptide binding]; other site 1123519006156 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1123519006157 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1123519006158 NAD(P) binding site [chemical binding]; other site 1123519006159 catalytic residues [active] 1123519006160 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 1123519006161 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1123519006162 putative active site [active] 1123519006163 catalytic residue [active] 1123519006164 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1123519006165 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 1123519006166 active site 1123519006167 tetramer interface [polypeptide binding]; other site 1123519006168 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1123519006169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519006170 active site 1123519006171 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 1123519006172 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519006173 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519006174 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1123519006175 DctM-like transporters; Region: DctM; pfam06808 1123519006176 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1123519006177 EamA-like transporter family; Region: EamA; cl17759 1123519006178 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1123519006179 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1123519006180 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519006181 DNA-binding site [nucleotide binding]; DNA binding site 1123519006182 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1123519006183 DNA polymerase II; Reviewed; Region: PRK05762 1123519006184 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1123519006185 active site 1123519006186 catalytic site [active] 1123519006187 substrate binding site [chemical binding]; other site 1123519006188 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 1123519006189 active site 1123519006190 metal-binding site 1123519006191 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1123519006192 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1123519006193 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1123519006194 GIY-YIG motif/motif A; other site 1123519006195 active site 1123519006196 catalytic site [active] 1123519006197 putative DNA binding site [nucleotide binding]; other site 1123519006198 metal binding site [ion binding]; metal-binding site 1123519006199 UvrB/uvrC motif; Region: UVR; pfam02151 1123519006200 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1123519006201 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 1123519006202 DNA binding site [nucleotide binding] 1123519006203 response regulator; Provisional; Region: PRK09483 1123519006204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519006205 active site 1123519006206 phosphorylation site [posttranslational modification] 1123519006207 intermolecular recognition site; other site 1123519006208 dimerization interface [polypeptide binding]; other site 1123519006209 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 1123519006210 DNA binding residues [nucleotide binding] 1123519006211 dimerization interface [polypeptide binding]; other site 1123519006212 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 1123519006213 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1123519006214 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1123519006215 NADP binding site [chemical binding]; other site 1123519006216 dimer interface [polypeptide binding]; other site 1123519006217 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1123519006218 putative inner membrane peptidase; Provisional; Region: PRK11778 1123519006219 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1123519006220 tandem repeat interface [polypeptide binding]; other site 1123519006221 oligomer interface [polypeptide binding]; other site 1123519006222 active site residues [active] 1123519006223 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 1123519006224 catalytic core [active] 1123519006225 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1123519006226 Phosphotransferase enzyme family; Region: APH; pfam01636 1123519006227 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 1123519006228 putative active site [active] 1123519006229 putative substrate binding site [chemical binding]; other site 1123519006230 ATP binding site [chemical binding]; other site 1123519006231 short chain dehydrogenase; Provisional; Region: PRK07035 1123519006232 classical (c) SDRs; Region: SDR_c; cd05233 1123519006233 NAD(P) binding site [chemical binding]; other site 1123519006234 active site 1123519006235 hypothetical protein; Provisional; Region: PRK10621 1123519006236 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1123519006237 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1123519006238 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1123519006239 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1123519006240 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 1123519006241 putative NADH binding site [chemical binding]; other site 1123519006242 putative active site [active] 1123519006243 nudix motif; other site 1123519006244 putative metal binding site [ion binding]; other site 1123519006245 enoyl-CoA hydratase; Provisional; Region: PRK06142 1123519006246 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 1123519006247 substrate binding site [chemical binding]; other site 1123519006248 oxyanion hole (OAH) forming residues; other site 1123519006249 trimer interface [polypeptide binding]; other site 1123519006250 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1123519006251 lysine decarboxylase LdcC; Provisional; Region: PRK15399 1123519006252 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 1123519006253 homodimer interface [polypeptide binding]; other site 1123519006254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519006255 catalytic residue [active] 1123519006256 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1123519006257 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1123519006258 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 1123519006259 active site 1123519006260 catalytic site [active] 1123519006261 substrate binding site [chemical binding]; other site 1123519006262 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1123519006263 RNA/DNA hybrid binding site [nucleotide binding]; other site 1123519006264 active site 1123519006265 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519006266 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1123519006267 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 1123519006268 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519006269 catalytic residue [active] 1123519006270 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519006271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519006272 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519006273 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1123519006274 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 1123519006275 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1123519006276 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 1123519006277 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1123519006278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519006279 dimer interface [polypeptide binding]; other site 1123519006280 conserved gate region; other site 1123519006281 ABC-ATPase subunit interface; other site 1123519006282 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1123519006283 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519006284 dimer interface [polypeptide binding]; other site 1123519006285 conserved gate region; other site 1123519006286 putative PBP binding loops; other site 1123519006287 ABC-ATPase subunit interface; other site 1123519006288 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1123519006289 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1123519006290 Walker A/P-loop; other site 1123519006291 ATP binding site [chemical binding]; other site 1123519006292 Q-loop/lid; other site 1123519006293 ABC transporter signature motif; other site 1123519006294 Walker B; other site 1123519006295 D-loop; other site 1123519006296 H-loop/switch region; other site 1123519006297 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1123519006298 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1123519006299 Walker A/P-loop; other site 1123519006300 ATP binding site [chemical binding]; other site 1123519006301 Q-loop/lid; other site 1123519006302 ABC transporter signature motif; other site 1123519006303 Walker B; other site 1123519006304 D-loop; other site 1123519006305 H-loop/switch region; other site 1123519006306 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1123519006307 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1123519006308 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1123519006309 NAD binding site [chemical binding]; other site 1123519006310 homotetramer interface [polypeptide binding]; other site 1123519006311 homodimer interface [polypeptide binding]; other site 1123519006312 substrate binding site [chemical binding]; other site 1123519006313 active site 1123519006314 periplasmic folding chaperone; Provisional; Region: PRK10788 1123519006315 SurA N-terminal domain; Region: SurA_N_3; pfam13624 1123519006316 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1123519006317 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 1123519006318 IHF dimer interface [polypeptide binding]; other site 1123519006319 IHF - DNA interface [nucleotide binding]; other site 1123519006320 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1123519006321 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1123519006322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519006323 Walker A motif; other site 1123519006324 ATP binding site [chemical binding]; other site 1123519006325 Walker B motif; other site 1123519006326 arginine finger; other site 1123519006327 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1123519006328 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1123519006329 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1123519006330 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519006331 Walker A motif; other site 1123519006332 ATP binding site [chemical binding]; other site 1123519006333 Walker B motif; other site 1123519006334 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1123519006335 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1123519006336 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1123519006337 oligomer interface [polypeptide binding]; other site 1123519006338 active site residues [active] 1123519006339 trigger factor; Provisional; Region: tig; PRK01490 1123519006340 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519006341 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1123519006342 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 1123519006343 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 1123519006344 FeS/SAM binding site; other site 1123519006345 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1123519006346 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1123519006347 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1123519006348 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1123519006349 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1123519006350 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 1123519006351 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1123519006352 [4Fe-4S] binding site [ion binding]; other site 1123519006353 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 1123519006354 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 1123519006355 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 1123519006356 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1123519006357 molybdopterin cofactor binding site; other site 1123519006358 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1123519006359 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519006360 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 1123519006361 Ligand Binding Site [chemical binding]; other site 1123519006362 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1123519006363 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1123519006364 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1123519006365 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 1123519006366 dimerization interface [polypeptide binding]; other site 1123519006367 Histidine kinase; Region: HisKA_3; pfam07730 1123519006368 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1123519006369 transcriptional regulator NarL; Provisional; Region: PRK10651 1123519006370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519006371 active site 1123519006372 phosphorylation site [posttranslational modification] 1123519006373 intermolecular recognition site; other site 1123519006374 dimerization interface [polypeptide binding]; other site 1123519006375 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 1123519006376 DNA binding residues [nucleotide binding] 1123519006377 dimerization interface [polypeptide binding]; other site 1123519006378 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1123519006379 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1123519006380 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1123519006381 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 1123519006382 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519006383 HTH DNA binding domain; Region: HTH_10; pfam04967 1123519006384 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519006385 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1123519006386 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519006387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519006388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519006389 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1123519006390 dimerization interface [polypeptide binding]; other site 1123519006391 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1123519006392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519006393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519006394 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 1123519006395 putative dimerization interface [polypeptide binding]; other site 1123519006396 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1123519006397 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 1123519006398 non-specific DNA binding site [nucleotide binding]; other site 1123519006399 salt bridge; other site 1123519006400 sequence-specific DNA binding site [nucleotide binding]; other site 1123519006401 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1123519006402 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1123519006403 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1123519006404 Protein of unknown function (DUF736); Region: DUF736; pfam05284 1123519006405 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1123519006406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519006407 Coenzyme A binding pocket [chemical binding]; other site 1123519006408 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1123519006409 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 1123519006410 oligomeric interface; other site 1123519006411 homodimer interface [polypeptide binding]; other site 1123519006412 putative active site [active] 1123519006413 hypothetical protein; Reviewed; Region: PRK00024 1123519006414 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1123519006415 MPN+ (JAMM) motif; other site 1123519006416 Zinc-binding site [ion binding]; other site 1123519006417 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1123519006418 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1123519006419 NAD binding site [chemical binding]; other site 1123519006420 substrate binding site [chemical binding]; other site 1123519006421 catalytic Zn binding site [ion binding]; other site 1123519006422 tetramer interface [polypeptide binding]; other site 1123519006423 structural Zn binding site [ion binding]; other site 1123519006424 Staphylococcal nuclease homologues; Region: SNc; smart00318 1123519006425 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 1123519006426 Catalytic site; other site 1123519006427 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 1123519006428 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1123519006429 Tenuivirus/Phlebovirus nucleocapsid protein; Region: Tenui_N; pfam05733 1123519006430 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1123519006431 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 1123519006432 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 1123519006433 ATP binding site [chemical binding]; other site 1123519006434 putative Mg++ binding site [ion binding]; other site 1123519006435 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 1123519006436 nucleotide binding region [chemical binding]; other site 1123519006437 ATP-binding site [chemical binding]; other site 1123519006438 Part of AAA domain; Region: AAA_19; pfam13245 1123519006439 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1123519006440 Family description; Region: UvrD_C_2; pfam13538 1123519006441 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1123519006442 Zn binding site [ion binding]; other site 1123519006443 NB-ARC domain; Region: NB-ARC; pfam00931 1123519006444 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 1123519006445 ATP binding site [chemical binding]; other site 1123519006446 putative Mg++ binding site [ion binding]; other site 1123519006447 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 1123519006448 nucleotide binding region [chemical binding]; other site 1123519006449 ATP-binding site [chemical binding]; other site 1123519006450 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 1123519006451 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1123519006452 nucleotide binding site/active site [active] 1123519006453 HIT family signature motif; other site 1123519006454 catalytic residue [active] 1123519006455 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1123519006456 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 1123519006457 ATP binding site [chemical binding]; other site 1123519006458 substrate interface [chemical binding]; other site 1123519006459 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1123519006460 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1123519006461 Walker A/P-loop; other site 1123519006462 ATP binding site [chemical binding]; other site 1123519006463 Q-loop/lid; other site 1123519006464 ABC transporter signature motif; other site 1123519006465 Walker B; other site 1123519006466 D-loop; other site 1123519006467 H-loop/switch region; other site 1123519006468 potential frameshift: common BLAST hit: gi|386013588|ref|YP_005931865.1| HicB family protein 1123519006469 Predicted transcriptional regulators [Transcription]; Region: COG1733 1123519006470 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1123519006471 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 1123519006472 NmrA-like family; Region: NmrA; pfam05368 1123519006473 NAD(P) binding site [chemical binding]; other site 1123519006474 active site lysine 1123519006475 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1123519006476 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1123519006477 active site 1123519006478 DNA binding site [nucleotide binding] 1123519006479 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1123519006480 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 1123519006481 Catalytic site [active] 1123519006482 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 1123519006483 sequence-specific DNA binding site [nucleotide binding]; other site 1123519006484 salt bridge; other site 1123519006485 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1123519006486 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1123519006487 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1123519006488 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1123519006489 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 1123519006490 Global regulator protein family; Region: CsrA; pfam02599 1123519006491 Replication initiator protein A; Region: RPA; pfam10134 1123519006492 ParA-like protein; Provisional; Region: PHA02518 1123519006493 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 1123519006494 P-loop; other site 1123519006495 Magnesium ion binding site [ion binding]; other site 1123519006496 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1123519006497 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 1123519006498 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1123519006499 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 1123519006500 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1123519006501 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1123519006502 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519006503 Outer membrane efflux protein; Region: OEP; pfam02321 1123519006504 putative transposase OrfB; Reviewed; Region: PHA02517 1123519006505 HTH-like domain; Region: HTH_21; pfam13276 1123519006506 Integrase core domain; Region: rve; pfam00665 1123519006507 Integrase core domain; Region: rve_3; pfam13683 1123519006508 Transposase; Region: HTH_Tnp_1; cl17663 1123519006509 Outer membrane efflux protein; Region: OEP; pfam02321 1123519006510 Protein of unknown function (DUF2790); Region: DUF2790; pfam10976 1123519006511 Inner membrane protein CreD; Region: CreD; cl01844 1123519006512 Domain of unknown function (DUF305); Region: DUF305; cl17794 1123519006513 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519006514 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1123519006515 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1123519006516 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1123519006517 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1123519006518 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1123519006519 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1123519006520 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1123519006521 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1123519006522 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1123519006523 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1123519006524 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 1123519006525 metal-binding site [ion binding] 1123519006526 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1123519006527 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1123519006528 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1123519006529 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1123519006530 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1123519006531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519006532 active site 1123519006533 phosphorylation site [posttranslational modification] 1123519006534 intermolecular recognition site; other site 1123519006535 dimerization interface [polypeptide binding]; other site 1123519006536 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 1123519006537 DNA binding site [nucleotide binding] 1123519006538 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1123519006539 HAMP domain; Region: HAMP; pfam00672 1123519006540 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 1123519006541 dimer interface [polypeptide binding]; other site 1123519006542 phosphorylation site [posttranslational modification] 1123519006543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519006544 ATP binding site [chemical binding]; other site 1123519006545 Mg2+ binding site [ion binding]; other site 1123519006546 G-X-G motif; other site 1123519006547 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 1123519006548 dimerization interface [polypeptide binding]; other site 1123519006549 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 1123519006550 salt bridge; other site 1123519006551 non-specific DNA binding site [nucleotide binding]; other site 1123519006552 sequence-specific DNA binding site [nucleotide binding]; other site 1123519006553 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1123519006554 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 1123519006555 substrate-cofactor binding pocket; other site 1123519006556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519006557 catalytic residue [active] 1123519006558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519006559 Coenzyme A binding pocket [chemical binding]; other site 1123519006560 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1123519006561 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1123519006562 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 1123519006563 active site 1123519006564 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 1123519006565 dimer interface [polypeptide binding]; other site 1123519006566 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 1123519006567 Ligand Binding Site [chemical binding]; other site 1123519006568 Molecular Tunnel; other site 1123519006569 MFS transport protein AraJ; Provisional; Region: PRK10091 1123519006570 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519006571 putative substrate translocation pore; other site 1123519006572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519006573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519006574 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 1123519006575 dimerization interface [polypeptide binding]; other site 1123519006576 substrate binding pocket [chemical binding]; other site 1123519006577 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1123519006578 RES domain; Region: RES; pfam08808 1123519006579 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 1123519006580 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 1123519006581 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1123519006582 ThiF family; Region: ThiF; pfam00899 1123519006583 ATP binding site [chemical binding]; other site 1123519006584 substrate interface [chemical binding]; other site 1123519006585 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 1123519006586 active site 1123519006587 NTP binding site [chemical binding]; other site 1123519006588 metal binding triad [ion binding]; metal-binding site 1123519006589 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 1123519006590 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 1123519006591 Walker A motif; other site 1123519006592 ATP binding site [chemical binding]; other site 1123519006593 Walker B motif; other site 1123519006594 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 1123519006595 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 1123519006596 ATP binding site [chemical binding]; other site 1123519006597 Walker A motif; other site 1123519006598 hexamer interface [polypeptide binding]; other site 1123519006599 Walker B motif; other site 1123519006600 TrbC/VIRB2 family; Region: TrbC; pfam04956 1123519006601 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 1123519006602 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 1123519006603 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1123519006604 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 1123519006605 Walker A motif; other site 1123519006606 ATP binding site [chemical binding]; other site 1123519006607 Walker B motif; other site 1123519006608 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519006609 Walker B; other site 1123519006610 D-loop; other site 1123519006611 H-loop/switch region; other site 1123519006612 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 1123519006613 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1123519006614 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1123519006615 conjugal transfer protein TrbL; Provisional; Region: PRK13875 1123519006616 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1123519006617 conjugal transfer protein TrbF; Provisional; Region: PRK13872 1123519006618 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1123519006619 VirB7 interaction site; other site 1123519006620 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 1123519006621 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 1123519006622 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1123519006623 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 1123519006624 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1123519006625 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1123519006626 active site 1123519006627 Int/Topo IB signature motif; other site 1123519006628 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1123519006629 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1123519006630 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1123519006631 homodimer interface [polypeptide binding]; other site 1123519006632 NADP binding site [chemical binding]; other site 1123519006633 substrate binding site [chemical binding]; other site 1123519006634 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1123519006635 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 1123519006636 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1123519006637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519006638 dimer interface [polypeptide binding]; other site 1123519006639 conserved gate region; other site 1123519006640 putative PBP binding loops; other site 1123519006641 ABC-ATPase subunit interface; other site 1123519006642 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1123519006643 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519006644 dimer interface [polypeptide binding]; other site 1123519006645 conserved gate region; other site 1123519006646 putative PBP binding loops; other site 1123519006647 ABC-ATPase subunit interface; other site 1123519006648 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1123519006649 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1123519006650 Walker A/P-loop; other site 1123519006651 ATP binding site [chemical binding]; other site 1123519006652 Q-loop/lid; other site 1123519006653 ABC transporter signature motif; other site 1123519006654 Walker B; other site 1123519006655 D-loop; other site 1123519006656 H-loop/switch region; other site 1123519006657 TOBE domain; Region: TOBE_2; pfam08402 1123519006658 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1123519006659 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1123519006660 Walker A/P-loop; other site 1123519006661 ATP binding site [chemical binding]; other site 1123519006662 Q-loop/lid; other site 1123519006663 ABC transporter signature motif; other site 1123519006664 Walker B; other site 1123519006665 D-loop; other site 1123519006666 H-loop/switch region; other site 1123519006667 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 1123519006668 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519006669 Walker A motif; other site 1123519006670 ATP binding site [chemical binding]; other site 1123519006671 Walker B motif; other site 1123519006672 arginine finger; other site 1123519006673 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519006674 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1123519006675 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1123519006676 active site 1123519006677 HIGH motif; other site 1123519006678 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1123519006679 KMSKS motif; other site 1123519006680 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1123519006681 tRNA binding surface [nucleotide binding]; other site 1123519006682 anticodon binding site; other site 1123519006683 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1123519006684 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1123519006685 active site 1123519006686 HIGH motif; other site 1123519006687 nucleotide binding site [chemical binding]; other site 1123519006688 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1123519006689 KMSKS motif; other site 1123519006690 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1123519006691 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 1123519006692 substrate binding site [chemical binding]; other site 1123519006693 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1123519006694 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1123519006695 putative active site [active] 1123519006696 putative metal binding site [ion binding]; other site 1123519006697 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1123519006698 active site 1123519006699 dinuclear metal binding site [ion binding]; other site 1123519006700 dimerization interface [polypeptide binding]; other site 1123519006701 universal stress protein UspE; Provisional; Region: PRK11175 1123519006702 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 1123519006703 Ligand Binding Site [chemical binding]; other site 1123519006704 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 1123519006705 Ligand Binding Site [chemical binding]; other site 1123519006706 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 1123519006707 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1123519006708 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 1123519006709 substrate binding site [chemical binding]; other site 1123519006710 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1123519006711 substrate binding site [chemical binding]; other site 1123519006712 ligand binding site [chemical binding]; other site 1123519006713 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1123519006714 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519006715 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519006716 ligand binding site [chemical binding]; other site 1123519006717 RNA polymerase sigma factor SigX; Reviewed; Region: PRK09640 1123519006718 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519006719 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 1123519006720 DNA binding residues [nucleotide binding] 1123519006721 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1123519006722 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1123519006723 Cl binding site [ion binding]; other site 1123519006724 oligomer interface [polypeptide binding]; other site 1123519006725 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1123519006726 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1123519006727 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1123519006728 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1123519006729 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1123519006730 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1123519006731 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1123519006732 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1123519006733 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1123519006734 substrate binding site [chemical binding]; other site 1123519006735 ligand binding site [chemical binding]; other site 1123519006736 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 1123519006737 substrate binding site [chemical binding]; other site 1123519006738 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1123519006739 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 1123519006740 dimer interface [polypeptide binding]; other site 1123519006741 active site 1123519006742 citrylCoA binding site [chemical binding]; other site 1123519006743 oxalacetate/citrate binding site [chemical binding]; other site 1123519006744 coenzyme A binding site [chemical binding]; other site 1123519006745 catalytic triad [active] 1123519006746 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1123519006747 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 1123519006748 tetramer interface [polypeptide binding]; other site 1123519006749 active site 1123519006750 Mg2+/Mn2+ binding site [ion binding]; other site 1123519006751 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1123519006752 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519006753 DNA-binding site [nucleotide binding]; DNA binding site 1123519006754 FCD domain; Region: FCD; pfam07729 1123519006755 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1123519006756 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 1123519006757 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 1123519006758 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 1123519006759 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1123519006760 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1123519006761 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1123519006762 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1123519006763 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 1123519006764 substrate binding pocket [chemical binding]; other site 1123519006765 membrane-bound complex binding site; other site 1123519006766 hinge residues; other site 1123519006767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519006768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519006769 metal binding site [ion binding]; metal-binding site 1123519006770 active site 1123519006771 I-site; other site 1123519006772 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 1123519006773 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519006774 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519006775 dimer interface [polypeptide binding]; other site 1123519006776 putative CheW interface [polypeptide binding]; other site 1123519006777 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1123519006778 arginine deiminase; Provisional; Region: PRK01388 1123519006779 ornithine carbamoyltransferase; Validated; Region: PRK02102 1123519006780 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1123519006781 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1123519006782 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1123519006783 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 1123519006784 putative substrate binding site [chemical binding]; other site 1123519006785 nucleotide binding site [chemical binding]; other site 1123519006786 nucleotide binding site [chemical binding]; other site 1123519006787 homodimer interface [polypeptide binding]; other site 1123519006788 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 1123519006789 PAS domain; Region: PAS_9; pfam13426 1123519006790 putative active site [active] 1123519006791 heme pocket [chemical binding]; other site 1123519006792 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519006793 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 1123519006794 dimer interface [polypeptide binding]; other site 1123519006795 phosphorylation site [posttranslational modification] 1123519006796 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519006797 ATP binding site [chemical binding]; other site 1123519006798 Mg2+ binding site [ion binding]; other site 1123519006799 G-X-G motif; other site 1123519006800 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519006801 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519006802 active site 1123519006803 phosphorylation site [posttranslational modification] 1123519006804 intermolecular recognition site; other site 1123519006805 dimerization interface [polypeptide binding]; other site 1123519006806 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 1123519006807 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1123519006808 putative active site [active] 1123519006809 metal binding site [ion binding]; metal-binding site 1123519006810 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1123519006811 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1123519006812 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1123519006813 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 1123519006814 FeS/SAM binding site; other site 1123519006815 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1123519006816 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 1123519006817 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 1123519006818 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 1123519006819 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 1123519006820 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1123519006821 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1123519006822 NAD(P) binding site [chemical binding]; other site 1123519006823 catalytic residues [active] 1123519006824 PAAR motif; Region: PAAR_motif; pfam05488 1123519006825 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 1123519006826 PqqA family; Region: PqqA; pfam08042 1123519006827 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 1123519006828 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1123519006829 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 1123519006830 FeS/SAM binding site; other site 1123519006831 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1123519006832 Predicted membrane protein [Function unknown]; Region: COG3748 1123519006833 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 1123519006834 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519006835 catalytic residue [active] 1123519006836 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 1123519006837 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 1123519006838 phosphate binding site [ion binding]; other site 1123519006839 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1123519006840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519006841 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519006842 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1123519006843 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519006844 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519006845 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519006846 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519006847 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1123519006848 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1123519006849 Protein export membrane protein; Region: SecD_SecF; cl14618 1123519006850 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1123519006851 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519006852 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519006853 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1123519006854 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1123519006855 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1123519006856 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1123519006857 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 1123519006858 dimer interface [polypeptide binding]; other site 1123519006859 catalytic triad [active] 1123519006860 peroxidatic and resolving cysteines [active] 1123519006861 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1123519006862 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1123519006863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519006864 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1123519006865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519006866 dimer interface [polypeptide binding]; other site 1123519006867 conserved gate region; other site 1123519006868 putative PBP binding loops; other site 1123519006869 ABC-ATPase subunit interface; other site 1123519006870 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1123519006871 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1123519006872 Walker A/P-loop; other site 1123519006873 ATP binding site [chemical binding]; other site 1123519006874 Q-loop/lid; other site 1123519006875 ABC transporter signature motif; other site 1123519006876 Walker B; other site 1123519006877 D-loop; other site 1123519006878 H-loop/switch region; other site 1123519006879 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1123519006880 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 1123519006881 substrate binding pocket [chemical binding]; other site 1123519006882 membrane-bound complex binding site; other site 1123519006883 hinge residues; other site 1123519006884 recombination protein RecR; Reviewed; Region: recR; PRK00076 1123519006885 RecR protein; Region: RecR; pfam02132 1123519006886 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 1123519006887 putative active site [active] 1123519006888 putative metal-binding site [ion binding]; other site 1123519006889 tetramer interface [polypeptide binding]; other site 1123519006890 hypothetical protein; Validated; Region: PRK00153 1123519006891 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1123519006892 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519006893 Walker A motif; other site 1123519006894 ATP binding site [chemical binding]; other site 1123519006895 Walker B motif; other site 1123519006896 arginine finger; other site 1123519006897 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1123519006898 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1123519006899 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1123519006900 ligand binding site [chemical binding]; other site 1123519006901 NAD binding site [chemical binding]; other site 1123519006902 catalytic site [active] 1123519006903 homodimer interface [polypeptide binding]; other site 1123519006904 multidrug efflux protein; Reviewed; Region: PRK01766 1123519006905 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1123519006906 cation binding site [ion binding]; other site 1123519006907 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 1123519006908 active site 1123519006909 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1123519006910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519006911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519006912 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 1123519006913 putative effector binding pocket; other site 1123519006914 dimerization interface [polypeptide binding]; other site 1123519006915 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1123519006916 spermidine synthase; Provisional; Region: PRK00811 1123519006917 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519006918 S-adenosylmethionine binding site [chemical binding]; other site 1123519006919 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1123519006920 AlkA N-terminal domain; Region: AlkA_N; pfam06029 1123519006921 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1123519006922 minor groove reading motif; other site 1123519006923 helix-hairpin-helix signature motif; other site 1123519006924 substrate binding pocket [chemical binding]; other site 1123519006925 active site 1123519006926 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1123519006927 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 1123519006928 Cupin domain; Region: Cupin_2; cl17218 1123519006929 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519006930 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519006931 putative substrate translocation pore; other site 1123519006932 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1123519006933 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1123519006934 Tetramer interface [polypeptide binding]; other site 1123519006935 active site 1123519006936 FMN-binding site [chemical binding]; other site 1123519006937 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1123519006938 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519006939 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1123519006940 catalytic site [active] 1123519006941 HemK family putative methylases; Region: hemK_fam; TIGR00536 1123519006942 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519006943 S-adenosylmethionine binding site [chemical binding]; other site 1123519006944 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 1123519006945 Isochorismatase family; Region: Isochorismatase; pfam00857 1123519006946 catalytic triad [active] 1123519006947 conserved cis-peptide bond; other site 1123519006948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1123519006949 Smr domain; Region: Smr; pfam01713 1123519006950 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1123519006951 homodecamer interface [polypeptide binding]; other site 1123519006952 GTP cyclohydrolase I; Provisional; Region: PLN03044 1123519006953 active site 1123519006954 putative catalytic site residues [active] 1123519006955 zinc binding site [ion binding]; other site 1123519006956 GTP-CH-I/GFRP interaction surface; other site 1123519006957 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519006958 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 1123519006959 putative C-terminal domain interface [polypeptide binding]; other site 1123519006960 putative GSH binding site (G-site) [chemical binding]; other site 1123519006961 putative dimer interface [polypeptide binding]; other site 1123519006962 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1123519006963 N-terminal domain interface [polypeptide binding]; other site 1123519006964 dimer interface [polypeptide binding]; other site 1123519006965 substrate binding pocket (H-site) [chemical binding]; other site 1123519006966 aspartate aminotransferase; Provisional; Region: PRK05764 1123519006967 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 1123519006968 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519006969 homodimer interface [polypeptide binding]; other site 1123519006970 catalytic residue [active] 1123519006971 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1123519006972 MarR family; Region: MarR_2; pfam12802 1123519006973 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1123519006974 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 1123519006975 RNA binding site [nucleotide binding]; other site 1123519006976 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 1123519006977 RNA binding site [nucleotide binding]; other site 1123519006978 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 1123519006979 RNA binding site [nucleotide binding]; other site 1123519006980 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 1123519006981 RNA binding site [nucleotide binding]; other site 1123519006982 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 1123519006983 RNA binding site [nucleotide binding]; other site 1123519006984 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 1123519006985 RNA binding site [nucleotide binding]; other site 1123519006986 cytidylate kinase; Provisional; Region: cmk; PRK00023 1123519006987 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 1123519006988 CMP-binding site; other site 1123519006989 The sites determining sugar specificity; other site 1123519006990 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 1123519006991 prephenate dehydrogenase; Validated; Region: PRK08507 1123519006992 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 1123519006993 hinge; other site 1123519006994 active site 1123519006995 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1123519006996 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 1123519006997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519006998 homodimer interface [polypeptide binding]; other site 1123519006999 catalytic residue [active] 1123519007000 chorismate mutase domain of proteobacterial P-protein, clade 2; Region: CM_P2; TIGR01807 1123519007001 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1123519007002 Prephenate dehydratase; Region: PDT; pfam00800 1123519007003 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 1123519007004 putative L-Phe binding site [chemical binding]; other site 1123519007005 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 1123519007006 homodimer interface [polypeptide binding]; other site 1123519007007 substrate-cofactor binding pocket; other site 1123519007008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519007009 catalytic residue [active] 1123519007010 DNA gyrase subunit A; Validated; Region: PRK05560 1123519007011 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 1123519007012 CAP-like domain; other site 1123519007013 active site 1123519007014 primary dimer interface [polypeptide binding]; other site 1123519007015 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007016 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007017 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007018 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007019 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007020 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1123519007021 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 1123519007022 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 1123519007023 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519007024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007025 active site 1123519007026 phosphorylation site [posttranslational modification] 1123519007027 intermolecular recognition site; other site 1123519007028 dimerization interface [polypeptide binding]; other site 1123519007029 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 1123519007030 DNA binding site [nucleotide binding] 1123519007031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519007032 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 1123519007033 dimerization interface [polypeptide binding]; other site 1123519007034 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 1123519007035 dimer interface [polypeptide binding]; other site 1123519007036 phosphorylation site [posttranslational modification] 1123519007037 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007038 ATP binding site [chemical binding]; other site 1123519007039 Mg2+ binding site [ion binding]; other site 1123519007040 G-X-G motif; other site 1123519007041 putative outer membrane receptor; Provisional; Region: PRK13513 1123519007042 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 1123519007043 N-terminal plug; other site 1123519007044 ligand-binding site [chemical binding]; other site 1123519007045 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1123519007046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519007047 S-adenosylmethionine binding site [chemical binding]; other site 1123519007048 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 1123519007049 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519007050 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1123519007051 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519007052 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1123519007053 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 1123519007054 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519007055 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 1123519007056 dimer interface [polypeptide binding]; other site 1123519007057 phosphorylation site [posttranslational modification] 1123519007058 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007059 ATP binding site [chemical binding]; other site 1123519007060 Mg2+ binding site [ion binding]; other site 1123519007061 G-X-G motif; other site 1123519007062 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 1123519007063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007064 active site 1123519007065 phosphorylation site [posttranslational modification] 1123519007066 intermolecular recognition site; other site 1123519007067 dimerization interface [polypeptide binding]; other site 1123519007068 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 1123519007069 DNA binding site [nucleotide binding] 1123519007070 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519007071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 1123519007072 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 1123519007073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 1123519007074 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1123519007075 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1123519007076 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1123519007077 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1123519007078 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 1123519007079 motif II; other site 1123519007080 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1123519007081 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 1123519007082 Active Sites [active] 1123519007083 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1123519007084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519007085 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1123519007086 substrate binding site [chemical binding]; other site 1123519007087 dimerization interface [polypeptide binding]; other site 1123519007088 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1123519007089 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1123519007090 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1123519007091 L,D-transpeptidase; Provisional; Region: PRK10260 1123519007092 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1123519007093 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 1123519007094 active site 1123519007095 catalytic triad [active] 1123519007096 oxyanion hole [active] 1123519007097 switch loop; other site 1123519007098 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1123519007099 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1123519007100 Walker A/P-loop; other site 1123519007101 ATP binding site [chemical binding]; other site 1123519007102 Q-loop/lid; other site 1123519007103 ABC transporter signature motif; other site 1123519007104 Walker B; other site 1123519007105 D-loop; other site 1123519007106 H-loop/switch region; other site 1123519007107 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1123519007108 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1123519007109 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1123519007110 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1123519007111 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519007112 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1123519007113 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 1123519007114 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519007115 catalytic residue [active] 1123519007116 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1123519007117 active site 1123519007118 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519007119 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 1123519007120 dimerization interface [polypeptide binding]; other site 1123519007121 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519007122 dimer interface [polypeptide binding]; other site 1123519007123 putative CheW interface [polypeptide binding]; other site 1123519007124 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1123519007125 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 1123519007126 active site 1123519007127 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 1123519007128 active site 2 [active] 1123519007129 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 1123519007130 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 1123519007131 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 1123519007132 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 1123519007133 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1123519007134 Protein of unknown function DUF58; Region: DUF58; pfam01882 1123519007135 MoxR-like ATPases [General function prediction only]; Region: COG0714 1123519007136 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519007137 Walker A motif; other site 1123519007138 ATP binding site [chemical binding]; other site 1123519007139 Walker B motif; other site 1123519007140 arginine finger; other site 1123519007141 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1123519007142 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1123519007143 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1123519007144 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1123519007145 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 1123519007146 active site 1123519007147 motif I; other site 1123519007148 motif II; other site 1123519007149 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1123519007150 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1123519007151 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1123519007152 active site residue [active] 1123519007153 selenophosphate synthetase; Provisional; Region: PRK00943 1123519007154 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 1123519007155 dimerization interface [polypeptide binding]; other site 1123519007156 putative ATP binding site [chemical binding]; other site 1123519007157 hypothetical protein; Provisional; Region: PRK10279 1123519007158 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1123519007159 active site 1123519007160 nucleophile elbow; other site 1123519007161 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1123519007162 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519007163 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; cl00322 1123519007164 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1123519007165 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 1123519007166 CoenzymeA binding site [chemical binding]; other site 1123519007167 subunit interaction site [polypeptide binding]; other site 1123519007168 PHB binding site; other site 1123519007169 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 1123519007170 catalytic core [active] 1123519007171 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 1123519007172 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1123519007173 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1123519007174 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1123519007175 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 1123519007176 active site 1 [active] 1123519007177 dimer interface [polypeptide binding]; other site 1123519007178 active site 2 [active] 1123519007179 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1123519007180 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 1123519007181 dimer interface [polypeptide binding]; other site 1123519007182 active site 1123519007183 serine/threonine transporter SstT; Provisional; Region: PRK13628 1123519007184 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1123519007185 Amidohydrolase; Region: Amidohydro_2; pfam04909 1123519007186 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1123519007187 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 1123519007188 active site 1123519007189 metal binding site [ion binding]; metal-binding site 1123519007190 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 1123519007191 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1123519007192 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 1123519007193 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 1123519007194 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 1123519007195 Chromate transporter; Region: Chromate_transp; pfam02417 1123519007196 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519007197 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 1123519007198 ligand binding site [chemical binding]; other site 1123519007199 flexible hinge region; other site 1123519007200 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519007201 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 1123519007202 ligand binding site [chemical binding]; other site 1123519007203 flexible hinge region; other site 1123519007204 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 1123519007205 active site residue [active] 1123519007206 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 1123519007207 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1123519007208 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 1123519007209 active site 1123519007210 FMN binding site [chemical binding]; other site 1123519007211 2,4-decadienoyl-CoA binding site; other site 1123519007212 catalytic residue [active] 1123519007213 4Fe-4S cluster binding site [ion binding]; other site 1123519007214 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 1123519007215 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519007216 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1123519007217 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1123519007218 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519007219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519007220 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 1123519007221 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1123519007222 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1123519007223 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1123519007224 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1123519007225 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1123519007226 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 1123519007227 dimer interface [polypeptide binding]; other site 1123519007228 active site 1123519007229 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 1123519007230 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1123519007231 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1123519007232 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1123519007233 Bacterial transcriptional regulator; Region: IclR; pfam01614 1123519007234 Protein of unknown function (DUF1652); Region: DUF1652; pfam07865 1123519007235 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1123519007236 YccA-like proteins; Region: YccA_like; cd10433 1123519007237 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1123519007238 sulfur relay protein TusC; Validated; Region: PRK00211 1123519007239 DsrH like protein; Region: DsrH; pfam04077 1123519007240 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1123519007241 DsrC like protein; Region: DsrC; pfam04358 1123519007242 hypothetical protein; Validated; Region: PRK09071 1123519007243 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1123519007244 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1123519007245 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1123519007246 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1123519007247 putative dimer interface [polypeptide binding]; other site 1123519007248 N-terminal domain interface [polypeptide binding]; other site 1123519007249 putative substrate binding pocket (H-site) [chemical binding]; other site 1123519007250 siroheme synthase; Provisional; Region: cysG; PRK10637 1123519007251 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1123519007252 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1123519007253 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1123519007254 active site 1123519007255 SAM binding site [chemical binding]; other site 1123519007256 homodimer interface [polypeptide binding]; other site 1123519007257 seryl-tRNA synthetase; Provisional; Region: PRK05431 1123519007258 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1123519007259 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 1123519007260 dimer interface [polypeptide binding]; other site 1123519007261 active site 1123519007262 motif 1; other site 1123519007263 motif 2; other site 1123519007264 motif 3; other site 1123519007265 camphor resistance protein CrcB; Provisional; Region: PRK14234 1123519007266 recombination factor protein RarA; Reviewed; Region: PRK13342 1123519007267 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519007268 Walker A motif; other site 1123519007269 ATP binding site [chemical binding]; other site 1123519007270 Walker B motif; other site 1123519007271 arginine finger; other site 1123519007272 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1123519007273 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1123519007274 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1123519007275 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1123519007276 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1123519007277 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1123519007278 thioredoxin reductase; Provisional; Region: PRK10262 1123519007279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519007280 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519007281 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1123519007282 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1123519007283 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1123519007284 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1123519007285 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 1123519007286 rRNA binding site [nucleotide binding]; other site 1123519007287 predicted 30S ribosome binding site; other site 1123519007288 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1123519007289 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519007290 Walker A motif; other site 1123519007291 ATP binding site [chemical binding]; other site 1123519007292 Walker B motif; other site 1123519007293 arginine finger; other site 1123519007294 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519007295 Walker A motif; other site 1123519007296 ATP binding site [chemical binding]; other site 1123519007297 Walker B motif; other site 1123519007298 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1123519007299 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1123519007300 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 1123519007301 DNA-binding site [nucleotide binding]; DNA binding site 1123519007302 RNA-binding motif; other site 1123519007303 isocitrate dehydrogenase; Validated; Region: PRK07362 1123519007304 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1123519007305 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1123519007306 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 1123519007307 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 1123519007308 nudix motif; other site 1123519007309 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1123519007310 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 1123519007311 putative lysogenization regulator; Reviewed; Region: PRK00218 1123519007312 adenylosuccinate lyase; Provisional; Region: PRK09285 1123519007313 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1123519007314 tetramer interface [polypeptide binding]; other site 1123519007315 active site 1123519007316 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1123519007317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519007318 Coenzyme A binding pocket [chemical binding]; other site 1123519007319 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1123519007320 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 1123519007321 tetramer interface [polypeptide binding]; other site 1123519007322 active site 1123519007323 Mg2+/Mn2+ binding site [ion binding]; other site 1123519007324 isocitrate lyase; Region: PLN02892 1123519007325 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1123519007326 Predicted permease [General function prediction only]; Region: COG2056 1123519007327 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1123519007328 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 1123519007329 active site 1123519007330 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1123519007331 homotrimer interaction site [polypeptide binding]; other site 1123519007332 putative active site [active] 1123519007333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519007334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519007335 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 1123519007336 putative effector binding pocket; other site 1123519007337 putative dimerization interface [polypeptide binding]; other site 1123519007338 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 1123519007339 CPxP motif; other site 1123519007340 aconitate hydratase; Validated; Region: PRK09277 1123519007341 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1123519007342 substrate binding site [chemical binding]; other site 1123519007343 ligand binding site [chemical binding]; other site 1123519007344 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 1123519007345 substrate binding site [chemical binding]; other site 1123519007346 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 1123519007347 PAS domain; Region: PAS_9; pfam13426 1123519007348 putative active site [active] 1123519007349 heme pocket [chemical binding]; other site 1123519007350 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519007351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519007352 dimer interface [polypeptide binding]; other site 1123519007353 putative CheW interface [polypeptide binding]; other site 1123519007354 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 1123519007355 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 1123519007356 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1123519007357 Low-spin heme binding site [chemical binding]; other site 1123519007358 Putative water exit pathway; other site 1123519007359 Binuclear center (active site) [active] 1123519007360 Putative proton exit pathway; other site 1123519007361 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1123519007362 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1123519007363 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1123519007364 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519007365 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519007366 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 1123519007367 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1123519007368 Low-spin heme binding site [chemical binding]; other site 1123519007369 Putative water exit pathway; other site 1123519007370 Binuclear center (active site) [active] 1123519007371 Putative proton exit pathway; other site 1123519007372 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1123519007373 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1123519007374 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1123519007375 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1123519007376 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1123519007377 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519007378 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1123519007379 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1123519007380 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1123519007381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1123519007382 FixH; Region: FixH; pfam05751 1123519007383 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1123519007384 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1123519007385 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 1123519007386 metal-binding site [ion binding] 1123519007387 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1123519007388 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 1123519007389 motif II; other site 1123519007390 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1123519007391 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1123519007392 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1123519007393 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 1123519007394 homodimer interface [polypeptide binding]; other site 1123519007395 NAD binding pocket [chemical binding]; other site 1123519007396 ATP binding pocket [chemical binding]; other site 1123519007397 Mg binding site [ion binding]; other site 1123519007398 active-site loop [active] 1123519007399 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1123519007400 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 1123519007401 FeS/SAM binding site; other site 1123519007402 HemN C-terminal domain; Region: HemN_C; pfam06969 1123519007403 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1123519007404 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 1123519007405 ligand binding site [chemical binding]; other site 1123519007406 flexible hinge region; other site 1123519007407 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 1123519007408 putative switch regulator; other site 1123519007409 non-specific DNA interactions [nucleotide binding]; other site 1123519007410 DNA binding site [nucleotide binding] 1123519007411 sequence specific DNA binding site [nucleotide binding]; other site 1123519007412 putative cAMP binding site [chemical binding]; other site 1123519007413 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519007414 active site 1123519007415 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 1123519007416 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1123519007417 Cu(I) binding site [ion binding]; other site 1123519007418 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 1123519007419 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 1123519007420 active site 1123519007421 putative substrate binding pocket [chemical binding]; other site 1123519007422 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1123519007423 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519007424 S-adenosylmethionine binding site [chemical binding]; other site 1123519007425 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1123519007426 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1123519007427 active site 1123519007428 motif I; other site 1123519007429 motif II; other site 1123519007430 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 1123519007431 motif II; other site 1123519007432 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1123519007433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519007434 NAD(P) binding site [chemical binding]; other site 1123519007435 active site 1123519007436 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1123519007437 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 1123519007438 RNA binding surface [nucleotide binding]; other site 1123519007439 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1123519007440 probable active site [active] 1123519007441 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1123519007442 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1123519007443 active site 1123519007444 intersubunit interface [polypeptide binding]; other site 1123519007445 catalytic residue [active] 1123519007446 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1123519007447 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 1123519007448 putative active site [active] 1123519007449 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1123519007450 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1123519007451 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1123519007452 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1123519007453 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1123519007454 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 1123519007455 putative active site [active] 1123519007456 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1123519007457 trimer interface; other site 1123519007458 sugar binding site [chemical binding]; other site 1123519007459 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1123519007460 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1123519007461 Walker A/P-loop; other site 1123519007462 ATP binding site [chemical binding]; other site 1123519007463 Q-loop/lid; other site 1123519007464 ABC transporter signature motif; other site 1123519007465 Walker B; other site 1123519007466 D-loop; other site 1123519007467 H-loop/switch region; other site 1123519007468 TOBE domain; Region: TOBE; pfam03459 1123519007469 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1123519007470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519007471 dimer interface [polypeptide binding]; other site 1123519007472 conserved gate region; other site 1123519007473 putative PBP binding loops; other site 1123519007474 ABC-ATPase subunit interface; other site 1123519007475 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519007476 dimer interface [polypeptide binding]; other site 1123519007477 conserved gate region; other site 1123519007478 putative PBP binding loops; other site 1123519007479 ABC-ATPase subunit interface; other site 1123519007480 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1123519007481 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1123519007482 N-acylglucosamine 2-epimerase (GlcNAc 2-epimerase); Region: GlcNAc_2-epim; pfam07221 1123519007483 putative active cleft [active] 1123519007484 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 1123519007485 dimerization interface [polypeptide binding]; other site 1123519007486 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 1123519007487 dimer interface [polypeptide binding]; other site 1123519007488 phosphorylation site [posttranslational modification] 1123519007489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007490 ATP binding site [chemical binding]; other site 1123519007491 Mg2+ binding site [ion binding]; other site 1123519007492 G-X-G motif; other site 1123519007493 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519007494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007495 active site 1123519007496 phosphorylation site [posttranslational modification] 1123519007497 intermolecular recognition site; other site 1123519007498 dimerization interface [polypeptide binding]; other site 1123519007499 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 1123519007500 DNA binding site [nucleotide binding] 1123519007501 glucokinase; Provisional; Region: glk; PRK00292 1123519007502 glucokinase, proteobacterial type; Region: glk; TIGR00749 1123519007503 phosphogluconate dehydratase; Validated; Region: PRK09054 1123519007504 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1123519007505 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1123519007506 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1123519007507 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1123519007508 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1123519007509 active site 1123519007510 dimer interfaces [polypeptide binding]; other site 1123519007511 catalytic residues [active] 1123519007512 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1123519007513 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1123519007514 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1123519007515 active site 1123519007516 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1123519007517 HIGH motif; other site 1123519007518 dimer interface [polypeptide binding]; other site 1123519007519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1123519007520 active site 1123519007521 KMSKS motif; other site 1123519007522 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1123519007523 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1123519007524 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1123519007525 active site 1123519007526 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1123519007527 YciI-like protein; Reviewed; Region: PRK11370 1123519007528 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519007529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007530 active site 1123519007531 phosphorylation site [posttranslational modification] 1123519007532 intermolecular recognition site; other site 1123519007533 dimerization interface [polypeptide binding]; other site 1123519007534 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 1123519007535 DNA binding site [nucleotide binding] 1123519007536 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1123519007537 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519007538 HAMP domain; Region: HAMP; pfam00672 1123519007539 dimerization interface [polypeptide binding]; other site 1123519007540 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 1123519007541 dimer interface [polypeptide binding]; other site 1123519007542 phosphorylation site [posttranslational modification] 1123519007543 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007544 ATP binding site [chemical binding]; other site 1123519007545 G-X-G motif; other site 1123519007546 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 1123519007547 putative FMN binding site [chemical binding]; other site 1123519007548 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1123519007549 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 1123519007550 dimer interface [polypeptide binding]; other site 1123519007551 active site 1123519007552 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1123519007553 folate binding site [chemical binding]; other site 1123519007554 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 1123519007555 acetylornithine aminotransferase; Provisional; Region: PRK02627 1123519007556 inhibitor-cofactor binding pocket; inhibition site 1123519007557 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519007558 catalytic residue [active] 1123519007559 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1123519007560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519007561 catalytic residue [active] 1123519007562 benzoate transporter; Region: benE; TIGR00843 1123519007563 Benzoate membrane transport protein; Region: BenE; pfam03594 1123519007564 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 1123519007565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519007566 DNA-binding site [nucleotide binding]; DNA binding site 1123519007567 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 1123519007568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519007569 homodimer interface [polypeptide binding]; other site 1123519007570 catalytic residue [active] 1123519007571 Flagellin N-methylase; Region: FliB; cl00497 1123519007572 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1123519007573 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1123519007574 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 1123519007575 nucleoside/Zn binding site; other site 1123519007576 dimer interface [polypeptide binding]; other site 1123519007577 catalytic motif [active] 1123519007578 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1123519007579 MASE2 domain; Region: MASE2; pfam05230 1123519007580 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 1123519007581 cyclase homology domain; Region: CHD; cd07302 1123519007582 nucleotidyl binding site; other site 1123519007583 metal binding site [ion binding]; metal-binding site 1123519007584 dimer interface [polypeptide binding]; other site 1123519007585 Cupin domain; Region: Cupin_2; pfam07883 1123519007586 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519007587 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519007588 EamA-like transporter family; Region: EamA; pfam00892 1123519007589 Rdx family; Region: Rdx; cl01407 1123519007590 hypothetical protein; Provisional; Region: PRK10279 1123519007591 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 1123519007592 active site 1123519007593 nucleophile elbow; other site 1123519007594 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519007595 Surface antigen; Region: Bac_surface_Ag; pfam01103 1123519007596 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1123519007597 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1123519007598 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1123519007599 active site 1123519007600 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1123519007601 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1123519007602 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1123519007603 aminopeptidase N; Provisional; Region: pepN; PRK14015 1123519007604 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1123519007605 active site 1123519007606 Zn binding site [ion binding]; other site 1123519007607 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 1123519007608 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 1123519007609 Transposase; Region: HTH_Tnp_1; cl17663 1123519007610 putative transposase OrfB; Reviewed; Region: PHA02517 1123519007611 HTH-like domain; Region: HTH_21; pfam13276 1123519007612 Integrase core domain; Region: rve; pfam00665 1123519007613 Integrase core domain; Region: rve_3; pfam13683 1123519007614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1123519007615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1123519007616 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1123519007617 synthetase active site [active] 1123519007618 metal binding site [ion binding]; metal-binding site 1123519007619 NTP binding site [chemical binding]; other site 1123519007620 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1123519007621 dimer interface [polypeptide binding]; other site 1123519007622 putative radical transfer pathway; other site 1123519007623 diiron center [ion binding]; other site 1123519007624 tyrosyl radical; other site 1123519007625 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 1123519007626 ATP cone domain; Region: ATP-cone; pfam03477 1123519007627 ATP cone domain; Region: ATP-cone; pfam03477 1123519007628 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1123519007629 active site 1123519007630 dimer interface [polypeptide binding]; other site 1123519007631 catalytic residues [active] 1123519007632 effector binding site; other site 1123519007633 R2 peptide binding site; other site 1123519007634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519007635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007636 active site 1123519007637 phosphorylation site [posttranslational modification] 1123519007638 intermolecular recognition site; other site 1123519007639 dimerization interface [polypeptide binding]; other site 1123519007640 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 1123519007641 DNA binding site [nucleotide binding] 1123519007642 sensor protein RstB; Provisional; Region: PRK10604 1123519007643 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 1123519007644 dimerization interface [polypeptide binding]; other site 1123519007645 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 1123519007646 dimer interface [polypeptide binding]; other site 1123519007647 phosphorylation site [posttranslational modification] 1123519007648 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007649 ATP binding site [chemical binding]; other site 1123519007650 Mg2+ binding site [ion binding]; other site 1123519007651 G-X-G motif; other site 1123519007652 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1123519007653 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1123519007654 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 1123519007655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519007656 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1123519007657 putative dimerization interface [polypeptide binding]; other site 1123519007658 Predicted membrane protein [Function unknown]; Region: COG2860 1123519007659 UPF0126 domain; Region: UPF0126; pfam03458 1123519007660 UPF0126 domain; Region: UPF0126; pfam03458 1123519007661 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1123519007662 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 1123519007663 dimerization interface [polypeptide binding]; other site 1123519007664 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 1123519007665 dimer interface [polypeptide binding]; other site 1123519007666 phosphorylation site [posttranslational modification] 1123519007667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519007668 ATP binding site [chemical binding]; other site 1123519007669 Mg2+ binding site [ion binding]; other site 1123519007670 G-X-G motif; other site 1123519007671 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519007672 active site 1123519007673 phosphorylation site [posttranslational modification] 1123519007674 intermolecular recognition site; other site 1123519007675 dimerization interface [polypeptide binding]; other site 1123519007676 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 1123519007677 putative binding surface; other site 1123519007678 active site 1123519007679 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1123519007680 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1123519007681 cysteine synthase B; Region: cysM; TIGR01138 1123519007682 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 1123519007683 dimer interface [polypeptide binding]; other site 1123519007684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519007685 catalytic residue [active] 1123519007686 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1123519007687 TRAM domain; Region: TRAM; pfam01938 1123519007688 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519007689 S-adenosylmethionine binding site [chemical binding]; other site 1123519007690 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1123519007691 HD domain; Region: HD_4; pfam13328 1123519007692 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1123519007693 synthetase active site [active] 1123519007694 NTP binding site [chemical binding]; other site 1123519007695 metal binding site [ion binding]; metal-binding site 1123519007696 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 1123519007697 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1123519007698 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1123519007699 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 1123519007700 homodimer interface [polypeptide binding]; other site 1123519007701 metal binding site [ion binding]; metal-binding site 1123519007702 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 1123519007703 homodimer interface [polypeptide binding]; other site 1123519007704 active site 1123519007705 putative chemical substrate binding site [chemical binding]; other site 1123519007706 metal binding site [ion binding]; metal-binding site 1123519007707 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 1123519007708 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519007709 active site 1123519007710 Erythromycin esterase; Region: Erythro_esteras; pfam05139 1123519007711 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1123519007712 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1123519007713 putative active site [active] 1123519007714 putative metal binding site [ion binding]; other site 1123519007715 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1123519007716 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 1123519007717 ATP binding site [chemical binding]; other site 1123519007718 putative Mg++ binding site [ion binding]; other site 1123519007719 nucleotide binding region [chemical binding]; other site 1123519007720 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1123519007721 ATP-binding site [chemical binding]; other site 1123519007722 DEAD/H associated; Region: DEAD_assoc; pfam08494 1123519007723 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1123519007724 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1123519007725 Walker A/P-loop; other site 1123519007726 ATP binding site [chemical binding]; other site 1123519007727 Q-loop/lid; other site 1123519007728 ABC transporter signature motif; other site 1123519007729 Walker B; other site 1123519007730 D-loop; other site 1123519007731 H-loop/switch region; other site 1123519007732 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 1123519007733 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1123519007734 Walker A/P-loop; other site 1123519007735 ATP binding site [chemical binding]; other site 1123519007736 Q-loop/lid; other site 1123519007737 ABC transporter signature motif; other site 1123519007738 Walker B; other site 1123519007739 D-loop; other site 1123519007740 H-loop/switch region; other site 1123519007741 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1123519007742 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 1123519007743 TM-ABC transporter signature motif; other site 1123519007744 HEAT repeats; Region: HEAT_2; pfam13646 1123519007745 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 1123519007746 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519007747 TM-ABC transporter signature motif; other site 1123519007748 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1123519007749 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 1123519007750 putative ligand binding site [chemical binding]; other site 1123519007751 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1123519007752 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 1123519007753 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1123519007754 UreF; Region: UreF; pfam01730 1123519007755 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1123519007756 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 1123519007757 dimer interface [polypeptide binding]; other site 1123519007758 catalytic residues [active] 1123519007759 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1123519007760 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 1123519007761 subunit interactions [polypeptide binding]; other site 1123519007762 active site 1123519007763 flap region; other site 1123519007764 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 1123519007765 gamma-beta subunit interface [polypeptide binding]; other site 1123519007766 alpha-beta subunit interface [polypeptide binding]; other site 1123519007767 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 1123519007768 alpha-gamma subunit interface [polypeptide binding]; other site 1123519007769 beta-gamma subunit interface [polypeptide binding]; other site 1123519007770 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1123519007771 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1123519007772 ATP-dependent DNA ligase; Validated; Region: PRK09247 1123519007773 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 1123519007774 active site 1123519007775 DNA binding site [nucleotide binding] 1123519007776 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 1123519007777 DNA binding site [nucleotide binding] 1123519007778 potential frameshift: common BLAST hit: gi|386328502|ref|YP_006024672.1| 2-isopropylmalate synthase 1123519007779 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1123519007780 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519007781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519007782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519007783 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 1123519007784 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1123519007785 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1123519007786 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 1123519007787 ATP binding site [chemical binding]; other site 1123519007788 putative Mg++ binding site [ion binding]; other site 1123519007789 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 1123519007790 nucleotide binding region [chemical binding]; other site 1123519007791 ATP-binding site [chemical binding]; other site 1123519007792 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1123519007793 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1123519007794 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 1123519007795 ATP binding site [chemical binding]; other site 1123519007796 putative Mg++ binding site [ion binding]; other site 1123519007797 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 1123519007798 nucleotide binding region [chemical binding]; other site 1123519007799 ATP-binding site [chemical binding]; other site 1123519007800 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1123519007801 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1123519007802 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1123519007803 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1123519007804 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1123519007805 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 1123519007806 E3 interaction surface; other site 1123519007807 lipoyl attachment site [posttranslational modification]; other site 1123519007808 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1123519007809 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1123519007810 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1123519007811 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1123519007812 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1123519007813 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1123519007814 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1123519007815 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 1123519007816 catalytic loop [active] 1123519007817 iron binding site [ion binding]; other site 1123519007818 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 1123519007819 FAD binding pocket [chemical binding]; other site 1123519007820 FAD binding motif [chemical binding]; other site 1123519007821 phosphate binding motif [ion binding]; other site 1123519007822 beta-alpha-beta structure motif; other site 1123519007823 NAD binding pocket [chemical binding]; other site 1123519007824 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1123519007825 ApbE family; Region: ApbE; pfam02424 1123519007826 Protein of unknown function (DUF539); Region: DUF539; cl01129 1123519007827 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1123519007828 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1123519007829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519007830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1123519007831 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1123519007832 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1123519007833 active site 1123519007834 catalytic site [active] 1123519007835 PilZ domain; Region: PilZ; pfam07238 1123519007836 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1123519007837 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1123519007838 FtsX-like permease family; Region: FtsX; pfam02687 1123519007839 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1123519007840 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1123519007841 Walker A/P-loop; other site 1123519007842 ATP binding site [chemical binding]; other site 1123519007843 Q-loop/lid; other site 1123519007844 ABC transporter signature motif; other site 1123519007845 Walker B; other site 1123519007846 D-loop; other site 1123519007847 H-loop/switch region; other site 1123519007848 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1123519007849 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1123519007850 FtsX-like permease family; Region: FtsX; pfam02687 1123519007851 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1123519007852 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1123519007853 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1123519007854 Competence protein; Region: Competence; pfam03772 1123519007855 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1123519007856 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1123519007857 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1123519007858 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1123519007859 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1123519007860 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1123519007861 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1123519007862 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1123519007863 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1123519007864 Ligand binding site; other site 1123519007865 oligomer interface; other site 1123519007866 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1123519007867 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1123519007868 active site 1123519007869 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1123519007870 FAD binding domain; Region: FAD_binding_4; pfam01565 1123519007871 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1123519007872 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1123519007873 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 1123519007874 active site 1123519007875 FMN binding site [chemical binding]; other site 1123519007876 substrate binding site [chemical binding]; other site 1123519007877 3Fe-4S cluster binding site [ion binding]; other site 1123519007878 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1123519007879 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 1123519007880 homodimer interface [polypeptide binding]; other site 1123519007881 oligonucleotide binding site [chemical binding]; other site 1123519007882 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1123519007883 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 1123519007884 RNA binding surface [nucleotide binding]; other site 1123519007885 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1123519007886 active site 1123519007887 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1123519007888 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 1123519007889 motif II; other site 1123519007890 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 1123519007891 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1123519007892 tandem repeat interface [polypeptide binding]; other site 1123519007893 oligomer interface [polypeptide binding]; other site 1123519007894 active site residues [active] 1123519007895 Maf-like protein; Region: Maf; pfam02545 1123519007896 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 1123519007897 active site 1123519007898 dimer interface [polypeptide binding]; other site 1123519007899 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1123519007900 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1123519007901 putative phosphate acyltransferase; Provisional; Region: PRK05331 1123519007902 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1123519007903 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1123519007904 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1123519007905 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 1123519007906 NAD(P) binding site [chemical binding]; other site 1123519007907 homotetramer interface [polypeptide binding]; other site 1123519007908 homodimer interface [polypeptide binding]; other site 1123519007909 active site 1123519007910 acyl carrier protein; Provisional; Region: acpP; PRK00982 1123519007911 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1123519007912 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 1123519007913 dimer interface [polypeptide binding]; other site 1123519007914 active site 1123519007915 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1123519007916 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 1123519007917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519007918 catalytic residue [active] 1123519007919 YceG-like family; Region: YceG; pfam02618 1123519007920 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1123519007921 dimerization interface [polypeptide binding]; other site 1123519007922 thymidylate kinase; Validated; Region: tmk; PRK00698 1123519007923 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 1123519007924 TMP-binding site; other site 1123519007925 ATP-binding site [chemical binding]; other site 1123519007926 DNA polymerase III subunit delta'; Validated; Region: PRK05707 1123519007927 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1123519007928 PilZ domain; Region: PilZ; cl01260 1123519007929 RDD family; Region: RDD; pfam06271 1123519007930 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 1123519007931 DNA-binding site [nucleotide binding]; DNA binding site 1123519007932 RNA-binding motif; other site 1123519007933 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1123519007934 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1123519007935 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1123519007936 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1123519007937 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1123519007938 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1123519007939 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1123519007940 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1123519007941 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1123519007942 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1123519007943 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1123519007944 Protein export membrane protein; Region: SecD_SecF; pfam02355 1123519007945 hypothetical protein; Provisional; Region: PRK11280 1123519007946 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1123519007947 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 1123519007948 active site 1123519007949 dimerization interface [polypeptide binding]; other site 1123519007950 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1123519007951 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1123519007952 serine O-acetyltransferase; Region: cysE; TIGR01172 1123519007953 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 1123519007954 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 1123519007955 trimer interface [polypeptide binding]; other site 1123519007956 active site 1123519007957 substrate binding site [chemical binding]; other site 1123519007958 CoA binding site [chemical binding]; other site 1123519007959 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 1123519007960 Rrf2 family protein; Region: rrf2_super; TIGR00738 1123519007961 cysteine desulfurase; Provisional; Region: PRK14012 1123519007962 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1123519007963 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1123519007964 catalytic residue [active] 1123519007965 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1123519007966 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1123519007967 trimerization site [polypeptide binding]; other site 1123519007968 active site 1123519007969 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1123519007970 co-chaperone HscB; Provisional; Region: hscB; PRK00294 1123519007971 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 1123519007972 HSP70 interaction site [polypeptide binding]; other site 1123519007973 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1123519007974 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1123519007975 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1123519007976 nucleotide binding site [chemical binding]; other site 1123519007977 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1123519007978 SBD interface [polypeptide binding]; other site 1123519007979 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1123519007980 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 1123519007981 catalytic loop [active] 1123519007982 iron binding site [ion binding]; other site 1123519007983 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 1123519007984 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 1123519007985 active site 1123519007986 multimer interface [polypeptide binding]; other site 1123519007987 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1123519007988 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 1123519007989 FeS/SAM binding site; other site 1123519007990 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1123519007991 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 1123519007992 binding surface 1123519007993 TPR motif; other site 1123519007994 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 1123519007995 binding surface 1123519007996 TPR motif; other site 1123519007997 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1123519007998 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 1123519007999 non-specific DNA binding site [nucleotide binding]; other site 1123519008000 salt bridge; other site 1123519008001 sequence-specific DNA binding site [nucleotide binding]; other site 1123519008002 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1123519008003 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1123519008004 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1123519008005 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1123519008006 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1123519008007 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 1123519008008 dimer interface [polypeptide binding]; other site 1123519008009 motif 1; other site 1123519008010 active site 1123519008011 motif 2; other site 1123519008012 motif 3; other site 1123519008013 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 1123519008014 anticodon binding site; other site 1123519008015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1123519008016 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1123519008017 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 1123519008018 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1123519008019 Trp docking motif [polypeptide binding]; other site 1123519008020 active site 1123519008021 GTP-binding protein Der; Reviewed; Region: PRK00093 1123519008022 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1123519008023 G1 box; other site 1123519008024 GTP/Mg2+ binding site [chemical binding]; other site 1123519008025 Switch I region; other site 1123519008026 G2 box; other site 1123519008027 Switch II region; other site 1123519008028 G3 box; other site 1123519008029 G4 box; other site 1123519008030 G5 box; other site 1123519008031 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1123519008032 G1 box; other site 1123519008033 GTP/Mg2+ binding site [chemical binding]; other site 1123519008034 Switch I region; other site 1123519008035 G2 box; other site 1123519008036 G3 box; other site 1123519008037 Switch II region; other site 1123519008038 G4 box; other site 1123519008039 G5 box; other site 1123519008040 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1123519008041 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1123519008042 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 1123519008043 trimer interface [polypeptide binding]; other site 1123519008044 active site 1123519008045 substrate binding site [chemical binding]; other site 1123519008046 CoA binding site [chemical binding]; other site 1123519008047 methionine aminotransferase; Validated; Region: PRK09082 1123519008048 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 1123519008049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519008050 homodimer interface [polypeptide binding]; other site 1123519008051 catalytic residue [active] 1123519008052 C-N hydrolase family amidase; Provisional; Region: PRK10438 1123519008053 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1123519008054 putative active site [active] 1123519008055 catalytic triad [active] 1123519008056 dimer interface [polypeptide binding]; other site 1123519008057 multimer interface [polypeptide binding]; other site 1123519008058 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 1123519008059 DNA-specific endonuclease I; Provisional; Region: PRK15137 1123519008060 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1123519008061 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1123519008062 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1123519008063 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1123519008064 putative NAD(P) binding site [chemical binding]; other site 1123519008065 putative substrate binding site [chemical binding]; other site 1123519008066 catalytic Zn binding site [ion binding]; other site 1123519008067 structural Zn binding site [ion binding]; other site 1123519008068 dimer interface [polypeptide binding]; other site 1123519008069 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1123519008070 Cytochrome P450; Region: p450; cl12078 1123519008071 2-isopropylmalate synthase; Validated; Region: PRK03739 1123519008072 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1123519008073 active site 1123519008074 catalytic residues [active] 1123519008075 metal binding site [ion binding]; metal-binding site 1123519008076 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1123519008077 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 1123519008078 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 1123519008079 N-terminal plug; other site 1123519008080 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1123519008081 ligand-binding site [chemical binding]; other site 1123519008082 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1123519008083 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519008084 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 1123519008085 Isochorismatase family; Region: Isochorismatase; pfam00857 1123519008086 catalytic triad [active] 1123519008087 dimer interface [polypeptide binding]; other site 1123519008088 conserved cis-peptide bond; other site 1123519008089 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1123519008090 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519008091 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1123519008092 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 1123519008093 generic binding surface II; other site 1123519008094 generic binding surface I; other site 1123519008095 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 1123519008096 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1123519008097 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1123519008098 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 1123519008099 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 1123519008100 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 1123519008101 active site 1123519008102 GMP synthase; Reviewed; Region: guaA; PRK00074 1123519008103 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1123519008104 AMP/PPi binding site [chemical binding]; other site 1123519008105 candidate oxyanion hole; other site 1123519008106 catalytic triad [active] 1123519008107 potential glutamine specificity residues [chemical binding]; other site 1123519008108 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 1123519008109 ATP Binding subdomain [chemical binding]; other site 1123519008110 Ligand Binding sites [chemical binding]; other site 1123519008111 Dimerization subdomain; other site 1123519008112 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1123519008113 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1123519008114 Walker A/P-loop; other site 1123519008115 ATP binding site [chemical binding]; other site 1123519008116 Q-loop/lid; other site 1123519008117 ABC transporter signature motif; other site 1123519008118 Walker B; other site 1123519008119 D-loop; other site 1123519008120 H-loop/switch region; other site 1123519008121 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1123519008122 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1123519008123 Walker A/P-loop; other site 1123519008124 ATP binding site [chemical binding]; other site 1123519008125 Q-loop/lid; other site 1123519008126 ABC transporter signature motif; other site 1123519008127 Walker B; other site 1123519008128 D-loop; other site 1123519008129 H-loop/switch region; other site 1123519008130 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1123519008131 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1123519008132 active sites [active] 1123519008133 tetramer interface [polypeptide binding]; other site 1123519008134 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1123519008135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519008136 dimer interface [polypeptide binding]; other site 1123519008137 conserved gate region; other site 1123519008138 putative PBP binding loops; other site 1123519008139 ABC-ATPase subunit interface; other site 1123519008140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519008141 dimer interface [polypeptide binding]; other site 1123519008142 conserved gate region; other site 1123519008143 putative PBP binding loops; other site 1123519008144 ABC-ATPase subunit interface; other site 1123519008145 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 1123519008146 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519008147 substrate binding pocket [chemical binding]; other site 1123519008148 membrane-bound complex binding site; other site 1123519008149 hinge residues; other site 1123519008150 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1123519008151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008152 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 1123519008153 dimerization interface [polypeptide binding]; other site 1123519008154 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 1123519008155 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 1123519008156 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1123519008157 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1123519008158 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 1123519008159 nucleoside/Zn binding site; other site 1123519008160 dimer interface [polypeptide binding]; other site 1123519008161 catalytic motif [active] 1123519008162 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1123519008163 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1123519008164 Walker A/P-loop; other site 1123519008165 ATP binding site [chemical binding]; other site 1123519008166 Q-loop/lid; other site 1123519008167 ABC transporter signature motif; other site 1123519008168 Walker B; other site 1123519008169 D-loop; other site 1123519008170 H-loop/switch region; other site 1123519008171 TOBE domain; Region: TOBE_2; pfam08402 1123519008172 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1123519008173 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1123519008174 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1123519008175 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 1123519008176 putative GSH binding site [chemical binding]; other site 1123519008177 catalytic residues [active] 1123519008178 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1123519008179 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1123519008180 heme binding site [chemical binding]; other site 1123519008181 ferroxidase pore; other site 1123519008182 ferroxidase diiron center [ion binding]; other site 1123519008183 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1123519008184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519008185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519008186 metal binding site [ion binding]; metal-binding site 1123519008187 active site 1123519008188 I-site; other site 1123519008189 YaeQ protein; Region: YaeQ; pfam07152 1123519008190 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1123519008191 DHH family; Region: DHH; pfam01368 1123519008192 DHHA1 domain; Region: DHHA1; pfam02272 1123519008193 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1123519008194 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 1123519008195 active site 1123519008196 FMN binding site [chemical binding]; other site 1123519008197 substrate binding site [chemical binding]; other site 1123519008198 homotetramer interface [polypeptide binding]; other site 1123519008199 catalytic residue [active] 1123519008200 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1123519008201 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1123519008202 putative metal binding site [ion binding]; other site 1123519008203 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1123519008204 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1123519008205 RF-1 domain; Region: RF-1; pfam00472 1123519008206 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1123519008207 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 1123519008208 dimer interface [polypeptide binding]; other site 1123519008209 putative anticodon binding site; other site 1123519008210 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 1123519008211 motif 1; other site 1123519008212 active site 1123519008213 motif 2; other site 1123519008214 motif 3; other site 1123519008215 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1123519008216 Domain of unknown function DUF21; Region: DUF21; pfam01595 1123519008217 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 1123519008218 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519008219 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 1123519008220 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 1123519008221 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519008222 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519008223 ligand binding site [chemical binding]; other site 1123519008224 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 1123519008225 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1123519008226 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1123519008227 adenylate kinase; Reviewed; Region: adk; PRK00279 1123519008228 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 1123519008229 AMP-binding site [chemical binding]; other site 1123519008230 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1123519008231 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1123519008232 Glycoprotease family; Region: Peptidase_M22; pfam00814 1123519008233 Protein of unknown function DUF72; Region: DUF72; cl00777 1123519008234 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1123519008235 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1123519008236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519008237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519008238 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1123519008239 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1123519008240 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519008241 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519008242 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1123519008243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519008244 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519008245 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1123519008246 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1123519008247 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519008248 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519008249 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 1123519008250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519008251 DNA-binding site [nucleotide binding]; DNA binding site 1123519008252 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 1123519008253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519008254 homodimer interface [polypeptide binding]; other site 1123519008255 catalytic residue [active] 1123519008256 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1123519008257 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1123519008258 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 1123519008259 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1123519008260 LrgA family; Region: LrgA; cl00608 1123519008261 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1123519008262 Pirin-related protein [General function prediction only]; Region: COG1741 1123519008263 Pirin; Region: Pirin; pfam02678 1123519008264 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1123519008265 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519008266 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 1123519008267 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1123519008268 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1123519008269 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1123519008270 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1123519008271 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1123519008272 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1123519008273 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1123519008274 Ligand binding site; other site 1123519008275 DXD motif; other site 1123519008276 DNA topoisomerase III; Provisional; Region: PRK07726 1123519008277 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 1123519008278 active site 1123519008279 putative interdomain interaction site [polypeptide binding]; other site 1123519008280 putative metal-binding site [ion binding]; other site 1123519008281 putative nucleotide binding site [chemical binding]; other site 1123519008282 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 1123519008283 domain I; other site 1123519008284 DNA binding groove [nucleotide binding] 1123519008285 phosphate binding site [ion binding]; other site 1123519008286 domain II; other site 1123519008287 domain III; other site 1123519008288 nucleotide binding site [chemical binding]; other site 1123519008289 catalytic site [active] 1123519008290 domain IV; other site 1123519008291 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1123519008292 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1123519008293 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 1123519008294 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1123519008295 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1123519008296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519008297 hypothetical protein; Validated; Region: PRK07121 1123519008298 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1123519008299 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 1123519008300 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1123519008301 PYR/PP interface [polypeptide binding]; other site 1123519008302 dimer interface [polypeptide binding]; other site 1123519008303 TPP binding site [chemical binding]; other site 1123519008304 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1123519008305 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 1123519008306 TPP-binding site [chemical binding]; other site 1123519008307 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1123519008308 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 1123519008309 phosphate binding site [ion binding]; other site 1123519008310 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1123519008311 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1123519008312 putative acyl-acceptor binding pocket; other site 1123519008313 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 1123519008314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519008315 S-adenosylmethionine binding site [chemical binding]; other site 1123519008316 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_4; cd08897 1123519008317 putative hydrophobic ligand binding site [chemical binding]; other site 1123519008318 Transposase domain (DUF772); Region: DUF772; pfam05598 1123519008319 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1123519008320 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1123519008321 WxcM-like, C-terminal; Region: FdtA; pfam05523 1123519008322 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 1123519008323 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 1123519008324 dimer interface [polypeptide binding]; other site 1123519008325 active site 1123519008326 CoA binding pocket [chemical binding]; other site 1123519008327 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1123519008328 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 1123519008329 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 1123519008330 inhibitor-cofactor binding pocket; inhibition site 1123519008331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519008332 catalytic residue [active] 1123519008333 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 1123519008334 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1123519008335 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1123519008336 Probable Catalytic site; other site 1123519008337 metal-binding site 1123519008338 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1123519008339 flagellin; Reviewed; Region: PRK08869 1123519008340 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1123519008341 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1123519008342 FlaG protein; Region: FlaG; pfam03646 1123519008343 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1123519008344 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1123519008345 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1123519008346 flagellar protein FliS; Validated; Region: fliS; PRK05685 1123519008347 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 1123519008348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519008349 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519008350 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1123519008351 Protein of unknown function, DUF486; Region: DUF486; pfam04342 1123519008352 Flagellin N-methylase; Region: FliB; cl00497 1123519008353 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 1123519008354 putative lipid binding site [chemical binding]; other site 1123519008355 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 1123519008356 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1123519008357 dimer interface [polypeptide binding]; other site 1123519008358 active site 1123519008359 citrylCoA binding site [chemical binding]; other site 1123519008360 NADH binding [chemical binding]; other site 1123519008361 cationic pore residues; other site 1123519008362 oxalacetate/citrate binding site [chemical binding]; other site 1123519008363 coenzyme A binding site [chemical binding]; other site 1123519008364 catalytic triad [active] 1123519008365 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 1123519008366 Iron-sulfur protein interface; other site 1123519008367 proximal quinone binding site [chemical binding]; other site 1123519008368 SdhD (CybS) interface [polypeptide binding]; other site 1123519008369 proximal heme binding site [chemical binding]; other site 1123519008370 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 1123519008371 SdhC subunit interface [polypeptide binding]; other site 1123519008372 proximal heme binding site [chemical binding]; other site 1123519008373 cardiolipin binding site; other site 1123519008374 Iron-sulfur protein interface; other site 1123519008375 proximal quinone binding site [chemical binding]; other site 1123519008376 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 1123519008377 L-aspartate oxidase; Provisional; Region: PRK06175 1123519008378 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1123519008379 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1123519008380 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1123519008381 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1123519008382 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 1123519008383 TPP-binding site [chemical binding]; other site 1123519008384 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1123519008385 PYR/PP interface [polypeptide binding]; other site 1123519008386 dimer interface [polypeptide binding]; other site 1123519008387 TPP binding site [chemical binding]; other site 1123519008388 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1123519008389 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 1123519008390 E3 interaction surface; other site 1123519008391 lipoyl attachment site [posttranslational modification]; other site 1123519008392 e3 binding domain; Region: E3_binding; pfam02817 1123519008393 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1123519008394 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1123519008395 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1123519008396 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519008397 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1123519008398 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1123519008399 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1123519008400 CoA-ligase; Region: Ligase_CoA; pfam00549 1123519008401 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1123519008402 CoA binding domain; Region: CoA_binding; smart00881 1123519008403 CoA-ligase; Region: Ligase_CoA; pfam00549 1123519008404 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1123519008405 Predicted membrane protein [Function unknown]; Region: COG3821 1123519008406 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 1123519008407 CoenzymeA binding site [chemical binding]; other site 1123519008408 subunit interaction site [polypeptide binding]; other site 1123519008409 PHB binding site; other site 1123519008410 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 1123519008411 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1123519008412 CoenzymeA binding site [chemical binding]; other site 1123519008413 subunit interaction site [polypeptide binding]; other site 1123519008414 PHB binding site; other site 1123519008415 heat shock protein 90; Provisional; Region: PRK05218 1123519008416 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519008417 ATP binding site [chemical binding]; other site 1123519008418 Mg2+ binding site [ion binding]; other site 1123519008419 G-X-G motif; other site 1123519008420 putative transposase OrfB; Reviewed; Region: PHA02517 1123519008421 HTH-like domain; Region: HTH_21; pfam13276 1123519008422 Integrase core domain; Region: rve; pfam00665 1123519008423 Integrase core domain; Region: rve_3; pfam13683 1123519008424 Transposase; Region: HTH_Tnp_1; cl17663 1123519008425 Cell division protein ZapA; Region: ZapA; pfam05164 1123519008426 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1123519008427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008428 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 1123519008429 dimerization interface [polypeptide binding]; other site 1123519008430 substrate binding pocket [chemical binding]; other site 1123519008431 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1123519008432 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519008433 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519008434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1123519008435 Coenzyme A binding pocket [chemical binding]; other site 1123519008436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519008437 S-adenosylmethionine binding site [chemical binding]; other site 1123519008438 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1123519008439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519008440 DNA-binding site [nucleotide binding]; DNA binding site 1123519008441 UTRA domain; Region: UTRA; pfam07702 1123519008442 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1123519008443 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 1123519008444 active site 1123519008445 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1123519008446 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1123519008447 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 1123519008448 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 1123519008449 dimerization interface [polypeptide binding]; other site 1123519008450 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519008451 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519008452 dimer interface [polypeptide binding]; other site 1123519008453 putative CheW interface [polypeptide binding]; other site 1123519008454 MAPEG family; Region: MAPEG; cl09190 1123519008455 Ion channel; Region: Ion_trans_2; pfam07885 1123519008456 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1123519008457 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 1123519008458 sequence-specific DNA binding site [nucleotide binding]; other site 1123519008459 salt bridge; other site 1123519008460 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1123519008461 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1123519008462 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1123519008463 metal binding site [ion binding]; metal-binding site 1123519008464 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1123519008465 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1123519008466 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1123519008467 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 1123519008468 putative arabinose transporter; Provisional; Region: PRK03545 1123519008469 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519008470 putative substrate translocation pore; other site 1123519008471 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1123519008472 Peptidase family U32; Region: Peptidase_U32; pfam01136 1123519008473 Collagenase; Region: DUF3656; pfam12392 1123519008474 short chain dehydrogenase; Provisional; Region: PRK06701 1123519008475 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1123519008476 NAD binding site [chemical binding]; other site 1123519008477 metal binding site [ion binding]; metal-binding site 1123519008478 active site 1123519008479 Protein of unknown function DUF72; Region: DUF72; pfam01904 1123519008480 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 1123519008481 ATP binding site [chemical binding]; other site 1123519008482 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1123519008483 putative Mg++ binding site [ion binding]; other site 1123519008484 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 1123519008485 nucleotide binding region [chemical binding]; other site 1123519008486 ATP-binding site [chemical binding]; other site 1123519008487 Mitochondrial degradasome RNA helicase subunit C terminal; Region: SUV3_C; pfam12513 1123519008488 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 1123519008489 glycerol kinase; Provisional; Region: glpK; PRK00047 1123519008490 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1123519008491 N- and C-terminal domain interface [polypeptide binding]; other site 1123519008492 active site 1123519008493 MgATP binding site [chemical binding]; other site 1123519008494 catalytic site [active] 1123519008495 metal binding site [ion binding]; metal-binding site 1123519008496 glycerol binding site [chemical binding]; other site 1123519008497 homotetramer interface [polypeptide binding]; other site 1123519008498 homodimer interface [polypeptide binding]; other site 1123519008499 FBP binding site [chemical binding]; other site 1123519008500 protein IIAGlc interface [polypeptide binding]; other site 1123519008501 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1123519008502 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 1123519008503 putative DNA binding site [nucleotide binding]; other site 1123519008504 putative Zn2+ binding site [ion binding]; other site 1123519008505 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1123519008506 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1123519008507 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1123519008508 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1123519008509 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1123519008510 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 1123519008511 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519008512 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519008513 dimer interface [polypeptide binding]; other site 1123519008514 putative CheW interface [polypeptide binding]; other site 1123519008515 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1123519008516 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1123519008517 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1123519008518 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 1123519008519 active site 1123519008520 dimerization interface [polypeptide binding]; other site 1123519008521 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 1123519008522 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 1123519008523 30S subunit binding site; other site 1123519008524 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1123519008525 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1123519008526 Zn2+ binding site [ion binding]; other site 1123519008527 Mg2+ binding site [ion binding]; other site 1123519008528 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1123519008529 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1123519008530 hypothetical protein; Provisional; Region: PRK12378 1123519008531 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 1123519008532 active site 1123519008533 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 1123519008534 Ligand Binding Site [chemical binding]; other site 1123519008535 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1123519008536 heme-binding site [chemical binding]; other site 1123519008537 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1123519008538 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 1123519008539 active site 1123519008540 dimerization interface [polypeptide binding]; other site 1123519008541 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1123519008542 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 1123519008543 Na binding site [ion binding]; other site 1123519008544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519008545 Coenzyme A binding pocket [chemical binding]; other site 1123519008546 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 1123519008547 nudix motif; other site 1123519008548 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1123519008549 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1123519008550 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519008551 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1123519008552 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 1123519008553 DNA binding residues [nucleotide binding] 1123519008554 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519008555 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519008556 Domain of unknown function (DUF368); Region: DUF368; pfam04018 1123519008557 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1123519008558 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519008559 S-adenosylmethionine binding site [chemical binding]; other site 1123519008560 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1123519008561 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1123519008562 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1123519008563 Permutation of conserved domain; other site 1123519008564 active site 1123519008565 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1123519008566 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 1123519008567 homotrimer interaction site [polypeptide binding]; other site 1123519008568 zinc binding site [ion binding]; other site 1123519008569 CDP-binding sites; other site 1123519008570 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 1123519008571 dimerization interface [polypeptide binding]; other site 1123519008572 putative DNA binding site [nucleotide binding]; other site 1123519008573 putative Zn2+ binding site [ion binding]; other site 1123519008574 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1123519008575 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 1123519008576 FMN binding site [chemical binding]; other site 1123519008577 active site 1123519008578 substrate binding site [chemical binding]; other site 1123519008579 catalytic residue [active] 1123519008580 S-formylglutathione hydrolase; Region: PLN02442 1123519008581 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1123519008582 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1123519008583 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1123519008584 substrate binding site [chemical binding]; other site 1123519008585 catalytic Zn binding site [ion binding]; other site 1123519008586 NAD binding site [chemical binding]; other site 1123519008587 structural Zn binding site [ion binding]; other site 1123519008588 dimer interface [polypeptide binding]; other site 1123519008589 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519008590 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008591 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 1123519008592 putative effector binding pocket; other site 1123519008593 putative dimerization interface [polypeptide binding]; other site 1123519008594 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1123519008595 substrate binding site; other site 1123519008596 dimer interface; other site 1123519008597 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1123519008598 Septum formation initiator; Region: DivIC; cl17659 1123519008599 enolase; Provisional; Region: eno; PRK00077 1123519008600 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 1123519008601 dimer interface [polypeptide binding]; other site 1123519008602 metal binding site [ion binding]; metal-binding site 1123519008603 substrate binding pocket [chemical binding]; other site 1123519008604 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1123519008605 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1123519008606 CTP synthetase; Validated; Region: pyrG; PRK05380 1123519008607 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 1123519008608 Catalytic site [active] 1123519008609 active site 1123519008610 UTP binding site [chemical binding]; other site 1123519008611 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1123519008612 active site 1123519008613 putative oxyanion hole; other site 1123519008614 catalytic triad [active] 1123519008615 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 1123519008616 Ligand Binding Site [chemical binding]; other site 1123519008617 TilS substrate binding domain; Region: TilS; pfam09179 1123519008618 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1123519008619 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1123519008620 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1123519008621 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1123519008622 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1123519008623 putative active site [active] 1123519008624 putative PHP Thumb interface [polypeptide binding]; other site 1123519008625 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 1123519008626 generic binding surface II; other site 1123519008627 generic binding surface I; other site 1123519008628 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1123519008629 RNA/DNA hybrid binding site [nucleotide binding]; other site 1123519008630 active site 1123519008631 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1123519008632 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1123519008633 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1123519008634 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 1123519008635 active site 1123519008636 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 1123519008637 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1123519008638 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1123519008639 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 1123519008640 trimer interface [polypeptide binding]; other site 1123519008641 active site 1123519008642 UDP-GlcNAc binding site [chemical binding]; other site 1123519008643 lipid binding site [chemical binding]; lipid-binding site 1123519008644 periplasmic chaperone; Provisional; Region: PRK10780 1123519008645 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1123519008646 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1123519008647 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519008648 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519008649 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519008650 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1123519008651 Surface antigen; Region: Bac_surface_Ag; pfam01103 1123519008652 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1123519008653 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 1123519008654 active site 1123519008655 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 1123519008656 protein binding site [polypeptide binding]; other site 1123519008657 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 1123519008658 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 1123519008659 putative substrate binding region [chemical binding]; other site 1123519008660 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1123519008661 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1123519008662 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1123519008663 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1123519008664 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1123519008665 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1123519008666 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 1123519008667 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1123519008668 catalytic residue [active] 1123519008669 putative FPP diphosphate binding site; other site 1123519008670 putative FPP binding hydrophobic cleft; other site 1123519008671 dimer interface [polypeptide binding]; other site 1123519008672 putative IPP diphosphate binding site; other site 1123519008673 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1123519008674 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 1123519008675 hinge region; other site 1123519008676 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 1123519008677 putative nucleotide binding site [chemical binding]; other site 1123519008678 uridine monophosphate binding site [chemical binding]; other site 1123519008679 homohexameric interface [polypeptide binding]; other site 1123519008680 elongation factor Ts; Provisional; Region: tsf; PRK09377 1123519008681 UBA/TS-N domain; Region: UBA; pfam00627 1123519008682 Elongation factor TS; Region: EF_TS; pfam00889 1123519008683 Elongation factor TS; Region: EF_TS; pfam00889 1123519008684 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 1123519008685 rRNA interaction site [nucleotide binding]; other site 1123519008686 S8 interaction site; other site 1123519008687 putative laminin-1 binding site; other site 1123519008688 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 1123519008689 active site 1123519008690 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 1123519008691 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1123519008692 metal binding triad; other site 1123519008693 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1123519008694 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1123519008695 Zn2+ binding site [ion binding]; other site 1123519008696 Mg2+ binding site [ion binding]; other site 1123519008697 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 1123519008698 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 1123519008699 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1123519008700 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1123519008701 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1123519008702 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1123519008703 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1123519008704 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1123519008705 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1123519008706 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1123519008707 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1123519008708 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 1123519008709 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1123519008710 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1123519008711 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1123519008712 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1123519008713 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519008714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519008715 ligand binding site [chemical binding]; other site 1123519008716 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1123519008717 Beta-lactamase; Region: Beta-lactamase; pfam00144 1123519008718 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1123519008719 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 1123519008720 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1123519008721 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519008722 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519008723 ligand binding site [chemical binding]; other site 1123519008724 hypothetical protein; Provisional; Region: PRK00183 1123519008725 SEC-C motif; Region: SEC-C; pfam02810 1123519008726 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1123519008727 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 1123519008728 FAD binding pocket [chemical binding]; other site 1123519008729 FAD binding motif [chemical binding]; other site 1123519008730 phosphate binding motif [ion binding]; other site 1123519008731 beta-alpha-beta structure motif; other site 1123519008732 NAD binding pocket [chemical binding]; other site 1123519008733 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1123519008734 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008735 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 1123519008736 putative dimerization interface [polypeptide binding]; other site 1123519008737 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1123519008738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519008739 active site 1123519008740 phosphorylation site [posttranslational modification] 1123519008741 intermolecular recognition site; other site 1123519008742 dimerization interface [polypeptide binding]; other site 1123519008743 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 1123519008744 DNA binding residues [nucleotide binding] 1123519008745 dimerization interface [polypeptide binding]; other site 1123519008746 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1123519008747 Domain of unknown function (DUF4146); Region: DUF4146; pfam13652 1123519008748 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1123519008749 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1123519008750 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1123519008751 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1123519008752 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1123519008753 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 1123519008754 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 1123519008755 XFP N-terminal domain; Region: XFP_N; pfam09364 1123519008756 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1123519008757 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1123519008758 Beta-Casp domain; Region: Beta-Casp; smart01027 1123519008759 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1123519008760 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1123519008761 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1123519008762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519008763 NAD(P) binding site [chemical binding]; other site 1123519008764 active site 1123519008765 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 1123519008766 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1123519008767 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519008768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519008769 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1123519008770 NADP binding site [chemical binding]; other site 1123519008771 homodimer interface [polypeptide binding]; other site 1123519008772 active site 1123519008773 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 1123519008774 active site 1123519008775 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1123519008776 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1123519008777 active site 1123519008778 ATP binding site [chemical binding]; other site 1123519008779 substrate binding site [chemical binding]; other site 1123519008780 activation loop (A-loop); other site 1123519008781 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 1123519008782 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 1123519008783 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1123519008784 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519008785 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1123519008786 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1123519008787 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1123519008788 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 1123519008789 active site 1123519008790 putative substrate binding pocket [chemical binding]; other site 1123519008791 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1123519008792 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1123519008793 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519008794 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1123519008795 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519008796 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008797 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 1123519008798 dimerization interface [polypeptide binding]; other site 1123519008799 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1123519008800 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1123519008801 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1123519008802 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519008803 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1123519008804 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 1123519008805 NMT1/THI5 like; Region: NMT1; pfam09084 1123519008806 substrate binding pocket [chemical binding]; other site 1123519008807 membrane-bound complex binding site; other site 1123519008808 hinge residues; other site 1123519008809 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1123519008810 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1123519008811 Walker A/P-loop; other site 1123519008812 ATP binding site [chemical binding]; other site 1123519008813 Q-loop/lid; other site 1123519008814 ABC transporter signature motif; other site 1123519008815 Walker B; other site 1123519008816 D-loop; other site 1123519008817 H-loop/switch region; other site 1123519008818 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1123519008819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519008820 dimer interface [polypeptide binding]; other site 1123519008821 conserved gate region; other site 1123519008822 putative PBP binding loops; other site 1123519008823 ABC-ATPase subunit interface; other site 1123519008824 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 1123519008825 nucleoside/Zn binding site; other site 1123519008826 dimer interface [polypeptide binding]; other site 1123519008827 catalytic motif [active] 1123519008828 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1123519008829 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1123519008830 Walker A/P-loop; other site 1123519008831 ATP binding site [chemical binding]; other site 1123519008832 Q-loop/lid; other site 1123519008833 ABC transporter signature motif; other site 1123519008834 Walker B; other site 1123519008835 D-loop; other site 1123519008836 H-loop/switch region; other site 1123519008837 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1123519008838 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519008839 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1123519008840 TM-ABC transporter signature motif; other site 1123519008841 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519008842 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 1123519008843 TM-ABC transporter signature motif; other site 1123519008844 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1123519008845 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 1123519008846 putative ligand binding site [chemical binding]; other site 1123519008847 oxidase reductase; Provisional; Region: PTZ00273 1123519008848 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1123519008849 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1123519008850 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 1123519008851 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 1123519008852 catalytic loop [active] 1123519008853 iron binding site [ion binding]; other site 1123519008854 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1123519008855 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1123519008856 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 1123519008857 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1123519008858 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1123519008859 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1123519008860 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1123519008861 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1123519008862 guanine deaminase; Provisional; Region: PRK09228 1123519008863 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 1123519008864 active site 1123519008865 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1123519008866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519008867 DNA-binding site [nucleotide binding]; DNA binding site 1123519008868 FCD domain; Region: FCD; pfam07729 1123519008869 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1123519008870 Cation efflux family; Region: Cation_efflux; cl00316 1123519008871 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 1123519008872 dimerization interface [polypeptide binding]; other site 1123519008873 putative DNA binding site [nucleotide binding]; other site 1123519008874 putative Zn2+ binding site [ion binding]; other site 1123519008875 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 1123519008876 metal-binding site [ion binding] 1123519008877 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1123519008878 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 1123519008879 metal-binding site [ion binding] 1123519008880 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1123519008881 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1123519008882 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1123519008883 DNA binding residues [nucleotide binding] 1123519008884 dimer interface [polypeptide binding]; other site 1123519008885 copper binding site [ion binding]; other site 1123519008886 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1123519008887 metal-binding site [ion binding] 1123519008888 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1123519008889 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 1123519008890 catalytic loop [active] 1123519008891 iron binding site [ion binding]; other site 1123519008892 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1123519008893 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1123519008894 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1123519008895 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1123519008896 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1123519008897 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1123519008898 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1123519008899 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1123519008900 Ligand binding site; other site 1123519008901 metal-binding site 1123519008902 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1123519008903 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1123519008904 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1123519008905 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519008906 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008907 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1123519008908 putative effector binding pocket; other site 1123519008909 putative dimerization interface [polypeptide binding]; other site 1123519008910 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1123519008911 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519008912 putative substrate translocation pore; other site 1123519008913 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 1123519008914 active site 1123519008915 homotetramer interface [polypeptide binding]; other site 1123519008916 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1123519008917 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1123519008918 active site 1123519008919 catalytic site [active] 1123519008920 tetramer interface [polypeptide binding]; other site 1123519008921 OHCU decarboxylase; Region: UHCUDC; TIGR03164 1123519008922 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1123519008923 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1123519008924 Predicted membrane protein [Function unknown]; Region: COG3748 1123519008925 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1123519008926 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519008927 xanthine permease; Region: pbuX; TIGR03173 1123519008928 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 1123519008929 Cache domain; Region: Cache_1; pfam02743 1123519008930 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 1123519008931 dimerization interface [polypeptide binding]; other site 1123519008932 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519008933 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519008934 dimer interface [polypeptide binding]; other site 1123519008935 putative CheW interface [polypeptide binding]; other site 1123519008936 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1123519008937 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 1123519008938 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1123519008939 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519008940 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1123519008941 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1123519008942 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 1123519008943 putative catalytic site [active] 1123519008944 putative phosphate binding site [ion binding]; other site 1123519008945 active site 1123519008946 metal binding site A [ion binding]; metal-binding site 1123519008947 DNA binding site [nucleotide binding] 1123519008948 putative AP binding site [nucleotide binding]; other site 1123519008949 putative metal binding site B [ion binding]; other site 1123519008950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008951 transcriptional activator TtdR; Provisional; Region: PRK09801 1123519008952 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 1123519008953 putative effector binding pocket; other site 1123519008954 dimerization interface [polypeptide binding]; other site 1123519008955 glyoxylate carboligase; Provisional; Region: PRK11269 1123519008956 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1123519008957 PYR/PP interface [polypeptide binding]; other site 1123519008958 dimer interface [polypeptide binding]; other site 1123519008959 TPP binding site [chemical binding]; other site 1123519008960 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1123519008961 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 1123519008962 TPP-binding site [chemical binding]; other site 1123519008963 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 1123519008964 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1123519008965 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1123519008966 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1123519008967 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1123519008968 MOFRL family; Region: MOFRL; pfam05161 1123519008969 pyruvate kinase; Provisional; Region: PRK06247 1123519008970 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 1123519008971 domain interfaces; other site 1123519008972 active site 1123519008973 Urea transporter; Region: UT; pfam03253 1123519008974 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 1123519008975 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1123519008976 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 1123519008977 heme-binding site [chemical binding]; other site 1123519008978 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 1123519008979 FAD binding pocket [chemical binding]; other site 1123519008980 FAD binding motif [chemical binding]; other site 1123519008981 phosphate binding motif [ion binding]; other site 1123519008982 beta-alpha-beta structure motif; other site 1123519008983 NAD binding pocket [chemical binding]; other site 1123519008984 Heme binding pocket [chemical binding]; other site 1123519008985 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1123519008986 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 1123519008987 active site 1123519008988 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519008989 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519008990 metal binding site [ion binding]; metal-binding site 1123519008991 active site 1123519008992 I-site; other site 1123519008993 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 1123519008994 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1123519008995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519008996 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 1123519008997 dimerization interface [polypeptide binding]; other site 1123519008998 Lysine efflux permease [General function prediction only]; Region: COG1279 1123519008999 superoxide dismutase; Provisional; Region: PRK10543 1123519009000 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1123519009001 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1123519009002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519009003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519009004 metal binding site [ion binding]; metal-binding site 1123519009005 active site 1123519009006 I-site; other site 1123519009007 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 1123519009008 EF hand; Region: EF_hand_3; pfam13202 1123519009009 LemA family; Region: LemA; cl00742 1123519009010 Imelysin; Region: Peptidase_M75; cl09159 1123519009011 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 1123519009012 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 1123519009013 Imelysin; Region: Peptidase_M75; cl09159 1123519009014 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 1123519009015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519009016 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519009017 dimer interface [polypeptide binding]; other site 1123519009018 putative CheW interface [polypeptide binding]; other site 1123519009019 hypothetical protein; Provisional; Region: PRK11171 1123519009020 Cupin domain; Region: Cupin_2; pfam07883 1123519009021 Cupin domain; Region: Cupin_2; pfam07883 1123519009022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1123519009023 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 1123519009024 ring oligomerisation interface [polypeptide binding]; other site 1123519009025 ATP/Mg binding site [chemical binding]; other site 1123519009026 stacking interactions; other site 1123519009027 hinge regions; other site 1123519009028 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 1123519009029 oligomerisation interface [polypeptide binding]; other site 1123519009030 mobile loop; other site 1123519009031 roof hairpin; other site 1123519009032 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 1123519009033 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1123519009034 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1123519009035 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1123519009036 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1123519009037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519009038 NAD(P) binding site [chemical binding]; other site 1123519009039 active site 1123519009040 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1123519009041 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 1123519009042 DNA binding site [nucleotide binding] 1123519009043 active site 1123519009044 muropeptide transporter; Validated; Region: ampG; cl17669 1123519009045 muropeptide transporter; Validated; Region: ampG; cl17669 1123519009046 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1123519009047 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1123519009048 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1123519009049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009050 active site 1123519009051 phosphorylation site [posttranslational modification] 1123519009052 intermolecular recognition site; other site 1123519009053 dimerization interface [polypeptide binding]; other site 1123519009054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519009055 metal binding site [ion binding]; metal-binding site 1123519009056 active site 1123519009057 I-site; other site 1123519009058 2-dehydropantoate 2-reductase; Provisional; Region: PRK05708 1123519009059 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1123519009060 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1123519009061 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 1123519009062 dimerization interface [polypeptide binding]; other site 1123519009063 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1123519009064 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 1123519009065 putative active site [active] 1123519009066 heme pocket [chemical binding]; other site 1123519009067 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 1123519009068 dimer interface [polypeptide binding]; other site 1123519009069 phosphorylation site [posttranslational modification] 1123519009070 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519009071 ATP binding site [chemical binding]; other site 1123519009072 Mg2+ binding site [ion binding]; other site 1123519009073 G-X-G motif; other site 1123519009074 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 1123519009075 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519009076 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1123519009077 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 1123519009078 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1123519009079 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 1123519009080 catalytic residue [active] 1123519009081 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 1123519009082 catalytic residues [active] 1123519009083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519009084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519009085 peroxiredoxin; Region: AhpC; TIGR03137 1123519009086 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 1123519009087 dimer interface [polypeptide binding]; other site 1123519009088 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1123519009089 catalytic triad [active] 1123519009090 peroxidatic and resolving cysteines [active] 1123519009091 hypothetical protein; Provisional; Region: PRK08999 1123519009092 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 1123519009093 active site 1123519009094 8-oxo-dGMP binding site [chemical binding]; other site 1123519009095 nudix motif; other site 1123519009096 metal binding site [ion binding]; metal-binding site 1123519009097 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 1123519009098 thiamine phosphate binding site [chemical binding]; other site 1123519009099 active site 1123519009100 pyrophosphate binding site [ion binding]; other site 1123519009101 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 1123519009102 heterotetramer interface [polypeptide binding]; other site 1123519009103 active site pocket [active] 1123519009104 cleavage site 1123519009105 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK13103 1123519009106 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 1123519009107 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1123519009108 SEC-C motif; Region: SEC-C; pfam02810 1123519009109 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1123519009110 YebG protein; Region: YebG; cl01217 1123519009111 Protein of unknown function (DUF3509); Region: DUF3509; pfam12021 1123519009112 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 1123519009113 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 1123519009114 DNA binding residues [nucleotide binding] 1123519009115 dimerization interface [polypeptide binding]; other site 1123519009116 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1123519009117 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1123519009118 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519009119 active site 1123519009120 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519009121 active site 1123519009122 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1123519009123 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1123519009124 glutamate racemase; Provisional; Region: PRK00865 1123519009125 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1123519009126 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 1123519009127 ATP binding site [chemical binding]; other site 1123519009128 substrate interface [chemical binding]; other site 1123519009129 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1123519009130 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519009131 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1123519009132 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1123519009133 RF-1 domain; Region: RF-1; pfam00472 1123519009134 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1123519009135 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1123519009136 tRNA; other site 1123519009137 putative tRNA binding site [nucleotide binding]; other site 1123519009138 putative NADP binding site [chemical binding]; other site 1123519009139 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1123519009140 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 1123519009141 TPR motif; other site 1123519009142 binding surface 1123519009143 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 1123519009144 TPR motif; other site 1123519009145 binding surface 1123519009146 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1123519009147 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 1123519009148 binding surface 1123519009149 TPR motif; other site 1123519009150 TPR repeat; Region: TPR_11; pfam13414 1123519009151 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 1123519009152 binding surface 1123519009153 TPR motif; other site 1123519009154 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 1123519009155 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1123519009156 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1123519009157 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1123519009158 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1123519009159 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1123519009160 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1123519009161 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519009162 active site 1123519009163 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1123519009164 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1123519009165 5S rRNA interface [nucleotide binding]; other site 1123519009166 CTC domain interface [polypeptide binding]; other site 1123519009167 L16 interface [polypeptide binding]; other site 1123519009168 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 1123519009169 putative active site [active] 1123519009170 catalytic residue [active] 1123519009171 GTP-binding protein YchF; Reviewed; Region: PRK09601 1123519009172 YchF GTPase; Region: YchF; cd01900 1123519009173 G1 box; other site 1123519009174 GTP/Mg2+ binding site [chemical binding]; other site 1123519009175 Switch I region; other site 1123519009176 G2 box; other site 1123519009177 Switch II region; other site 1123519009178 G3 box; other site 1123519009179 G4 box; other site 1123519009180 G5 box; other site 1123519009181 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 1123519009182 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1123519009183 active site 1123519009184 DNA binding site [nucleotide binding] 1123519009185 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1123519009186 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1123519009187 putative active site [active] 1123519009188 putative metal binding site [ion binding]; other site 1123519009189 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519009190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519009191 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 1123519009192 dimerization interface [polypeptide binding]; other site 1123519009193 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1123519009194 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519009195 putative substrate translocation pore; other site 1123519009196 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 1123519009197 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1123519009198 active site 1123519009199 catalytic tetrad [active] 1123519009200 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1123519009201 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 1123519009202 non-specific DNA binding site [nucleotide binding]; other site 1123519009203 salt bridge; other site 1123519009204 sequence-specific DNA binding site [nucleotide binding]; other site 1123519009205 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1123519009206 integrase; Provisional; Region: int; PHA02601 1123519009207 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 1123519009208 active site 1123519009209 DNA binding site [nucleotide binding] 1123519009210 Int/Topo IB signature motif; other site 1123519009211 Zonular occludens toxin (Zot); Region: Zot; cl17485 1123519009212 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 1123519009213 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 1123519009214 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519009215 active site 1123519009216 metal binding site [ion binding]; metal-binding site 1123519009217 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1123519009218 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519009219 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1123519009220 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 1123519009221 active sites [active] 1123519009222 tetramer interface [polypeptide binding]; other site 1123519009223 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1123519009224 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1123519009225 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1123519009226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519009227 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1123519009228 putative dimerization interface [polypeptide binding]; other site 1123519009229 putative substrate binding pocket [chemical binding]; other site 1123519009230 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1123519009231 EamA-like transporter family; Region: EamA; pfam00892 1123519009232 EamA-like transporter family; Region: EamA; pfam00892 1123519009233 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1123519009234 active site clefts [active] 1123519009235 zinc binding site [ion binding]; other site 1123519009236 dimer interface [polypeptide binding]; other site 1123519009237 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1123519009238 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1123519009239 active site 1123519009240 homotetramer interface [polypeptide binding]; other site 1123519009241 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1123519009242 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 1123519009243 active site 1123519009244 motif I; other site 1123519009245 motif II; other site 1123519009246 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1123519009247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519009248 Coenzyme A binding pocket [chemical binding]; other site 1123519009249 2-isopropylmalate synthase; Validated; Region: PRK00915 1123519009250 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1123519009251 active site 1123519009252 catalytic residues [active] 1123519009253 metal binding site [ion binding]; metal-binding site 1123519009254 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1123519009255 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1123519009256 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1123519009257 NAD(P) binding site [chemical binding]; other site 1123519009258 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1123519009259 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1123519009260 dimer interface [polypeptide binding]; other site 1123519009261 active site 1123519009262 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519009263 catalytic residues [active] 1123519009264 substrate binding site [chemical binding]; other site 1123519009265 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 1123519009266 Protein of unknown function, DUF479; Region: DUF479; cl01203 1123519009267 flavodoxin; Provisional; Region: PRK05723 1123519009268 dihydromonapterin reductase; Provisional; Region: PRK06483 1123519009269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519009270 NAD(P) binding site [chemical binding]; other site 1123519009271 active site 1123519009272 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1123519009273 homooctamer interface [polypeptide binding]; other site 1123519009274 active site 1123519009275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 1123519009276 HopJ type III effector protein; Region: HopJ; pfam08888 1123519009277 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1123519009278 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519009279 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1123519009280 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1123519009281 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 1123519009282 putative active site [active] 1123519009283 putative FMN binding site [chemical binding]; other site 1123519009284 putative substrate binding site [chemical binding]; other site 1123519009285 putative catalytic residue [active] 1123519009286 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519009287 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519009288 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1123519009289 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519009290 propionate/acetate kinase; Provisional; Region: PRK12379 1123519009291 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1123519009292 nucleotide binding site [chemical binding]; other site 1123519009293 butyrate kinase; Region: butyr_kinase; TIGR02707 1123519009294 phosphate acetyltransferase; Reviewed; Region: PRK05632 1123519009295 DRTGG domain; Region: DRTGG; pfam07085 1123519009296 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1123519009297 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519009298 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1123519009299 putative acyl-acceptor binding pocket; other site 1123519009300 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519009301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009302 active site 1123519009303 phosphorylation site [posttranslational modification] 1123519009304 intermolecular recognition site; other site 1123519009305 dimerization interface [polypeptide binding]; other site 1123519009306 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 1123519009307 PAS domain; Region: PAS_9; pfam13426 1123519009308 putative active site [active] 1123519009309 heme pocket [chemical binding]; other site 1123519009310 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519009311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519009312 metal binding site [ion binding]; metal-binding site 1123519009313 active site 1123519009314 I-site; other site 1123519009315 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 1123519009316 CHASE domain; Region: CHASE; pfam03924 1123519009317 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519009318 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 1123519009319 putative active site [active] 1123519009320 heme pocket [chemical binding]; other site 1123519009321 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 1123519009322 dimer interface [polypeptide binding]; other site 1123519009323 phosphorylation site [posttranslational modification] 1123519009324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519009325 ATP binding site [chemical binding]; other site 1123519009326 Mg2+ binding site [ion binding]; other site 1123519009327 G-X-G motif; other site 1123519009328 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519009329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009330 active site 1123519009331 phosphorylation site [posttranslational modification] 1123519009332 intermolecular recognition site; other site 1123519009333 dimerization interface [polypeptide binding]; other site 1123519009334 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519009335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009336 active site 1123519009337 phosphorylation site [posttranslational modification] 1123519009338 intermolecular recognition site; other site 1123519009339 dimerization interface [polypeptide binding]; other site 1123519009340 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519009341 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009342 active site 1123519009343 phosphorylation site [posttranslational modification] 1123519009344 intermolecular recognition site; other site 1123519009345 dimerization interface [polypeptide binding]; other site 1123519009346 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1123519009347 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519009348 ligand binding site [chemical binding]; other site 1123519009349 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 1123519009350 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1123519009351 acyl-activating enzyme (AAE) consensus motif; other site 1123519009352 AMP binding site [chemical binding]; other site 1123519009353 active site 1123519009354 CoA binding site [chemical binding]; other site 1123519009355 LysE type translocator; Region: LysE; cl00565 1123519009356 glycerate dehydrogenase; Provisional; Region: PRK06487 1123519009357 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1123519009358 putative ligand binding site [chemical binding]; other site 1123519009359 putative NAD binding site [chemical binding]; other site 1123519009360 catalytic site [active] 1123519009361 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1123519009362 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1123519009363 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519009364 S-adenosylmethionine binding site [chemical binding]; other site 1123519009365 Predicted membrane protein [Function unknown]; Region: COG2119 1123519009366 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1123519009367 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1123519009368 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 1123519009369 Peptidase family M48; Region: Peptidase_M48; pfam01435 1123519009370 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1123519009371 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1123519009372 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1123519009373 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1123519009374 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1123519009375 putative acyl-acceptor binding pocket; other site 1123519009376 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1123519009377 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1123519009378 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1123519009379 putative transporter; Provisional; Region: PRK11660 1123519009380 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1123519009381 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1123519009382 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 1123519009383 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1123519009384 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 1123519009385 NAD binding site [chemical binding]; other site 1123519009386 homodimer interface [polypeptide binding]; other site 1123519009387 active site 1123519009388 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1123519009389 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 1123519009390 MgtC family; Region: MgtC; pfam02308 1123519009391 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1123519009392 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 1123519009393 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1123519009394 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1123519009395 hypothetical protein; Provisional; Region: PRK08960 1123519009396 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 1123519009397 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519009398 homodimer interface [polypeptide binding]; other site 1123519009399 catalytic residue [active] 1123519009400 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1123519009401 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1123519009402 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1123519009403 active site 1123519009404 HIGH motif; other site 1123519009405 nucleotide binding site [chemical binding]; other site 1123519009406 KMSKS motif; other site 1123519009407 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1123519009408 Na binding site [ion binding]; other site 1123519009409 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1123519009410 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 1123519009411 dimer interface [polypeptide binding]; other site 1123519009412 phosphorylation site [posttranslational modification] 1123519009413 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519009414 ATP binding site [chemical binding]; other site 1123519009415 Mg2+ binding site [ion binding]; other site 1123519009416 G-X-G motif; other site 1123519009417 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519009418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009419 active site 1123519009420 phosphorylation site [posttranslational modification] 1123519009421 intermolecular recognition site; other site 1123519009422 dimerization interface [polypeptide binding]; other site 1123519009423 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519009424 Walker A motif; other site 1123519009425 ATP binding site [chemical binding]; other site 1123519009426 Walker B motif; other site 1123519009427 arginine finger; other site 1123519009428 poly(A) polymerase; Region: pcnB; TIGR01942 1123519009429 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1123519009430 active site 1123519009431 NTP binding site [chemical binding]; other site 1123519009432 metal binding triad [ion binding]; metal-binding site 1123519009433 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1123519009434 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1123519009435 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 1123519009436 catalytic center binding site [active] 1123519009437 ATP binding site [chemical binding]; other site 1123519009438 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 1123519009439 oligomerization interface [polypeptide binding]; other site 1123519009440 active site 1123519009441 metal binding site [ion binding]; metal-binding site 1123519009442 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1123519009443 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1123519009444 active site 1123519009445 ATP-binding site [chemical binding]; other site 1123519009446 pantoate-binding site; other site 1123519009447 HXXH motif; other site 1123519009448 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1123519009449 tetramerization interface [polypeptide binding]; other site 1123519009450 active site 1123519009451 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1123519009452 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 1123519009453 active site 1123519009454 dimer interface [polypeptide binding]; other site 1123519009455 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 1123519009456 dimer interface [polypeptide binding]; other site 1123519009457 active site 1123519009458 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 1123519009459 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1123519009460 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1123519009461 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1123519009462 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 1123519009463 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1123519009464 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 1123519009465 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 1123519009466 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1123519009467 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1123519009468 RNase E interface [polypeptide binding]; other site 1123519009469 trimer interface [polypeptide binding]; other site 1123519009470 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1123519009471 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1123519009472 RNase E interface [polypeptide binding]; other site 1123519009473 trimer interface [polypeptide binding]; other site 1123519009474 active site 1123519009475 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 1123519009476 putative nucleic acid binding region [nucleotide binding]; other site 1123519009477 G-X-X-G motif; other site 1123519009478 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 1123519009479 RNA binding site [nucleotide binding]; other site 1123519009480 domain interface; other site 1123519009481 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 1123519009482 16S/18S rRNA binding site [nucleotide binding]; other site 1123519009483 S13e-L30e interaction site [polypeptide binding]; other site 1123519009484 25S rRNA binding site [nucleotide binding]; other site 1123519009485 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1123519009486 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1123519009487 RNA binding site [nucleotide binding]; other site 1123519009488 active site 1123519009489 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1123519009490 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1123519009491 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519009492 G4 box; other site 1123519009493 G5 box; other site 1123519009494 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 1123519009495 Translation-initiation factor 2; Region: IF-2; pfam11987 1123519009496 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 1123519009497 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1123519009498 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1123519009499 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1123519009500 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519009501 G1 box; other site 1123519009502 GTP/Mg2+ binding site [chemical binding]; other site 1123519009503 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1123519009504 NusA N-terminal domain; Region: NusA_N; pfam08529 1123519009505 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 1123519009506 RNA binding site [nucleotide binding]; other site 1123519009507 homodimer interface [polypeptide binding]; other site 1123519009508 NusA-like KH domain; Region: KH_5; pfam13184 1123519009509 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 1123519009510 G-X-X-G motif; other site 1123519009511 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1123519009512 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1123519009513 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 1123519009514 Sm and related proteins; Region: Sm_like; cl00259 1123519009515 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1123519009516 putative oligomer interface [polypeptide binding]; other site 1123519009517 putative RNA binding site [nucleotide binding]; other site 1123519009518 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1123519009519 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 1123519009520 triosephosphate isomerase; Provisional; Region: PRK14567 1123519009521 substrate binding site [chemical binding]; other site 1123519009522 dimer interface [polypeptide binding]; other site 1123519009523 catalytic triad [active] 1123519009524 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1123519009525 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 1123519009526 active site 1123519009527 substrate binding site [chemical binding]; other site 1123519009528 metal binding site [ion binding]; metal-binding site 1123519009529 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 1123519009530 dihydropteroate synthase; Region: DHPS; TIGR01496 1123519009531 substrate binding pocket [chemical binding]; other site 1123519009532 dimer interface [polypeptide binding]; other site 1123519009533 inhibitor binding site; inhibition site 1123519009534 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1123519009535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519009536 Walker A motif; other site 1123519009537 ATP binding site [chemical binding]; other site 1123519009538 Walker B motif; other site 1123519009539 arginine finger; other site 1123519009540 Peptidase family M41; Region: Peptidase_M41; pfam01434 1123519009541 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 1123519009542 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1123519009543 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1123519009544 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1123519009545 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1123519009546 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1123519009547 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1123519009548 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1123519009549 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1123519009550 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1123519009551 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 1123519009552 IMP binding site; other site 1123519009553 dimer interface [polypeptide binding]; other site 1123519009554 interdomain contacts; other site 1123519009555 partial ornithine binding site; other site 1123519009556 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1123519009557 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1123519009558 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1123519009559 catalytic site [active] 1123519009560 subunit interface [polypeptide binding]; other site 1123519009561 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1123519009562 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1123519009563 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 1123519009564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1123519009565 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1123519009566 Walker A/P-loop; other site 1123519009567 ATP binding site [chemical binding]; other site 1123519009568 Q-loop/lid; other site 1123519009569 ABC transporter signature motif; other site 1123519009570 Walker B; other site 1123519009571 D-loop; other site 1123519009572 H-loop/switch region; other site 1123519009573 NnrS protein; Region: NnrS; pfam05940 1123519009574 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519009575 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 1123519009576 ligand binding site [chemical binding]; other site 1123519009577 flexible hinge region; other site 1123519009578 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 1123519009579 putative switch regulator; other site 1123519009580 non-specific DNA interactions [nucleotide binding]; other site 1123519009581 DNA binding site [nucleotide binding] 1123519009582 sequence specific DNA binding site [nucleotide binding]; other site 1123519009583 putative cAMP binding site [chemical binding]; other site 1123519009584 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1123519009585 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1123519009586 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1123519009587 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 1123519009588 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1123519009589 Transposase; Region: HTH_Tnp_1; pfam01527 1123519009590 potential frameshift: common BLAST hit: gi|386022147|ref|YP_005940172.1| integrase catalytic subunit 1123519009591 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519009592 ABC transporter signature motif; other site 1123519009593 Walker B; other site 1123519009594 D-loop; other site 1123519009595 H-loop/switch region; other site 1123519009596 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519009597 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519009598 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1123519009599 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1123519009600 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1123519009601 chaperone protein DnaJ; Provisional; Region: PRK10767 1123519009602 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 1123519009603 HSP70 interaction site [polypeptide binding]; other site 1123519009604 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1123519009605 substrate binding site [polypeptide binding]; other site 1123519009606 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1123519009607 Zn binding sites [ion binding]; other site 1123519009608 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1123519009609 dimer interface [polypeptide binding]; other site 1123519009610 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1123519009611 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1123519009612 nucleotide binding site [chemical binding]; other site 1123519009613 GrpE; Region: GrpE; pfam01025 1123519009614 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 1123519009615 dimer interface [polypeptide binding]; other site 1123519009616 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1123519009617 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1123519009618 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1123519009619 Walker A/P-loop; other site 1123519009620 ATP binding site [chemical binding]; other site 1123519009621 Q-loop/lid; other site 1123519009622 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1123519009623 ABC transporter signature motif; other site 1123519009624 Walker B; other site 1123519009625 D-loop; other site 1123519009626 H-loop/switch region; other site 1123519009627 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1123519009628 metal binding site 2 [ion binding]; metal-binding site 1123519009629 putative DNA binding helix; other site 1123519009630 metal binding site 1 [ion binding]; metal-binding site 1123519009631 dimer interface [polypeptide binding]; other site 1123519009632 structural Zn2+ binding site [ion binding]; other site 1123519009633 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1123519009634 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1123519009635 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1123519009636 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 1123519009637 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1123519009638 putative coenzyme Q binding site [chemical binding]; other site 1123519009639 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 1123519009640 SmpB-tmRNA interface; other site 1123519009641 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1123519009642 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519009643 DNA-binding site [nucleotide binding]; DNA binding site 1123519009644 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1123519009645 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1123519009646 L-lactate permease; Region: Lactate_perm; cl00701 1123519009647 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1123519009648 Cysteine-rich domain; Region: CCG; pfam02754 1123519009649 Cysteine-rich domain; Region: CCG; pfam02754 1123519009650 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 1123519009651 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1123519009652 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 1123519009653 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1123519009654 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1123519009655 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1123519009656 FAD binding domain; Region: FAD_binding_4; pfam01565 1123519009657 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 1123519009658 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1123519009659 Cysteine-rich domain; Region: CCG; pfam02754 1123519009660 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1123519009661 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1123519009662 zinc binding site [ion binding]; other site 1123519009663 putative ligand binding site [chemical binding]; other site 1123519009664 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519009665 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1123519009666 TM-ABC transporter signature motif; other site 1123519009667 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1123519009668 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519009669 Walker A/P-loop; other site 1123519009670 ATP binding site [chemical binding]; other site 1123519009671 Q-loop/lid; other site 1123519009672 ABC transporter signature motif; other site 1123519009673 Walker B; other site 1123519009674 D-loop; other site 1123519009675 H-loop/switch region; other site 1123519009676 putative transporter; Provisional; Region: PRK10504 1123519009677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519009678 putative substrate translocation pore; other site 1123519009679 Fe2+ transport protein; Region: Iron_transport; pfam10634 1123519009680 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1123519009681 Iron permease FTR1 family; Region: FTR1; cl00475 1123519009682 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1123519009683 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1123519009684 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 1123519009685 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 1123519009686 FeS/SAM binding site; other site 1123519009687 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 1123519009688 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 1123519009689 ATP cone domain; Region: ATP-cone; pfam03477 1123519009690 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1123519009691 effector binding site; other site 1123519009692 active site 1123519009693 Zn binding site [ion binding]; other site 1123519009694 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1123519009695 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 1123519009696 ligand binding site [chemical binding]; other site 1123519009697 flexible hinge region; other site 1123519009698 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1123519009699 non-specific DNA interactions [nucleotide binding]; other site 1123519009700 DNA binding site [nucleotide binding] 1123519009701 sequence specific DNA binding site [nucleotide binding]; other site 1123519009702 putative cAMP binding site [chemical binding]; other site 1123519009703 DGC domain; Region: DGC; pfam08859 1123519009704 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1123519009705 putative protease; Provisional; Region: PRK15447 1123519009706 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1123519009707 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1123519009708 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 1123519009709 Peptidase family U32; Region: Peptidase_U32; pfam01136 1123519009710 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1123519009711 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1123519009712 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1123519009713 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1123519009714 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1123519009715 active site 1123519009716 metal binding site [ion binding]; metal-binding site 1123519009717 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 1123519009718 active site residue [active] 1123519009719 PrkA family serine protein kinase; Provisional; Region: PRK15455 1123519009720 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1123519009721 hypothetical protein; Provisional; Region: PRK05325 1123519009722 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1123519009723 SpoVR family protein; Provisional; Region: PRK11767 1123519009724 replicative DNA helicase; Provisional; Region: PRK05748 1123519009725 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1123519009726 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 1123519009727 Walker A motif; other site 1123519009728 ATP binding site [chemical binding]; other site 1123519009729 Walker B motif; other site 1123519009730 DNA binding loops [nucleotide binding] 1123519009731 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1123519009732 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1123519009733 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1123519009734 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1123519009735 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1123519009736 PAS fold; Region: PAS_4; pfam08448 1123519009737 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 1123519009738 putative active site [active] 1123519009739 heme pocket [chemical binding]; other site 1123519009740 PAS domain; Region: PAS_9; pfam13426 1123519009741 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 1123519009742 dimer interface [polypeptide binding]; other site 1123519009743 phosphorylation site [posttranslational modification] 1123519009744 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519009745 ATP binding site [chemical binding]; other site 1123519009746 Mg2+ binding site [ion binding]; other site 1123519009747 G-X-G motif; other site 1123519009748 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519009749 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519009750 active site 1123519009751 phosphorylation site [posttranslational modification] 1123519009752 intermolecular recognition site; other site 1123519009753 dimerization interface [polypeptide binding]; other site 1123519009754 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1123519009755 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1123519009756 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1123519009757 ribonuclease R; Region: RNase_R; TIGR02063 1123519009758 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1123519009759 RNB domain; Region: RNB; pfam00773 1123519009760 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 1123519009761 RNA binding site [nucleotide binding]; other site 1123519009762 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1123519009763 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 1123519009764 GDP-binding site [chemical binding]; other site 1123519009765 ACT binding site; other site 1123519009766 IMP binding site; other site 1123519009767 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 1123519009768 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 1123519009769 dimer interface [polypeptide binding]; other site 1123519009770 motif 1; other site 1123519009771 active site 1123519009772 motif 2; other site 1123519009773 motif 3; other site 1123519009774 FtsH protease regulator HflC; Provisional; Region: PRK11029 1123519009775 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 1123519009776 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1123519009777 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 1123519009778 HflK protein; Region: hflK; TIGR01933 1123519009779 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1123519009780 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1123519009781 HflX GTPase family; Region: HflX; cd01878 1123519009782 G1 box; other site 1123519009783 GTP/Mg2+ binding site [chemical binding]; other site 1123519009784 Switch I region; other site 1123519009785 G2 box; other site 1123519009786 G3 box; other site 1123519009787 Switch II region; other site 1123519009788 G4 box; other site 1123519009789 G5 box; other site 1123519009790 bacterial Hfq-like; Region: Hfq; cd01716 1123519009791 hexamer interface [polypeptide binding]; other site 1123519009792 Sm1 motif; other site 1123519009793 RNA binding site [nucleotide binding]; other site 1123519009794 Sm2 motif; other site 1123519009795 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1123519009796 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1123519009797 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1123519009798 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519009799 ATP binding site [chemical binding]; other site 1123519009800 Mg2+ binding site [ion binding]; other site 1123519009801 G-X-G motif; other site 1123519009802 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 1123519009803 ATP binding site [chemical binding]; other site 1123519009804 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1123519009805 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1123519009806 AMIN domain; Region: AMIN; pfam11741 1123519009807 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 1123519009808 active site 1123519009809 metal binding site [ion binding]; metal-binding site 1123519009810 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1123519009811 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1123519009812 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1123519009813 putative carbohydrate kinase; Provisional; Region: PRK10565 1123519009814 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1123519009815 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 1123519009816 putative substrate binding site [chemical binding]; other site 1123519009817 putative ATP binding site [chemical binding]; other site 1123519009818 epoxyqueuosine reductase; Region: TIGR00276 1123519009819 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1123519009820 Protein of unknown function (DUF1375); Region: DUF1375; pfam07119 1123519009821 aromatic acid decarboxylase; Validated; Region: PRK05920 1123519009822 Flavoprotein; Region: Flavoprotein; pfam02441 1123519009823 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1123519009824 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1123519009825 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1123519009826 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1123519009827 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1123519009828 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1123519009829 NAD(P) binding site [chemical binding]; other site 1123519009830 catalytic residues [active] 1123519009831 ethanolamine permease; Region: 2A0305; TIGR00908 1123519009832 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 1123519009833 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1123519009834 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 1123519009835 potential frameshift: common BLAST hit: gi|386022349|ref|YP_005940374.1| Tat pathway signal sequence domain-containing protein 1123519009836 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 1123519009837 homotrimer interaction site [polypeptide binding]; other site 1123519009838 putative active site [active] 1123519009839 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1123519009840 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1123519009841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519009842 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 1123519009843 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1123519009844 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 1123519009845 dimer interface [polypeptide binding]; other site 1123519009846 substrate binding site [chemical binding]; other site 1123519009847 metal binding sites [ion binding]; metal-binding site 1123519009848 LysE type translocator; Region: LysE; cl00565 1123519009849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519009850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519009851 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 1123519009852 putative effector binding pocket; other site 1123519009853 putative dimerization interface [polypeptide binding]; other site 1123519009854 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519009855 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 1123519009856 active site 1123519009857 metal binding site [ion binding]; metal-binding site 1123519009858 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519009859 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 1123519009860 putative C-terminal domain interface [polypeptide binding]; other site 1123519009861 putative GSH binding site (G-site) [chemical binding]; other site 1123519009862 putative dimer interface [polypeptide binding]; other site 1123519009863 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 1123519009864 putative N-terminal domain interface [polypeptide binding]; other site 1123519009865 putative dimer interface [polypeptide binding]; other site 1123519009866 putative substrate binding pocket (H-site) [chemical binding]; other site 1123519009867 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1123519009868 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1123519009869 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 1123519009870 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1123519009871 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519009872 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 1123519009873 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1123519009874 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 1123519009875 FMN binding site [chemical binding]; other site 1123519009876 dimer interface [polypeptide binding]; other site 1123519009877 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 1123519009878 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1123519009879 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1123519009880 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1123519009881 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1123519009882 substrate binding pocket [chemical binding]; other site 1123519009883 chain length determination region; other site 1123519009884 substrate-Mg2+ binding site; other site 1123519009885 catalytic residues [active] 1123519009886 aspartate-rich region 1; other site 1123519009887 active site lid residues [active] 1123519009888 aspartate-rich region 2; other site 1123519009889 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1123519009890 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 1123519009891 TPP-binding site; other site 1123519009892 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 1123519009893 PYR/PP interface [polypeptide binding]; other site 1123519009894 dimer interface [polypeptide binding]; other site 1123519009895 TPP binding site [chemical binding]; other site 1123519009896 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1123519009897 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1123519009898 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1123519009899 putative dimer interface [polypeptide binding]; other site 1123519009900 active site pocket [active] 1123519009901 putative cataytic base [active] 1123519009902 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1123519009903 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 1123519009904 catalytic core [active] 1123519009905 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 1123519009906 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1123519009907 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 1123519009908 N-terminal plug; other site 1123519009909 ligand-binding site [chemical binding]; other site 1123519009910 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1123519009911 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 1123519009912 intersubunit interface [polypeptide binding]; other site 1123519009913 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 1123519009914 dimer interface [polypeptide binding]; other site 1123519009915 putative PBP binding regions; other site 1123519009916 ABC-ATPase subunit interface; other site 1123519009917 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1123519009918 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1123519009919 Walker A/P-loop; other site 1123519009920 ATP binding site [chemical binding]; other site 1123519009921 Q-loop/lid; other site 1123519009922 ABC transporter signature motif; other site 1123519009923 Walker B; other site 1123519009924 D-loop; other site 1123519009925 H-loop/switch region; other site 1123519009926 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 1123519009927 dimerization interface [polypeptide binding]; other site 1123519009928 active site 1123519009929 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1123519009930 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1123519009931 catalytic motif [active] 1123519009932 Catalytic residue [active] 1123519009933 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1123519009934 tetramer interfaces [polypeptide binding]; other site 1123519009935 binuclear metal-binding site [ion binding]; other site 1123519009936 thiamine monophosphate kinase; Provisional; Region: PRK05731 1123519009937 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 1123519009938 ATP binding site [chemical binding]; other site 1123519009939 dimerization interface [polypeptide binding]; other site 1123519009940 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 1123519009941 putative RNA binding site [nucleotide binding]; other site 1123519009942 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 1123519009943 homopentamer interface [polypeptide binding]; other site 1123519009944 active site 1123519009945 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1123519009946 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1123519009947 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1123519009948 dimerization interface [polypeptide binding]; other site 1123519009949 active site 1123519009950 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1123519009951 Lumazine binding domain; Region: Lum_binding; pfam00677 1123519009952 Lumazine binding domain; Region: Lum_binding; pfam00677 1123519009953 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1123519009954 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 1123519009955 catalytic motif [active] 1123519009956 Zn binding site [ion binding]; other site 1123519009957 RibD C-terminal domain; Region: RibD_C; cl17279 1123519009958 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1123519009959 ATP cone domain; Region: ATP-cone; pfam03477 1123519009960 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1123519009961 Predicted methyltransferase [General function prediction only]; Region: COG3897 1123519009962 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519009963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519009964 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519009965 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 1123519009966 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1123519009967 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1123519009968 hypothetical protein; Provisional; Region: PRK11018 1123519009969 CPxP motif; other site 1123519009970 putative inner membrane protein; Provisional; Region: PRK11099 1123519009971 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1123519009972 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 1123519009973 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1123519009974 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 1123519009975 active site 1123519009976 motif I; other site 1123519009977 motif II; other site 1123519009978 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1123519009979 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 1123519009980 active site 1123519009981 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 1123519009982 catalytic triad [active] 1123519009983 dimer interface [polypeptide binding]; other site 1123519009984 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1123519009985 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1123519009986 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 1123519009987 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519009988 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 1123519009989 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1123519009990 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1123519009991 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1123519009992 aspartate racemase; Region: asp_race; TIGR00035 1123519009993 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519009994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519009995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519009996 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1123519009997 classical (c) SDRs; Region: SDR_c; cd05233 1123519009998 NAD(P) binding site [chemical binding]; other site 1123519009999 active site 1123519010000 TLC ATP/ADP transporter; Region: TLC; cl03940 1123519010001 short chain dehydrogenase; Provisional; Region: PRK06197 1123519010002 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 1123519010003 putative NAD(P) binding site [chemical binding]; other site 1123519010004 active site 1123519010005 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519010006 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519010007 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1123519010008 putative effector binding pocket; other site 1123519010009 putative dimerization interface [polypeptide binding]; other site 1123519010010 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1123519010011 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 1123519010012 putative C-terminal domain interface [polypeptide binding]; other site 1123519010013 putative GSH binding site (G-site) [chemical binding]; other site 1123519010014 putative dimer interface [polypeptide binding]; other site 1123519010015 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1123519010016 putative N-terminal domain interface [polypeptide binding]; other site 1123519010017 putative dimer interface [polypeptide binding]; other site 1123519010018 putative substrate binding pocket (H-site) [chemical binding]; other site 1123519010019 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 1123519010020 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1123519010021 ATP binding site [chemical binding]; other site 1123519010022 Mg++ binding site [ion binding]; other site 1123519010023 motif III; other site 1123519010024 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 1123519010025 nucleotide binding region [chemical binding]; other site 1123519010026 ATP-binding site [chemical binding]; other site 1123519010027 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1123519010028 LabA_like proteins; Region: LabA; cd10911 1123519010029 putative metal binding site [ion binding]; other site 1123519010030 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 1123519010031 short chain dehydrogenase; Provisional; Region: PRK06181 1123519010032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519010033 NAD(P) binding site [chemical binding]; other site 1123519010034 active site 1123519010035 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519010036 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 1123519010037 substrate binding pocket [chemical binding]; other site 1123519010038 membrane-bound complex binding site; other site 1123519010039 hinge residues; other site 1123519010040 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 1123519010041 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 1123519010042 ATP binding site [chemical binding]; other site 1123519010043 putative Mg++ binding site [ion binding]; other site 1123519010044 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 1123519010045 nucleotide binding region [chemical binding]; other site 1123519010046 ATP-binding site [chemical binding]; other site 1123519010047 Helicase associated domain (HA2); Region: HA2; cl04503 1123519010048 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1123519010049 Cation efflux family; Region: Cation_efflux; cl00316 1123519010050 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1123519010051 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519010052 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 1123519010053 putative DNA binding site [nucleotide binding]; other site 1123519010054 putative Zn2+ binding site [ion binding]; other site 1123519010055 AsnC family; Region: AsnC_trans_reg; pfam01037 1123519010056 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 1123519010057 heme-binding site [chemical binding]; other site 1123519010058 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1123519010059 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1123519010060 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 1123519010061 phosphorylation site [posttranslational modification] 1123519010062 dimer interface [polypeptide binding]; other site 1123519010063 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519010064 ATP binding site [chemical binding]; other site 1123519010065 Mg2+ binding site [ion binding]; other site 1123519010066 G-X-G motif; other site 1123519010067 putative outer membrane receptor; Provisional; Region: PRK13513 1123519010068 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 1123519010069 N-terminal plug; other site 1123519010070 ligand-binding site [chemical binding]; other site 1123519010071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519010072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519010073 active site 1123519010074 phosphorylation site [posttranslational modification] 1123519010075 intermolecular recognition site; other site 1123519010076 dimerization interface [polypeptide binding]; other site 1123519010077 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 1123519010078 DNA binding site [nucleotide binding] 1123519010079 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519010080 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519010081 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 1123519010082 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1123519010083 pseudouridine synthase; Region: TIGR00093 1123519010084 active site 1123519010085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1123519010086 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1123519010087 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519010088 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 1123519010089 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1123519010090 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519010091 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1123519010092 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1123519010093 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 1123519010094 putative active site [active] 1123519010095 heme pocket [chemical binding]; other site 1123519010096 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519010097 Walker A motif; other site 1123519010098 ATP binding site [chemical binding]; other site 1123519010099 Walker B motif; other site 1123519010100 arginine finger; other site 1123519010101 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1123519010102 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1123519010103 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1123519010104 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1123519010105 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1123519010106 CheB methylesterase; Region: CheB_methylest; pfam01339 1123519010107 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 1123519010108 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1123519010109 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 1123519010110 PAS domain; Region: PAS_10; pfam13596 1123519010111 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 1123519010112 putative active site [active] 1123519010113 heme pocket [chemical binding]; other site 1123519010114 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519010115 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 1123519010116 putative active site [active] 1123519010117 heme pocket [chemical binding]; other site 1123519010118 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 1123519010119 dimer interface [polypeptide binding]; other site 1123519010120 phosphorylation site [posttranslational modification] 1123519010121 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519010122 ATP binding site [chemical binding]; other site 1123519010123 Mg2+ binding site [ion binding]; other site 1123519010124 G-X-G motif; other site 1123519010125 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519010126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519010127 active site 1123519010128 phosphorylation site [posttranslational modification] 1123519010129 intermolecular recognition site; other site 1123519010130 dimerization interface [polypeptide binding]; other site 1123519010131 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1123519010132 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1123519010133 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519010134 Walker A motif; other site 1123519010135 ATP binding site [chemical binding]; other site 1123519010136 Walker B motif; other site 1123519010137 arginine finger; other site 1123519010138 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 1123519010139 cofactor binding site; other site 1123519010140 metal binding site [ion binding]; metal-binding site 1123519010141 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 1123519010142 aromatic arch; other site 1123519010143 DCoH dimer interaction site [polypeptide binding]; other site 1123519010144 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1123519010145 DCoH tetramer interaction site [polypeptide binding]; other site 1123519010146 substrate binding site [chemical binding]; other site 1123519010147 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1123519010148 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 1123519010149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519010150 homodimer interface [polypeptide binding]; other site 1123519010151 catalytic residue [active] 1123519010152 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1123519010153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1123519010154 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1123519010155 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 1123519010156 N-terminal plug; other site 1123519010157 ligand-binding site [chemical binding]; other site 1123519010158 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 1123519010159 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1123519010160 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 1123519010161 Cache domain; Region: Cache_1; pfam02743 1123519010162 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 1123519010163 dimerization interface [polypeptide binding]; other site 1123519010164 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519010165 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519010166 dimer interface [polypeptide binding]; other site 1123519010167 putative CheW interface [polypeptide binding]; other site 1123519010168 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1123519010169 Na2 binding site [ion binding]; other site 1123519010170 putative substrate binding site 1 [chemical binding]; other site 1123519010171 Na binding site 1 [ion binding]; other site 1123519010172 putative substrate binding site 2 [chemical binding]; other site 1123519010173 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 1123519010174 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1123519010175 C-terminal domain interface [polypeptide binding]; other site 1123519010176 GSH binding site (G-site) [chemical binding]; other site 1123519010177 putative dimer interface [polypeptide binding]; other site 1123519010178 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1123519010179 dimer interface [polypeptide binding]; other site 1123519010180 N-terminal domain interface [polypeptide binding]; other site 1123519010181 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1123519010182 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1123519010183 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1123519010184 dimer interface [polypeptide binding]; other site 1123519010185 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1123519010186 active site 1123519010187 Fe binding site [ion binding]; other site 1123519010188 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1123519010189 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1123519010190 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1123519010191 NAD binding site [chemical binding]; other site 1123519010192 Phe binding site; other site 1123519010193 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 1123519010194 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1123519010195 dimer interface [polypeptide binding]; other site 1123519010196 PYR/PP interface [polypeptide binding]; other site 1123519010197 TPP binding site [chemical binding]; other site 1123519010198 substrate binding site [chemical binding]; other site 1123519010199 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 1123519010200 TPP-binding site; other site 1123519010201 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1123519010202 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1123519010203 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 1123519010204 putative DNA binding site [nucleotide binding]; other site 1123519010205 putative Zn2+ binding site [ion binding]; other site 1123519010206 AsnC family; Region: AsnC_trans_reg; pfam01037 1123519010207 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 1123519010208 dimerization interface [polypeptide binding]; other site 1123519010209 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519010210 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519010211 dimer interface [polypeptide binding]; other site 1123519010212 putative CheW interface [polypeptide binding]; other site 1123519010213 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1123519010214 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1123519010215 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 1123519010216 NAD binding site [chemical binding]; other site 1123519010217 homotetramer interface [polypeptide binding]; other site 1123519010218 homodimer interface [polypeptide binding]; other site 1123519010219 substrate binding site [chemical binding]; other site 1123519010220 active site 1123519010221 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1123519010222 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1123519010223 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 1123519010224 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 1123519010225 putative DNA binding site [nucleotide binding]; other site 1123519010226 catalytic residue [active] 1123519010227 putative H2TH interface [polypeptide binding]; other site 1123519010228 putative catalytic residues [active] 1123519010229 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1123519010230 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1123519010231 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1123519010232 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 1123519010233 probable active site [active] 1123519010234 thiamine pyrophosphate protein; Provisional; Region: PRK08273 1123519010235 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1123519010236 PYR/PP interface [polypeptide binding]; other site 1123519010237 dimer interface [polypeptide binding]; other site 1123519010238 tetramer interface [polypeptide binding]; other site 1123519010239 TPP binding site [chemical binding]; other site 1123519010240 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1123519010241 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1123519010242 TPP-binding site [chemical binding]; other site 1123519010243 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1123519010244 Predicted membrane protein [Function unknown]; Region: COG3212 1123519010245 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1123519010246 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1123519010247 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519010248 active site 1123519010249 phosphorylation site [posttranslational modification] 1123519010250 intermolecular recognition site; other site 1123519010251 dimerization interface [polypeptide binding]; other site 1123519010252 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 1123519010253 DNA binding site [nucleotide binding] 1123519010254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519010255 ATP binding site [chemical binding]; other site 1123519010256 Mg2+ binding site [ion binding]; other site 1123519010257 G-X-G motif; other site 1123519010258 exonuclease subunit SbcD; Provisional; Region: PRK10966 1123519010259 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1123519010260 active site 1123519010261 metal binding site [ion binding]; metal-binding site 1123519010262 DNA binding site [nucleotide binding] 1123519010263 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1123519010264 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519010265 Walker A/P-loop; other site 1123519010266 ATP binding site [chemical binding]; other site 1123519010267 Q-loop/lid; other site 1123519010268 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1123519010269 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1123519010270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1123519010271 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1123519010272 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 1123519010273 cyanate hydratase; Validated; Region: PRK02866 1123519010274 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 1123519010275 oligomer interface [polypeptide binding]; other site 1123519010276 active site 1123519010277 Cytochrome c; Region: Cytochrom_C; cl11414 1123519010278 Cytochrome c; Region: Cytochrom_C; cl11414 1123519010279 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 1123519010280 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1123519010281 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1123519010282 PhnA protein; Region: PhnA; pfam03831 1123519010283 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1123519010284 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1123519010285 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1123519010286 arginine decarboxylase; Provisional; Region: PRK05354 1123519010287 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1123519010288 dimer interface [polypeptide binding]; other site 1123519010289 active site 1123519010290 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1123519010291 catalytic residues [active] 1123519010292 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1123519010293 translation initiation factor Sui1; Validated; Region: PRK06824 1123519010294 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1123519010295 putative rRNA binding site [nucleotide binding]; other site 1123519010296 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1123519010297 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 1123519010298 Type II transport protein GspH; Region: GspH; pfam12019 1123519010299 Type II transport protein GspH; Region: GspH; pfam12019 1123519010300 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 1123519010301 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 1123519010302 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 1123519010303 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 1123519010304 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 1123519010305 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 1123519010306 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 1123519010307 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1123519010308 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1123519010309 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1123519010310 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519010311 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1123519010312 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1123519010313 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1123519010314 active site 1123519010315 HIGH motif; other site 1123519010316 nucleotide binding site [chemical binding]; other site 1123519010317 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1123519010318 active site 1123519010319 KMSKS motif; other site 1123519010320 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1123519010321 tRNA binding surface [nucleotide binding]; other site 1123519010322 anticodon binding site; other site 1123519010323 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1123519010324 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1123519010325 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1123519010326 active site 1123519010327 Riboflavin kinase; Region: Flavokinase; smart00904 1123519010328 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1123519010329 MviN-like protein; Region: MVIN; pfam03023 1123519010330 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1123519010331 hypothetical protein; Provisional; Region: PRK10756 1123519010332 CreA protein; Region: CreA; pfam05981 1123519010333 gamma-glutamyl kinase; Provisional; Region: PRK05429 1123519010334 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 1123519010335 nucleotide binding site [chemical binding]; other site 1123519010336 homotetrameric interface [polypeptide binding]; other site 1123519010337 putative phosphate binding site [ion binding]; other site 1123519010338 putative allosteric binding site; other site 1123519010339 PUA domain; Region: PUA; pfam01472 1123519010340 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1123519010341 GTP1/OBG; Region: GTP1_OBG; pfam01018 1123519010342 Obg GTPase; Region: Obg; cd01898 1123519010343 G1 box; other site 1123519010344 GTP/Mg2+ binding site [chemical binding]; other site 1123519010345 Switch I region; other site 1123519010346 G2 box; other site 1123519010347 G3 box; other site 1123519010348 Switch II region; other site 1123519010349 G4 box; other site 1123519010350 G5 box; other site 1123519010351 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1123519010352 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1123519010353 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1123519010354 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1123519010355 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1123519010356 substrate binding pocket [chemical binding]; other site 1123519010357 chain length determination region; other site 1123519010358 substrate-Mg2+ binding site; other site 1123519010359 catalytic residues [active] 1123519010360 aspartate-rich region 1; other site 1123519010361 active site lid residues [active] 1123519010362 aspartate-rich region 2; other site 1123519010363 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1123519010364 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1123519010365 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1123519010366 hypothetical protein; Provisional; Region: PRK05208 1123519010367 AAA domain; Region: AAA_32; pfam13654 1123519010368 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1123519010369 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 1123519010370 Cupin domain; Region: Cupin_2; cl17218 1123519010371 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519010372 Cytochrome c; Region: Cytochrom_C; pfam00034 1123519010373 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1123519010374 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1123519010375 MoxR-like ATPases [General function prediction only]; Region: COG0714 1123519010376 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1123519010377 Walker A motif; other site 1123519010378 ATP binding site [chemical binding]; other site 1123519010379 Walker B motif; other site 1123519010380 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1123519010381 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1123519010382 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1123519010383 metal ion-dependent adhesion site (MIDAS); other site 1123519010384 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 1123519010385 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1123519010386 Protein of unknown function (DUF465); Region: DUF465; cl01070 1123519010387 DNA repair protein RadA; Provisional; Region: PRK11823 1123519010388 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 1123519010389 Walker A motif; other site 1123519010390 ATP binding site [chemical binding]; other site 1123519010391 Walker B motif; other site 1123519010392 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1123519010393 PilZ domain; Region: PilZ; pfam07238 1123519010394 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1123519010395 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1123519010396 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 1123519010397 dimer interface [polypeptide binding]; other site 1123519010398 active site 1123519010399 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1123519010400 folate binding site [chemical binding]; other site 1123519010401 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 1123519010402 PAS fold; Region: PAS_3; pfam08447 1123519010403 putative active site [active] 1123519010404 heme pocket [chemical binding]; other site 1123519010405 PAS domain S-box; Region: sensory_box; TIGR00229 1123519010406 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 1123519010407 putative active site [active] 1123519010408 heme pocket [chemical binding]; other site 1123519010409 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 1123519010410 PAS domain; Region: PAS_9; pfam13426 1123519010411 putative active site [active] 1123519010412 heme pocket [chemical binding]; other site 1123519010413 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519010414 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519010415 metal binding site [ion binding]; metal-binding site 1123519010416 active site 1123519010417 I-site; other site 1123519010418 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 1123519010419 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1123519010420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519010421 Walker A/P-loop; other site 1123519010422 ATP binding site [chemical binding]; other site 1123519010423 Q-loop/lid; other site 1123519010424 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519010425 ABC transporter signature motif; other site 1123519010426 Walker B; other site 1123519010427 D-loop; other site 1123519010428 ABC transporter; Region: ABC_tran_2; pfam12848 1123519010429 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1123519010430 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 1123519010431 ATP-binding site [chemical binding]; other site 1123519010432 Gluconate-6-phosphate binding site [chemical binding]; other site 1123519010433 Shikimate kinase; Region: SKI; pfam01202 1123519010434 glutamate dehydrogenase; Provisional; Region: PRK09414 1123519010435 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1123519010436 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1123519010437 NAD(P) binding site [chemical binding]; other site 1123519010438 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1123519010439 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 1123519010440 FAD binding pocket [chemical binding]; other site 1123519010441 FAD binding motif [chemical binding]; other site 1123519010442 phosphate binding motif [ion binding]; other site 1123519010443 beta-alpha-beta structure motif; other site 1123519010444 NAD binding pocket [chemical binding]; other site 1123519010445 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1123519010446 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519010447 S-adenosylmethionine binding site [chemical binding]; other site 1123519010448 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1123519010449 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1123519010450 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1123519010451 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1123519010452 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1123519010453 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1123519010454 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1123519010455 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1123519010456 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 1123519010457 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1123519010458 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1123519010459 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1123519010460 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519010461 S-adenosylmethionine binding site [chemical binding]; other site 1123519010462 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1123519010463 potential protein location (hypothetical protein PSJM300_16690 [Pseudomonas stutzeri DSM 10701]) that overlaps RNA (tRNA-other) 1123519010464 Predicted metal-binding protein [General function prediction only]; Region: COG3019 1123519010465 Predicted metalloprotease [General function prediction only]; Region: COG2321 1123519010466 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1123519010467 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 1123519010468 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 1123519010469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1123519010470 Walker A/P-loop; other site 1123519010471 ATP binding site [chemical binding]; other site 1123519010472 Q-loop/lid; other site 1123519010473 ABC transporter signature motif; other site 1123519010474 Walker B; other site 1123519010475 D-loop; other site 1123519010476 H-loop/switch region; other site 1123519010477 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1123519010478 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1123519010479 FtsX-like permease family; Region: FtsX; pfam02687 1123519010480 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1123519010481 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 1123519010482 binding surface 1123519010483 TPR motif; other site 1123519010484 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1123519010485 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1123519010486 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1123519010487 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1123519010488 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 1123519010489 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1123519010490 OmpW family; Region: OmpW; cl17427 1123519010491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519010492 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1123519010493 NAD(P) binding site [chemical binding]; other site 1123519010494 active site 1123519010495 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1123519010496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1123519010497 NAD(P) binding site [chemical binding]; other site 1123519010498 active site 1123519010499 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1123519010500 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 1123519010501 dimer interface [polypeptide binding]; other site 1123519010502 ssDNA binding site [nucleotide binding]; other site 1123519010503 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1123519010504 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519010505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519010506 putative substrate translocation pore; other site 1123519010507 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1123519010508 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1123519010509 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1123519010510 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1123519010511 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1123519010512 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1123519010513 tetramer interface [polypeptide binding]; other site 1123519010514 heme binding pocket [chemical binding]; other site 1123519010515 NADPH binding site [chemical binding]; other site 1123519010516 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1123519010517 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1123519010518 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1123519010519 alphaNTD homodimer interface [polypeptide binding]; other site 1123519010520 alphaNTD - beta interaction site [polypeptide binding]; other site 1123519010521 alphaNTD - beta' interaction site [polypeptide binding]; other site 1123519010522 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1123519010523 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1123519010524 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1123519010525 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 1123519010526 RNA binding surface [nucleotide binding]; other site 1123519010527 30S ribosomal protein S11; Validated; Region: PRK05309 1123519010528 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1123519010529 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1123519010530 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1123519010531 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1123519010532 SecY translocase; Region: SecY; pfam00344 1123519010533 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1123519010534 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 1123519010535 23S rRNA binding site [nucleotide binding]; other site 1123519010536 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1123519010537 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1123519010538 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1123519010539 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 1123519010540 5S rRNA interface [nucleotide binding]; other site 1123519010541 23S rRNA interface [nucleotide binding]; other site 1123519010542 L5 interface [polypeptide binding]; other site 1123519010543 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1123519010544 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1123519010545 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1123519010546 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1123519010547 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1123519010548 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1123519010549 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1123519010550 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1123519010551 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1123519010552 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1123519010553 RNA binding site [nucleotide binding]; other site 1123519010554 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1123519010555 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1123519010556 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 1123519010557 23S rRNA interface [nucleotide binding]; other site 1123519010558 putative translocon interaction site; other site 1123519010559 signal recognition particle (SRP54) interaction site; other site 1123519010560 L23 interface [polypeptide binding]; other site 1123519010561 trigger factor interaction site; other site 1123519010562 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 1123519010563 23S rRNA interface [nucleotide binding]; other site 1123519010564 5S rRNA interface [nucleotide binding]; other site 1123519010565 putative antibiotic binding site [chemical binding]; other site 1123519010566 L25 interface [polypeptide binding]; other site 1123519010567 L27 interface [polypeptide binding]; other site 1123519010568 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1123519010569 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 1123519010570 G-X-X-G motif; other site 1123519010571 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1123519010572 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 1123519010573 protein-rRNA interface [nucleotide binding]; other site 1123519010574 putative translocon binding site; other site 1123519010575 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1123519010576 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1123519010577 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1123519010578 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1123519010579 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1123519010580 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1123519010581 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1123519010582 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1123519010583 elongation factor Tu; Reviewed; Region: PRK00049 1123519010584 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1123519010585 G1 box; other site 1123519010586 GEF interaction site [polypeptide binding]; other site 1123519010587 GTP/Mg2+ binding site [chemical binding]; other site 1123519010588 Switch I region; other site 1123519010589 G2 box; other site 1123519010590 G3 box; other site 1123519010591 Switch II region; other site 1123519010592 G4 box; other site 1123519010593 G5 box; other site 1123519010594 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 1123519010595 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 1123519010596 Antibiotic Binding Site [chemical binding]; other site 1123519010597 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 1123519010598 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519010599 G1 box; other site 1123519010600 GTP/Mg2+ binding site [chemical binding]; other site 1123519010601 G2 box; other site 1123519010602 Switch I region; other site 1123519010603 G3 box; other site 1123519010604 Switch II region; other site 1123519010605 30S ribosomal protein S7; Validated; Region: PRK05302 1123519010606 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 1123519010607 S17 interaction site [polypeptide binding]; other site 1123519010608 S8 interaction site; other site 1123519010609 16S rRNA interaction site [nucleotide binding]; other site 1123519010610 streptomycin interaction site [chemical binding]; other site 1123519010611 23S rRNA interaction site [nucleotide binding]; other site 1123519010612 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1123519010613 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1123519010614 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1123519010615 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1123519010616 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1123519010617 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1123519010618 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1123519010619 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1123519010620 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1123519010621 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1123519010622 DNA binding site [nucleotide binding] 1123519010623 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1123519010624 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1123519010625 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 1123519010626 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1123519010627 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 1123519010628 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1123519010629 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 1123519010630 RPB3 interaction site [polypeptide binding]; other site 1123519010631 RPB1 interaction site [polypeptide binding]; other site 1123519010632 RPB11 interaction site [polypeptide binding]; other site 1123519010633 RPB10 interaction site [polypeptide binding]; other site 1123519010634 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 1123519010635 core dimer interface [polypeptide binding]; other site 1123519010636 peripheral dimer interface [polypeptide binding]; other site 1123519010637 L10 interface [polypeptide binding]; other site 1123519010638 L11 interface [polypeptide binding]; other site 1123519010639 putative EF-Tu interaction site [polypeptide binding]; other site 1123519010640 putative EF-G interaction site [polypeptide binding]; other site 1123519010641 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 1123519010642 23S rRNA interface [nucleotide binding]; other site 1123519010643 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1123519010644 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 1123519010645 mRNA/rRNA interface [nucleotide binding]; other site 1123519010646 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1123519010647 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 1123519010648 23S rRNA interface [nucleotide binding]; other site 1123519010649 L7/L12 interface [polypeptide binding]; other site 1123519010650 putative thiostrepton binding site; other site 1123519010651 L25 interface [polypeptide binding]; other site 1123519010652 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1123519010653 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1123519010654 putative homodimer interface [polypeptide binding]; other site 1123519010655 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1123519010656 heterodimer interface [polypeptide binding]; other site 1123519010657 homodimer interface [polypeptide binding]; other site 1123519010658 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1123519010659 elongation factor Tu; Reviewed; Region: PRK00049 1123519010660 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1123519010661 G1 box; other site 1123519010662 GEF interaction site [polypeptide binding]; other site 1123519010663 GTP/Mg2+ binding site [chemical binding]; other site 1123519010664 Switch I region; other site 1123519010665 G2 box; other site 1123519010666 G3 box; other site 1123519010667 Switch II region; other site 1123519010668 G4 box; other site 1123519010669 G5 box; other site 1123519010670 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 1123519010671 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 1123519010672 Antibiotic Binding Site [chemical binding]; other site 1123519010673 pantothenate kinase; Reviewed; Region: PRK13322 1123519010674 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1123519010675 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1123519010676 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1123519010677 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1123519010678 hypothetical protein; Provisional; Region: PRK11019 1123519010679 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1123519010680 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 1123519010681 tetramer interface [polypeptide binding]; other site 1123519010682 active site 1123519010683 Mg2+/Mn2+ binding site [ion binding]; other site 1123519010684 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1123519010685 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1123519010686 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519010687 S-adenosylmethionine binding site [chemical binding]; other site 1123519010688 AMP nucleosidase; Provisional; Region: PRK08292 1123519010689 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1123519010690 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1123519010691 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1123519010692 GAF domain; Region: GAF; pfam01590 1123519010693 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 1123519010694 PAS domain; Region: PAS_9; pfam13426 1123519010695 putative active site [active] 1123519010696 heme pocket [chemical binding]; other site 1123519010697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519010698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519010699 metal binding site [ion binding]; metal-binding site 1123519010700 active site 1123519010701 I-site; other site 1123519010702 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 1123519010703 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1123519010704 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1123519010705 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1123519010706 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519010707 active site 1123519010708 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1123519010709 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519010710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519010711 metal binding site [ion binding]; metal-binding site 1123519010712 active site 1123519010713 I-site; other site 1123519010714 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1123519010715 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1123519010716 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519010717 active site 1123519010718 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1123519010719 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06665 1123519010720 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1123519010721 AAA domain; Region: AAA_26; pfam13500 1123519010722 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1123519010723 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519010724 S-adenosylmethionine binding site [chemical binding]; other site 1123519010725 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1123519010726 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1123519010727 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1123519010728 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 1123519010729 substrate-cofactor binding pocket; other site 1123519010730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519010731 catalytic residue [active] 1123519010732 biotin synthase; Provisional; Region: PRK15108 1123519010733 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 1123519010734 FeS/SAM binding site; other site 1123519010735 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1123519010736 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1123519010737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1123519010738 active site 1123519010739 serine/threonine protein kinase; Provisional; Region: PRK11768 1123519010740 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1123519010741 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1123519010742 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 1123519010743 putative active site [active] 1123519010744 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1123519010745 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1123519010746 HIGH motif; other site 1123519010747 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1123519010748 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1123519010749 active site 1123519010750 KMSKS motif; other site 1123519010751 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1123519010752 tRNA binding surface [nucleotide binding]; other site 1123519010753 Lipopolysaccharide-assembly; Region: LptE; cl01125 1123519010754 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1123519010755 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1123519010756 Domain of unknown function; Region: DUF331; cl01149 1123519010757 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1123519010758 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 1123519010759 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1123519010760 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 1123519010761 PAS domain; Region: PAS_9; pfam13426 1123519010762 putative active site [active] 1123519010763 heme pocket [chemical binding]; other site 1123519010764 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 1123519010765 PAS domain; Region: PAS_9; pfam13426 1123519010766 putative active site [active] 1123519010767 heme pocket [chemical binding]; other site 1123519010768 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519010769 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519010770 dimer interface [polypeptide binding]; other site 1123519010771 putative CheW interface [polypeptide binding]; other site 1123519010772 lipoyl synthase; Provisional; Region: PRK05481 1123519010773 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 1123519010774 FeS/SAM binding site; other site 1123519010775 lipoate-protein ligase B; Provisional; Region: PRK14342 1123519010776 Protein of unknown function (DUF493); Region: DUF493; cl01102 1123519010777 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1123519010778 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1123519010779 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1123519010780 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1123519010781 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1123519010782 Sporulation related domain; Region: SPOR; cl10051 1123519010783 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1123519010784 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 1123519010785 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1123519010786 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1123519010787 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1123519010788 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1123519010789 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1123519010790 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1123519010791 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1123519010792 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1123519010793 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1123519010794 active site 1123519010795 (T/H)XGH motif; other site 1123519010796 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1123519010797 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1123519010798 putative catalytic cysteine [active] 1123519010799 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1123519010800 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1123519010801 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 1123519010802 active site 1123519010803 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1123519010804 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1123519010805 LrgA family; Region: LrgA; cl00608 1123519010806 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 1123519010807 putative active site [active] 1123519010808 putative catalytic site [active] 1123519010809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1123519010810 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 1123519010811 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1123519010812 Peptidase C13 family; Region: Peptidase_C13; cl02159 1123519010813 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1123519010814 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1123519010815 NAD binding site [chemical binding]; other site 1123519010816 active site 1123519010817 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1123519010818 catalytic site [active] 1123519010819 putative active site [active] 1123519010820 putative substrate binding site [chemical binding]; other site 1123519010821 dimer interface [polypeptide binding]; other site 1123519010822 GTPase RsgA; Reviewed; Region: PRK12288 1123519010823 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 1123519010824 RNA binding site [nucleotide binding]; other site 1123519010825 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1123519010826 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1123519010827 GTP/Mg2+ binding site [chemical binding]; other site 1123519010828 G4 box; other site 1123519010829 G5 box; other site 1123519010830 G1 box; other site 1123519010831 Switch I region; other site 1123519010832 G2 box; other site 1123519010833 G3 box; other site 1123519010834 Switch II region; other site 1123519010835 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1123519010836 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1123519010837 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519010838 ligand binding site [chemical binding]; other site 1123519010839 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1123519010840 flagellar motor protein MotA; Validated; Region: PRK09110 1123519010841 HDOD domain; Region: HDOD; pfam08668 1123519010842 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1123519010843 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 1123519010844 active site residue [active] 1123519010845 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 1123519010846 active site residue [active] 1123519010847 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1123519010848 PAS domain; Region: PAS_9; pfam13426 1123519010849 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 1123519010850 putative active site [active] 1123519010851 heme pocket [chemical binding]; other site 1123519010852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519010853 metal binding site [ion binding]; metal-binding site 1123519010854 active site 1123519010855 I-site; other site 1123519010856 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 1123519010857 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1123519010858 NADP(H)-dependent alcohol dehydrogenases; Region: NADP_ADH; cd08285 1123519010859 tetramer interface [polypeptide binding]; other site 1123519010860 catalytic Zn binding site [ion binding]; other site 1123519010861 NADP binding site [chemical binding]; other site 1123519010862 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 1123519010863 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 1123519010864 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 1123519010865 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1123519010866 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 1123519010867 motif II; other site 1123519010868 Uncharacterized membrane protein affecting hemolysin expression [General function prediction only]; Region: AhpA; COG3726 1123519010869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1123519010870 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1123519010871 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1123519010872 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 1123519010873 CAP-like domain; other site 1123519010874 active site 1123519010875 primary dimer interface [polypeptide binding]; other site 1123519010876 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1123519010877 catalytic motif [active] 1123519010878 Catalytic residue [active] 1123519010879 SdiA-regulated; Region: SdiA-regulated; cd09971 1123519010880 putative active site [active] 1123519010881 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1123519010882 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519010883 ATP binding site [chemical binding]; other site 1123519010884 Mg2+ binding site [ion binding]; other site 1123519010885 G-X-G motif; other site 1123519010886 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 1123519010887 anchoring element; other site 1123519010888 dimer interface [polypeptide binding]; other site 1123519010889 ATP binding site [chemical binding]; other site 1123519010890 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 1123519010891 active site 1123519010892 metal binding site [ion binding]; metal-binding site 1123519010893 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1123519010894 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1123519010895 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519010896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 1123519010897 ribonuclease PH; Reviewed; Region: rph; PRK00173 1123519010898 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1123519010899 hexamer interface [polypeptide binding]; other site 1123519010900 active site 1123519010901 hypothetical protein; Provisional; Region: PRK11820 1123519010902 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1123519010903 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1123519010904 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1123519010905 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 1123519010906 catalytic site [active] 1123519010907 G-X2-G-X-G-K; other site 1123519010908 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1123519010909 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1123519010910 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1123519010911 Zn2+ binding site [ion binding]; other site 1123519010912 Mg2+ binding site [ion binding]; other site 1123519010913 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1123519010914 synthetase active site [active] 1123519010915 NTP binding site [chemical binding]; other site 1123519010916 metal binding site [ion binding]; metal-binding site 1123519010917 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 1123519010918 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1123519010919 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 1123519010920 homotrimer interaction site [polypeptide binding]; other site 1123519010921 putative active site [active] 1123519010922 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1123519010923 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1123519010924 ligand binding site [chemical binding]; other site 1123519010925 FecR protein; Region: FecR; pfam04773 1123519010926 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1123519010927 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 1123519010928 substrate binding pocket [chemical binding]; other site 1123519010929 membrane-bound complex binding site; other site 1123519010930 hinge residues; other site 1123519010931 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1123519010932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519010933 Walker A motif; other site 1123519010934 ATP binding site [chemical binding]; other site 1123519010935 Walker B motif; other site 1123519010936 arginine finger; other site 1123519010937 Peptidase family M41; Region: Peptidase_M41; pfam01434 1123519010938 Repair protein; Region: Repair_PSII; cl01535 1123519010939 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1123519010940 Repair protein; Region: Repair_PSII; pfam04536 1123519010941 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1123519010942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519010943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519010944 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 1123519010945 putative effector binding pocket; other site 1123519010946 dimerization interface [polypeptide binding]; other site 1123519010947 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1123519010948 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1123519010949 putative NAD(P) binding site [chemical binding]; other site 1123519010950 dimer interface [polypeptide binding]; other site 1123519010951 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1123519010952 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1123519010953 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1123519010954 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1123519010955 FAD binding site [chemical binding]; other site 1123519010956 substrate binding pocket [chemical binding]; other site 1123519010957 catalytic base [active] 1123519010958 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1123519010959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519010960 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 1123519010961 dimerization interface [polypeptide binding]; other site 1123519010962 substrate binding pocket [chemical binding]; other site 1123519010963 SCP-2 sterol transfer family; Region: SCP2; cl01225 1123519010964 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 1123519010965 IHF dimer interface [polypeptide binding]; other site 1123519010966 IHF - DNA interface [nucleotide binding]; other site 1123519010967 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1123519010968 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1123519010969 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1123519010970 Rubredoxin [Energy production and conversion]; Region: COG1773 1123519010971 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 1123519010972 iron binding site [ion binding]; other site 1123519010973 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1123519010974 L-lactate permease; Region: Lactate_perm; cl00701 1123519010975 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 1123519010976 active site 1123519010977 Domain of unknown function (DUF336); Region: DUF336; cl01249 1123519010978 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1123519010979 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 1123519010980 Cysteine-rich domain; Region: CCG; pfam02754 1123519010981 Cysteine-rich domain; Region: CCG; pfam02754 1123519010982 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1123519010983 FAD binding domain; Region: FAD_binding_4; pfam01565 1123519010984 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1123519010985 FAD binding domain; Region: FAD_binding_4; pfam01565 1123519010986 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1123519010987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1123519010988 DNA-binding site [nucleotide binding]; DNA binding site 1123519010989 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1123519010990 Chorismate lyase; Region: Chor_lyase; cl01230 1123519010991 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1123519010992 UbiA prenyltransferase family; Region: UbiA; pfam01040 1123519010993 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1123519010994 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1123519010995 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1123519010996 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 1123519010997 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1123519010998 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1123519010999 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1123519011000 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519011001 S-adenosylmethionine binding site [chemical binding]; other site 1123519011002 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1123519011003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011004 active site 1123519011005 phosphorylation site [posttranslational modification] 1123519011006 intermolecular recognition site; other site 1123519011007 dimerization interface [polypeptide binding]; other site 1123519011008 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 1123519011009 DNA binding site [nucleotide binding] 1123519011010 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1123519011011 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519011012 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 1123519011013 putative active site [active] 1123519011014 heme pocket [chemical binding]; other site 1123519011015 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 1123519011016 dimer interface [polypeptide binding]; other site 1123519011017 phosphorylation site [posttranslational modification] 1123519011018 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011019 ATP binding site [chemical binding]; other site 1123519011020 Mg2+ binding site [ion binding]; other site 1123519011021 G-X-G motif; other site 1123519011022 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1123519011023 Domain of unknown function DUF21; Region: DUF21; pfam01595 1123519011024 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 1123519011025 Transporter associated domain; Region: CorC_HlyC; smart01091 1123519011026 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519011027 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1123519011028 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519011029 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519011030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011031 active site 1123519011032 phosphorylation site [posttranslational modification] 1123519011033 intermolecular recognition site; other site 1123519011034 dimerization interface [polypeptide binding]; other site 1123519011035 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 1123519011036 Ligand Binding Site [chemical binding]; other site 1123519011037 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 1123519011038 Ligand Binding Site [chemical binding]; other site 1123519011039 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1123519011040 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1123519011041 putative ligand binding site [chemical binding]; other site 1123519011042 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1123519011043 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1123519011044 Walker A/P-loop; other site 1123519011045 ATP binding site [chemical binding]; other site 1123519011046 Q-loop/lid; other site 1123519011047 ABC transporter signature motif; other site 1123519011048 Walker B; other site 1123519011049 D-loop; other site 1123519011050 H-loop/switch region; other site 1123519011051 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1123519011052 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1123519011053 Walker A/P-loop; other site 1123519011054 ATP binding site [chemical binding]; other site 1123519011055 Q-loop/lid; other site 1123519011056 ABC transporter signature motif; other site 1123519011057 Walker B; other site 1123519011058 D-loop; other site 1123519011059 H-loop/switch region; other site 1123519011060 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1123519011061 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 1123519011062 TM-ABC transporter signature motif; other site 1123519011063 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 1123519011064 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1123519011065 TM-ABC transporter signature motif; other site 1123519011066 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1123519011067 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 1123519011068 P-loop; other site 1123519011069 Magnesium ion binding site [ion binding]; other site 1123519011070 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 1123519011071 Magnesium ion binding site [ion binding]; other site 1123519011072 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1123519011073 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 1123519011074 dimerization interface [polypeptide binding]; other site 1123519011075 active site 1123519011076 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1123519011077 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1123519011078 NRDE protein; Region: NRDE; cl01315 1123519011079 potential frameshift: common BLAST hit: gi|339492518|ref|YP_004712811.1| phosphoenolpyruvate-protein phosphotransferase PtsP 1123519011080 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 1123519011081 putative active site [active] 1123519011082 Ap4A binding site [chemical binding]; other site 1123519011083 nudix motif; other site 1123519011084 putative metal binding site [ion binding]; other site 1123519011085 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1123519011086 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1123519011087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1123519011088 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1123519011089 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 1123519011090 threonine dehydratase; Reviewed; Region: PRK09224 1123519011091 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 1123519011092 tetramer interface [polypeptide binding]; other site 1123519011093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519011094 catalytic residue [active] 1123519011095 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1123519011096 putative Ile/Val binding site [chemical binding]; other site 1123519011097 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1123519011098 putative Ile/Val binding site [chemical binding]; other site 1123519011099 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 1123519011100 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1123519011101 active site 1123519011102 dimer interface [polypeptide binding]; other site 1123519011103 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1123519011104 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1123519011105 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 1123519011106 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1123519011107 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1123519011108 Walker A/P-loop; other site 1123519011109 ATP binding site [chemical binding]; other site 1123519011110 Q-loop/lid; other site 1123519011111 ABC transporter signature motif; other site 1123519011112 Walker B; other site 1123519011113 D-loop; other site 1123519011114 H-loop/switch region; other site 1123519011115 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1123519011116 FtsX-like permease family; Region: FtsX; pfam02687 1123519011117 HlyD family secretion protein; Region: HlyD_2; pfam12700 1123519011118 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1123519011119 HlyD family secretion protein; Region: HlyD_3; pfam13437 1123519011120 SdiA-regulated; Region: SdiA-regulated; pfam06977 1123519011121 SdiA-regulated; Region: SdiA-regulated; cd09971 1123519011122 putative active site [active] 1123519011123 SdiA-regulated; Region: SdiA-regulated; pfam06977 1123519011124 SdiA-regulated; Region: SdiA-regulated; cd09971 1123519011125 putative active site [active] 1123519011126 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 1123519011127 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 1123519011128 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1123519011129 FAD binding domain; Region: FAD_binding_4; pfam01565 1123519011130 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1123519011131 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1123519011132 ligand binding site [chemical binding]; other site 1123519011133 NAD binding site [chemical binding]; other site 1123519011134 tetramer interface [polypeptide binding]; other site 1123519011135 catalytic site [active] 1123519011136 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1123519011137 L-serine binding site [chemical binding]; other site 1123519011138 ACT domain interface; other site 1123519011139 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 1123519011140 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 1123519011141 DNA binding residues [nucleotide binding] 1123519011142 dimerization interface [polypeptide binding]; other site 1123519011143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1123519011144 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1123519011145 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1123519011146 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519011147 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 1123519011148 dimerization interface [polypeptide binding]; other site 1123519011149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519011150 dimer interface [polypeptide binding]; other site 1123519011151 putative CheW interface [polypeptide binding]; other site 1123519011152 WYL domain; Region: WYL; pfam13280 1123519011153 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519011154 G1 box; other site 1123519011155 Dynamin family; Region: Dynamin_N; pfam00350 1123519011156 GTP/Mg2+ binding site [chemical binding]; other site 1123519011157 G2 box; other site 1123519011158 Switch I region; other site 1123519011159 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519011160 G3 box; other site 1123519011161 Switch II region; other site 1123519011162 GTP/Mg2+ binding site [chemical binding]; other site 1123519011163 G4 box; other site 1123519011164 G5 box; other site 1123519011165 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 1123519011166 Dynamin family; Region: Dynamin_N; pfam00350 1123519011167 G1 box; other site 1123519011168 GTP/Mg2+ binding site [chemical binding]; other site 1123519011169 G2 box; other site 1123519011170 Switch I region; other site 1123519011171 G3 box; other site 1123519011172 Switch II region; other site 1123519011173 G4 box; other site 1123519011174 G5 box; other site 1123519011175 Domain of unknown function DUF87; Region: DUF87; pfam01935 1123519011176 AAA-like domain; Region: AAA_10; pfam12846 1123519011177 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; pfam12639 1123519011178 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1123519011179 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1123519011180 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1123519011181 G1 box; other site 1123519011182 putative GEF interaction site [polypeptide binding]; other site 1123519011183 GTP/Mg2+ binding site [chemical binding]; other site 1123519011184 Switch I region; other site 1123519011185 G2 box; other site 1123519011186 G3 box; other site 1123519011187 Switch II region; other site 1123519011188 G4 box; other site 1123519011189 G5 box; other site 1123519011190 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 1123519011191 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 1123519011192 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1123519011193 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1123519011194 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 1123519011195 Ligand Binding Site [chemical binding]; other site 1123519011196 thiazole biosynthesis domain; Region: ThiI_C_thiazole; TIGR04271 1123519011197 glutamine synthetase; Provisional; Region: glnA; PRK09469 1123519011198 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1123519011199 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1123519011200 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519011201 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 1123519011202 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1123519011203 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1123519011204 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 1123519011205 dimer interface [polypeptide binding]; other site 1123519011206 phosphorylation site [posttranslational modification] 1123519011207 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011208 ATP binding site [chemical binding]; other site 1123519011209 Mg2+ binding site [ion binding]; other site 1123519011210 G-X-G motif; other site 1123519011211 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1123519011212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011213 active site 1123519011214 phosphorylation site [posttranslational modification] 1123519011215 intermolecular recognition site; other site 1123519011216 dimerization interface [polypeptide binding]; other site 1123519011217 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519011218 Walker A motif; other site 1123519011219 ATP binding site [chemical binding]; other site 1123519011220 Walker B motif; other site 1123519011221 arginine finger; other site 1123519011222 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1123519011223 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1123519011224 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1123519011225 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 1123519011226 putative molybdopterin cofactor binding site [chemical binding]; other site 1123519011227 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 1123519011228 putative molybdopterin cofactor binding site; other site 1123519011229 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 1123519011230 active site 1123519011231 HslU subunit interaction site [polypeptide binding]; other site 1123519011232 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1123519011233 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519011234 Walker A motif; other site 1123519011235 ATP binding site [chemical binding]; other site 1123519011236 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1123519011237 Walker B motif; other site 1123519011238 arginine finger; other site 1123519011239 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1123519011240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1123519011241 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1123519011242 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519011243 S-adenosylmethionine binding site [chemical binding]; other site 1123519011244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1123519011245 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1123519011246 ABC1 family; Region: ABC1; cl17513 1123519011247 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1123519011248 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1123519011249 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 1123519011250 metal binding site [ion binding]; metal-binding site 1123519011251 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1123519011252 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1123519011253 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1123519011254 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1123519011255 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 1123519011256 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 1123519011257 putative active site [active] 1123519011258 dimerization interface [polypeptide binding]; other site 1123519011259 putative tRNAtyr binding site [nucleotide binding]; other site 1123519011260 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1123519011261 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1123519011262 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 1123519011263 active site 1 [active] 1123519011264 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1123519011265 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1123519011266 Walker A/P-loop; other site 1123519011267 ATP binding site [chemical binding]; other site 1123519011268 Q-loop/lid; other site 1123519011269 ABC transporter signature motif; other site 1123519011270 Walker B; other site 1123519011271 D-loop; other site 1123519011272 H-loop/switch region; other site 1123519011273 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1123519011274 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1123519011275 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1123519011276 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 1123519011277 active site 1123519011278 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 1123519011279 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 1123519011280 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 1123519011281 dimer interface [polypeptide binding]; other site 1123519011282 active site 1123519011283 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 1123519011284 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1123519011285 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1123519011286 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 1123519011287 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1123519011288 fructose-1,6-bisphosphatase family protein; Region: PLN02628 1123519011289 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 1123519011290 AMP binding site [chemical binding]; other site 1123519011291 metal binding site [ion binding]; metal-binding site 1123519011292 active site 1123519011293 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 1123519011294 homodimer interface [polypeptide binding]; other site 1123519011295 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1123519011296 active site pocket [active] 1123519011297 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1123519011298 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1123519011299 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1123519011300 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 1123519011301 active site 1123519011302 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1123519011303 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 1123519011304 dimer interface [polypeptide binding]; other site 1123519011305 ADP-ribose binding site [chemical binding]; other site 1123519011306 active site 1123519011307 nudix motif; other site 1123519011308 metal binding site [ion binding]; metal-binding site 1123519011309 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1123519011310 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 1123519011311 motif II; other site 1123519011312 Uncharacterized protein required for formate dehydrogenase activity [Energy production and conversion]; Region: FdhD; COG1526 1123519011313 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 1123519011314 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 1123519011315 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 1123519011316 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1123519011317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011318 active site 1123519011319 phosphorylation site [posttranslational modification] 1123519011320 intermolecular recognition site; other site 1123519011321 dimerization interface [polypeptide binding]; other site 1123519011322 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 1123519011323 Walker A motif; other site 1123519011324 ATP binding site [chemical binding]; other site 1123519011325 Walker B motif; other site 1123519011326 arginine finger; other site 1123519011327 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1123519011328 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 1123519011329 dimerization interface [polypeptide binding]; other site 1123519011330 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519011331 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 1123519011332 putative active site [active] 1123519011333 heme pocket [chemical binding]; other site 1123519011334 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 1123519011335 dimer interface [polypeptide binding]; other site 1123519011336 phosphorylation site [posttranslational modification] 1123519011337 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011338 ATP binding site [chemical binding]; other site 1123519011339 Mg2+ binding site [ion binding]; other site 1123519011340 G-X-G motif; other site 1123519011341 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1123519011342 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 1123519011343 amidase catalytic site [active] 1123519011344 Zn binding residues [ion binding]; other site 1123519011345 substrate binding site [chemical binding]; other site 1123519011346 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1123519011347 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519011348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519011349 metal binding site [ion binding]; metal-binding site 1123519011350 active site 1123519011351 I-site; other site 1123519011352 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1123519011353 putative catalytic site [active] 1123519011354 putative metal binding site [ion binding]; other site 1123519011355 putative phosphate binding site [ion binding]; other site 1123519011356 putative catalytic site [active] 1123519011357 putative phosphate binding site [ion binding]; other site 1123519011358 putative metal binding site [ion binding]; other site 1123519011359 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 1123519011360 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1123519011361 catalytic residues [active] 1123519011362 hinge region; other site 1123519011363 alpha helical domain; other site 1123519011364 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1123519011365 Cytochrome c; Region: Cytochrom_C; cl11414 1123519011366 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1123519011367 GTP/Mg2+ binding site [chemical binding]; other site 1123519011368 G4 box; other site 1123519011369 G5 box; other site 1123519011370 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1123519011371 G1 box; other site 1123519011372 G1 box; other site 1123519011373 GTP/Mg2+ binding site [chemical binding]; other site 1123519011374 Switch I region; other site 1123519011375 Switch I region; other site 1123519011376 G2 box; other site 1123519011377 G2 box; other site 1123519011378 G3 box; other site 1123519011379 G3 box; other site 1123519011380 Switch II region; other site 1123519011381 Switch II region; other site 1123519011382 G4 box; other site 1123519011383 G5 box; other site 1123519011384 glycine dehydrogenase; Provisional; Region: PRK05367 1123519011385 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 1123519011386 tetramer interface [polypeptide binding]; other site 1123519011387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519011388 catalytic residue [active] 1123519011389 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 1123519011390 tetramer interface [polypeptide binding]; other site 1123519011391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519011392 catalytic residue [active] 1123519011393 glycine cleavage system protein H; Provisional; Region: PRK13380 1123519011394 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 1123519011395 lipoyl attachment site [posttranslational modification]; other site 1123519011396 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1123519011397 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1123519011398 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1123519011399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011400 dimer interface [polypeptide binding]; other site 1123519011401 conserved gate region; other site 1123519011402 putative PBP binding loops; other site 1123519011403 ABC-ATPase subunit interface; other site 1123519011404 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1123519011405 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1123519011406 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK05714 1123519011407 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1123519011408 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 1123519011409 active site 2 [active] 1123519011410 active site 1 [active] 1123519011411 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1123519011412 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1123519011413 proline aminopeptidase P II; Provisional; Region: PRK10879 1123519011414 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1123519011415 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 1123519011416 active site 1123519011417 hypothetical protein; Reviewed; Region: PRK02166 1123519011418 TIGR02449 family protein; Region: TIGR02449 1123519011419 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1123519011420 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1123519011421 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1123519011422 EVE domain; Region: EVE; cl00728 1123519011423 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1123519011424 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1123519011425 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 1123519011426 NAD(P) binding site [chemical binding]; other site 1123519011427 preprotein translocase subunit SecB; Validated; Region: PRK05751 1123519011428 SecA binding site; other site 1123519011429 Preprotein binding site; other site 1123519011430 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 1123519011431 GSH binding site [chemical binding]; other site 1123519011432 catalytic residues [active] 1123519011433 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 1123519011434 active site residue [active] 1123519011435 phosphoglyceromutase; Provisional; Region: PRK05434 1123519011436 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1123519011437 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1123519011438 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 1123519011439 Peptidase family M23; Region: Peptidase_M23; pfam01551 1123519011440 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1123519011441 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1123519011442 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 1123519011443 protein binding site [polypeptide binding]; other site 1123519011444 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1123519011445 Catalytic dyad [active] 1123519011446 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1123519011447 NodB motif; other site 1123519011448 putative active site [active] 1123519011449 putative catalytic site [active] 1123519011450 Zn binding site [ion binding]; other site 1123519011451 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 1123519011452 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 1123519011453 substrate binding pocket [chemical binding]; other site 1123519011454 membrane-bound complex binding site; other site 1123519011455 hinge residues; other site 1123519011456 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 1123519011457 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1123519011458 substrate binding pocket [chemical binding]; other site 1123519011459 membrane-bound complex binding site; other site 1123519011460 hinge residues; other site 1123519011461 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 1123519011462 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1123519011463 substrate binding site [chemical binding]; other site 1123519011464 glutamase interaction surface [polypeptide binding]; other site 1123519011465 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 1123519011466 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1123519011467 catalytic residues [active] 1123519011468 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 1123519011469 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1123519011470 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1123519011471 putative active site [active] 1123519011472 oxyanion strand; other site 1123519011473 catalytic triad [active] 1123519011474 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1123519011475 putative active site pocket [active] 1123519011476 4-fold oligomerization interface [polypeptide binding]; other site 1123519011477 metal binding residues [ion binding]; metal-binding site 1123519011478 3-fold/trimer interface [polypeptide binding]; other site 1123519011479 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1123519011480 AsmA family; Region: AsmA; pfam05170 1123519011481 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1123519011482 adenine DNA glycosylase; Provisional; Region: PRK10880 1123519011483 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1123519011484 minor groove reading motif; other site 1123519011485 helix-hairpin-helix signature motif; other site 1123519011486 substrate binding pocket [chemical binding]; other site 1123519011487 active site 1123519011488 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1123519011489 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 1123519011490 DNA binding and oxoG recognition site [nucleotide binding] 1123519011491 oxidative damage protection protein; Provisional; Region: PRK05408 1123519011492 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1123519011493 active site 1123519011494 metal binding site [ion binding]; metal-binding site 1123519011495 homotetramer interface [polypeptide binding]; other site 1123519011496 FOG: CBS domain [General function prediction only]; Region: COG0517 1123519011497 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 1123519011498 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1123519011499 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1123519011500 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1123519011501 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1123519011502 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 1123519011503 folate binding site [chemical binding]; other site 1123519011504 NADP+ binding site [chemical binding]; other site 1123519011505 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1123519011506 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 1123519011507 putative active site [active] 1123519011508 catalytic site [active] 1123519011509 putative metal binding site [ion binding]; other site 1123519011510 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 1123519011511 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 1123519011512 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1123519011513 G1 box; other site 1123519011514 GTP/Mg2+ binding site [chemical binding]; other site 1123519011515 G2 box; other site 1123519011516 Switch I region; other site 1123519011517 G3 box; other site 1123519011518 Switch II region; other site 1123519011519 G4 box; other site 1123519011520 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 1123519011521 transcriptional regulator PhoU; Provisional; Region: PRK11115 1123519011522 PhoU domain; Region: PhoU; pfam01895 1123519011523 PhoU domain; Region: PhoU; pfam01895 1123519011524 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1123519011525 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1123519011526 Walker A/P-loop; other site 1123519011527 ATP binding site [chemical binding]; other site 1123519011528 Q-loop/lid; other site 1123519011529 ABC transporter signature motif; other site 1123519011530 Walker B; other site 1123519011531 D-loop; other site 1123519011532 H-loop/switch region; other site 1123519011533 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1123519011534 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1123519011535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011536 dimer interface [polypeptide binding]; other site 1123519011537 conserved gate region; other site 1123519011538 putative PBP binding loops; other site 1123519011539 ABC-ATPase subunit interface; other site 1123519011540 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1123519011541 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011542 conserved gate region; other site 1123519011543 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011544 ABC-ATPase subunit interface; other site 1123519011545 PBP superfamily domain; Region: PBP_like_2; cl17296 1123519011546 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1123519011547 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 1123519011548 Predicted permeases [General function prediction only]; Region: COG0679 1123519011549 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1123519011550 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1123519011551 PhoU domain; Region: PhoU; pfam01895 1123519011552 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1123519011553 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 1123519011554 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 1123519011555 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1123519011556 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1123519011557 PAS domain; Region: PAS_9; pfam13426 1123519011558 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 1123519011559 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 1123519011560 active site 1123519011561 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1123519011562 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 1123519011563 putative active site [active] 1123519011564 metal binding site [ion binding]; metal-binding site 1123519011565 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1123519011566 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1123519011567 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519011568 active site 1123519011569 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1123519011570 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 1123519011571 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1123519011572 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1123519011573 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1123519011574 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519011575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519011576 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 1123519011577 dimerization interface [polypeptide binding]; other site 1123519011578 Predicted membrane protein [Function unknown]; Region: COG2323 1123519011579 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1123519011580 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1123519011581 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 1123519011582 30S subunit binding site; other site 1123519011583 TLC ATP/ADP transporter; Region: TLC; cl03940 1123519011584 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 1123519011585 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1123519011586 active site 1123519011587 catalytic tetrad [active] 1123519011588 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1123519011589 dimer interface [polypeptide binding]; other site 1123519011590 FMN binding site [chemical binding]; other site 1123519011591 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1123519011592 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 1123519011593 active site 1123519011594 substrate-binding site [chemical binding]; other site 1123519011595 metal-binding site [ion binding] 1123519011596 ATP binding site [chemical binding]; other site 1123519011597 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1123519011598 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 1123519011599 dimerization interface [polypeptide binding]; other site 1123519011600 domain crossover interface; other site 1123519011601 redox-dependent activation switch; other site 1123519011602 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 1123519011603 RNA binding surface [nucleotide binding]; other site 1123519011604 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1123519011605 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1123519011606 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1123519011607 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1123519011608 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 1123519011609 dimerization interface [polypeptide binding]; other site 1123519011610 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011611 ATP binding site [chemical binding]; other site 1123519011612 Mg2+ binding site [ion binding]; other site 1123519011613 G-X-G motif; other site 1123519011614 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1123519011615 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011616 active site 1123519011617 phosphorylation site [posttranslational modification] 1123519011618 intermolecular recognition site; other site 1123519011619 dimerization interface [polypeptide binding]; other site 1123519011620 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 1123519011621 DNA binding site [nucleotide binding] 1123519011622 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1123519011623 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1123519011624 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1123519011625 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 1123519011626 RNA binding site [nucleotide binding]; other site 1123519011627 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 1123519011628 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1123519011629 CoenzymeA binding site [chemical binding]; other site 1123519011630 subunit interaction site [polypeptide binding]; other site 1123519011631 PHB binding site; other site 1123519011632 glutamate--cysteine ligase; Provisional; Region: PRK02107 1123519011633 N-acetylglutamate synthase; Validated; Region: PRK05279 1123519011634 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 1123519011635 putative feedback inhibition sensing region; other site 1123519011636 putative nucleotide binding site [chemical binding]; other site 1123519011637 putative substrate binding site [chemical binding]; other site 1123519011638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1123519011639 Coenzyme A binding pocket [chemical binding]; other site 1123519011640 acetylornithine deacetylase; Provisional; Region: PRK05111 1123519011641 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1123519011642 metal binding site [ion binding]; metal-binding site 1123519011643 putative dimer interface [polypeptide binding]; other site 1123519011644 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1123519011645 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1123519011646 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1123519011647 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1123519011648 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1123519011649 putative active site [active] 1123519011650 putative metal binding residues [ion binding]; other site 1123519011651 signature motif; other site 1123519011652 putative triphosphate binding site [ion binding]; other site 1123519011653 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1123519011654 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1123519011655 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 1123519011656 Walker A motif; other site 1123519011657 ATP binding site [chemical binding]; other site 1123519011658 Walker B motif; other site 1123519011659 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 1123519011660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1123519011661 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1123519011662 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1123519011663 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 1123519011664 PAS domain; Region: PAS_9; pfam13426 1123519011665 putative active site [active] 1123519011666 heme pocket [chemical binding]; other site 1123519011667 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 1123519011668 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1123519011669 putative active site [active] 1123519011670 heme pocket [chemical binding]; other site 1123519011671 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 1123519011672 putative active site [active] 1123519011673 heme pocket [chemical binding]; other site 1123519011674 PAS fold; Region: PAS_3; pfam08447 1123519011675 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1123519011676 GAF domain; Region: GAF; pfam01590 1123519011677 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 1123519011678 PAS domain; Region: PAS_9; pfam13426 1123519011679 putative active site [active] 1123519011680 heme pocket [chemical binding]; other site 1123519011681 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 1123519011682 dimer interface [polypeptide binding]; other site 1123519011683 phosphorylation site [posttranslational modification] 1123519011684 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011685 ATP binding site [chemical binding]; other site 1123519011686 Mg2+ binding site [ion binding]; other site 1123519011687 G-X-G motif; other site 1123519011688 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1123519011689 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011690 active site 1123519011691 phosphorylation site [posttranslational modification] 1123519011692 intermolecular recognition site; other site 1123519011693 dimerization interface [polypeptide binding]; other site 1123519011694 Protein of unknown function (DUF2388); Region: DUF2388; pfam09498 1123519011695 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1123519011696 TSCPD domain; Region: TSCPD; pfam12637 1123519011697 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 1123519011698 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 1123519011699 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1123519011700 active site 1123519011701 dimer interface [polypeptide binding]; other site 1123519011702 effector binding site; other site 1123519011703 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1123519011704 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1123519011705 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 1123519011706 metal binding site [ion binding]; metal-binding site 1123519011707 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1123519011708 metal binding site 2 [ion binding]; metal-binding site 1123519011709 putative DNA binding helix; other site 1123519011710 metal binding site 1 [ion binding]; metal-binding site 1123519011711 dimer interface [polypeptide binding]; other site 1123519011712 structural Zn2+ binding site [ion binding]; other site 1123519011713 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1123519011714 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1123519011715 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1123519011716 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 1123519011717 dimer interface [polypeptide binding]; other site 1123519011718 putative PBP binding regions; other site 1123519011719 ABC-ATPase subunit interface; other site 1123519011720 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1123519011721 hydroperoxidase II; Provisional; Region: katE; PRK11249 1123519011722 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1123519011723 tetramer interface [polypeptide binding]; other site 1123519011724 heme binding pocket [chemical binding]; other site 1123519011725 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1123519011726 domain interactions; other site 1123519011727 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1123519011728 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1123519011729 Walker A/P-loop; other site 1123519011730 ATP binding site [chemical binding]; other site 1123519011731 Q-loop/lid; other site 1123519011732 ABC transporter signature motif; other site 1123519011733 Walker B; other site 1123519011734 D-loop; other site 1123519011735 H-loop/switch region; other site 1123519011736 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 1123519011737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011738 dimer interface [polypeptide binding]; other site 1123519011739 conserved gate region; other site 1123519011740 ABC-ATPase subunit interface; other site 1123519011741 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1123519011742 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1123519011743 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 1123519011744 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1123519011745 putative metal binding site [ion binding]; other site 1123519011746 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1123519011747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011748 dimer interface [polypeptide binding]; other site 1123519011749 conserved gate region; other site 1123519011750 putative PBP binding loops; other site 1123519011751 ABC-ATPase subunit interface; other site 1123519011752 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011753 dimer interface [polypeptide binding]; other site 1123519011754 conserved gate region; other site 1123519011755 putative PBP binding loops; other site 1123519011756 ABC-ATPase subunit interface; other site 1123519011757 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1123519011758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1123519011759 Walker A/P-loop; other site 1123519011760 ATP binding site [chemical binding]; other site 1123519011761 Q-loop/lid; other site 1123519011762 ABC transporter signature motif; other site 1123519011763 Walker B; other site 1123519011764 D-loop; other site 1123519011765 H-loop/switch region; other site 1123519011766 TOBE domain; Region: TOBE_2; pfam08402 1123519011767 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1123519011768 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1123519011769 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1123519011770 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1123519011771 putative aminotransferase; Validated; Region: PRK07480 1123519011772 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 1123519011773 inhibitor-cofactor binding pocket; inhibition site 1123519011774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519011775 catalytic residue [active] 1123519011776 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1123519011777 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1123519011778 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1123519011779 Peptidase C26; Region: Peptidase_C26; pfam07722 1123519011780 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1123519011781 catalytic triad [active] 1123519011782 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1123519011783 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1123519011784 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1123519011785 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1123519011786 putative active site; other site 1123519011787 catalytic triad [active] 1123519011788 putative dimer interface [polypeptide binding]; other site 1123519011789 agmatine deiminase; Provisional; Region: PRK13551 1123519011790 agmatine deiminase; Region: agmatine_aguA; TIGR03380 1123519011791 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 1123519011792 PAS fold; Region: PAS_3; pfam08447 1123519011793 putative active site [active] 1123519011794 heme pocket [chemical binding]; other site 1123519011795 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519011796 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519011797 metal binding site [ion binding]; metal-binding site 1123519011798 active site 1123519011799 I-site; other site 1123519011800 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 1123519011801 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1123519011802 Di-iron ligands [ion binding]; other site 1123519011803 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1123519011804 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 1123519011805 putative active site [active] 1123519011806 heme pocket [chemical binding]; other site 1123519011807 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1123519011808 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 1123519011809 putative active site [active] 1123519011810 heme pocket [chemical binding]; other site 1123519011811 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519011812 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 1123519011813 putative active site [active] 1123519011814 heme pocket [chemical binding]; other site 1123519011815 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 1123519011816 dimer interface [polypeptide binding]; other site 1123519011817 phosphorylation site [posttranslational modification] 1123519011818 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011819 ATP binding site [chemical binding]; other site 1123519011820 Mg2+ binding site [ion binding]; other site 1123519011821 G-X-G motif; other site 1123519011822 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519011823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011824 active site 1123519011825 phosphorylation site [posttranslational modification] 1123519011826 intermolecular recognition site; other site 1123519011827 dimerization interface [polypeptide binding]; other site 1123519011828 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1123519011829 GAF domain; Region: GAF; pfam01590 1123519011830 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 1123519011831 PAS domain; Region: PAS_9; pfam13426 1123519011832 putative active site [active] 1123519011833 heme pocket [chemical binding]; other site 1123519011834 PAS domain S-box; Region: sensory_box; TIGR00229 1123519011835 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 1123519011836 putative active site [active] 1123519011837 heme pocket [chemical binding]; other site 1123519011838 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1123519011839 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 1123519011840 dimer interface [polypeptide binding]; other site 1123519011841 phosphorylation site [posttranslational modification] 1123519011842 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1123519011843 ATP binding site [chemical binding]; other site 1123519011844 Mg2+ binding site [ion binding]; other site 1123519011845 G-X-G motif; other site 1123519011846 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519011847 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011848 active site 1123519011849 phosphorylation site [posttranslational modification] 1123519011850 intermolecular recognition site; other site 1123519011851 dimerization interface [polypeptide binding]; other site 1123519011852 Hpt domain; Region: Hpt; pfam01627 1123519011853 putative binding surface; other site 1123519011854 active site 1123519011855 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519011856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1123519011857 active site 1123519011858 phosphorylation site [posttranslational modification] 1123519011859 intermolecular recognition site; other site 1123519011860 dimerization interface [polypeptide binding]; other site 1123519011861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1123519011862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1123519011863 metal binding site [ion binding]; metal-binding site 1123519011864 active site 1123519011865 I-site; other site 1123519011866 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1123519011867 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1123519011868 NAD(P) binding site [chemical binding]; other site 1123519011869 catalytic residues [active] 1123519011870 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1123519011871 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 1123519011872 inhibitor-cofactor binding pocket; inhibition site 1123519011873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519011874 catalytic residue [active] 1123519011875 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1123519011876 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1123519011877 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1123519011878 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1123519011879 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1123519011880 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1123519011881 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1123519011882 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1123519011883 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 1123519011884 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1123519011885 active site 1123519011886 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 1123519011887 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1123519011888 active site 1123519011889 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 1123519011890 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1123519011891 substrate binding site [chemical binding]; other site 1123519011892 oxyanion hole (OAH) forming residues; other site 1123519011893 trimer interface [polypeptide binding]; other site 1123519011894 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1123519011895 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1123519011896 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1123519011897 Response regulator receiver domain; Region: Response_reg; pfam00072 1123519011898 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1123519011899 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1123519011900 tetramerization interface [polypeptide binding]; other site 1123519011901 NAD(P) binding site [chemical binding]; other site 1123519011902 catalytic residues [active] 1123519011903 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1123519011904 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 1123519011905 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1123519011906 homodimer interface [polypeptide binding]; other site 1123519011907 homotetramer interface [polypeptide binding]; other site 1123519011908 active site 1123519011909 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 1123519011910 AAA domain; Region: AAA_30; pfam13604 1123519011911 Family description; Region: UvrD_C_2; pfam13538 1123519011912 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1123519011913 Family description; Region: UvrD_C_2; pfam13538 1123519011914 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1123519011915 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1123519011916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519011917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519011918 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 1123519011919 putative dimerization interface [polypeptide binding]; other site 1123519011920 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1123519011921 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1123519011922 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 1123519011923 DctM-like transporters; Region: DctM; pfam06808 1123519011924 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1123519011925 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1123519011926 Carbon starvation protein CstA; Region: CstA; pfam02554 1123519011927 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1123519011928 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1123519011929 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 1123519011930 dimerization interface [polypeptide binding]; other site 1123519011931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519011932 dimer interface [polypeptide binding]; other site 1123519011933 putative CheW interface [polypeptide binding]; other site 1123519011934 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 1123519011935 Malonate transporter MadL subunit; Region: MadL; cl04273 1123519011936 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 1123519011937 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1123519011938 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 1123519011939 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 1123519011940 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 1123519011941 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 1123519011942 malonate decarboxylase subunit delta; Provisional; Region: PRK01220 1123519011943 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 1123519011944 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 1123519011945 Coenzyme A transferase; Region: CoA_trans; cl17247 1123519011946 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1123519011947 General stress protein [General function prediction only]; Region: GsiB; COG3729 1123519011948 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 1123519011949 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1123519011950 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1123519011951 Transglycosylase; Region: Transgly; cl17702 1123519011952 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1123519011953 Predicted membrane protein [Function unknown]; Region: COG1238 1123519011954 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1123519011955 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1123519011956 putative NAD(P) binding site [chemical binding]; other site 1123519011957 homotetramer interface [polypeptide binding]; other site 1123519011958 homodimer interface [polypeptide binding]; other site 1123519011959 active site 1123519011960 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1123519011961 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1123519011962 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1123519011963 DctM-like transporters; Region: DctM; pfam06808 1123519011964 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 1123519011965 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1123519011966 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1123519011967 Secretin and TonB N terminus short domain; Region: STN; smart00965 1123519011968 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1123519011969 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 1123519011970 N-terminal plug; other site 1123519011971 ligand-binding site [chemical binding]; other site 1123519011972 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1123519011973 FecR protein; Region: FecR; pfam04773 1123519011974 RNA polymerase sigma factor; Provisional; Region: PRK12528 1123519011975 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1123519011976 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 1123519011977 DNA binding residues [nucleotide binding] 1123519011978 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1123519011979 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1123519011980 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1123519011981 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1123519011982 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1123519011983 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1123519011984 Walker A/P-loop; other site 1123519011985 ATP binding site [chemical binding]; other site 1123519011986 Q-loop/lid; other site 1123519011987 ABC transporter signature motif; other site 1123519011988 Walker B; other site 1123519011989 D-loop; other site 1123519011990 H-loop/switch region; other site 1123519011991 TOBE-like domain; Region: TOBE_3; pfam12857 1123519011992 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1123519011993 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519011994 dimer interface [polypeptide binding]; other site 1123519011995 conserved gate region; other site 1123519011996 putative PBP binding loops; other site 1123519011997 ABC-ATPase subunit interface; other site 1123519011998 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1123519011999 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519012000 dimer interface [polypeptide binding]; other site 1123519012001 conserved gate region; other site 1123519012002 putative PBP binding loops; other site 1123519012003 ABC-ATPase subunit interface; other site 1123519012004 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1123519012005 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1123519012006 Uncharacterized small protein [Function unknown]; Region: COG5583 1123519012007 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1123519012008 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1123519012009 outer membrane porin, OprD family; Region: OprD; pfam03573 1123519012010 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519012011 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 1123519012012 dimerization interface [polypeptide binding]; other site 1123519012013 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1123519012014 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 1123519012015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1123519012016 catalytic residue [active] 1123519012017 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1123519012018 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 1123519012019 substrate binding site [chemical binding]; other site 1123519012020 active site 1123519012021 catalytic residues [active] 1123519012022 heterodimer interface [polypeptide binding]; other site 1123519012023 enterobactin exporter EntS; Provisional; Region: PRK10489 1123519012024 Hemin uptake protein hemP; Region: hemP; pfam10636 1123519012025 Uncharacterized conserved protein (DUF2149); Region: DUF2149; pfam09919 1123519012026 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1123519012027 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1123519012028 CobN/Magnesium Chelatase; Region: CobN-Mg_chel; pfam02514 1123519012029 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1123519012030 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1123519012031 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 1123519012032 N-terminal plug; other site 1123519012033 ligand-binding site [chemical binding]; other site 1123519012034 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1123519012035 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 1123519012036 dimer interface [polypeptide binding]; other site 1123519012037 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1123519012038 catalytic triad [active] 1123519012039 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1123519012040 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1123519012041 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1123519012042 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 1123519012043 substrate binding pocket [chemical binding]; other site 1123519012044 membrane-bound complex binding site; other site 1123519012045 hinge residues; other site 1123519012046 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1123519012047 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 1123519012048 active site 1123519012049 dimer interface [polypeptide binding]; other site 1123519012050 non-prolyl cis peptide bond; other site 1123519012051 insertion regions; other site 1123519012052 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1123519012053 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1123519012054 dimer interface [polypeptide binding]; other site 1123519012055 conserved gate region; other site 1123519012056 putative PBP binding loops; other site 1123519012057 ABC-ATPase subunit interface; other site 1123519012058 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1123519012059 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1123519012060 Walker A/P-loop; other site 1123519012061 ATP binding site [chemical binding]; other site 1123519012062 Q-loop/lid; other site 1123519012063 ABC transporter signature motif; other site 1123519012064 Walker B; other site 1123519012065 D-loop; other site 1123519012066 H-loop/switch region; other site 1123519012067 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1123519012068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1123519012069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1123519012070 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 1123519012071 putative dimerization interface [polypeptide binding]; other site 1123519012072 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1123519012073 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1123519012074 acetyl-CoA acetyltransferase; Provisional; Region: PRK05656 1123519012075 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 1123519012076 dimer interface [polypeptide binding]; other site 1123519012077 active site 1123519012078 potential frameshift: common BLAST hit: gi|330502103|ref|YP_004378972.1| short chain fatty acid transporter 1123519012079 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1123519012080 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1123519012081 tetramer interface [polypeptide binding]; other site 1123519012082 heme binding pocket [chemical binding]; other site 1123519012083 NADPH binding site [chemical binding]; other site 1123519012084 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 1123519012085 N-terminal plug; other site 1123519012086 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1123519012087 ligand-binding site [chemical binding]; other site 1123519012088 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1123519012089 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 1123519012090 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1123519012091 putative metal binding site [ion binding]; other site 1123519012092 FecCD transport family; Region: FecCD; pfam01032 1123519012093 putative PBP binding regions; other site 1123519012094 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1123519012095 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1123519012096 Walker A/P-loop; other site 1123519012097 ATP binding site [chemical binding]; other site 1123519012098 Q-loop/lid; other site 1123519012099 ABC transporter signature motif; other site 1123519012100 Walker B; other site 1123519012101 D-loop; other site 1123519012102 H-loop/switch region; other site 1123519012103 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519012104 S-adenosylmethionine binding site [chemical binding]; other site 1123519012105 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1123519012106 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 1123519012107 glutaminase active site [active] 1123519012108 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 1123519012109 dimer interface [polypeptide binding]; other site 1123519012110 active site 1123519012111 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 1123519012112 dimer interface [polypeptide binding]; other site 1123519012113 active site 1123519012114 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1123519012115 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 1123519012116 putative DNA binding site [nucleotide binding]; other site 1123519012117 putative Zn2+ binding site [ion binding]; other site 1123519012118 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1123519012119 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 1123519012120 dimerization interface [polypeptide binding]; other site 1123519012121 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1123519012122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1123519012123 dimer interface [polypeptide binding]; other site 1123519012124 putative CheW interface [polypeptide binding]; other site 1123519012125 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1123519012126 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1123519012127 Substrate binding site; other site 1123519012128 Mg++ binding site; other site 1123519012129 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 1123519012130 active site 1123519012131 substrate binding site [chemical binding]; other site 1123519012132 CoA binding site [chemical binding]; other site 1123519012133 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1123519012134 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1123519012135 gamma subunit interface [polypeptide binding]; other site 1123519012136 epsilon subunit interface [polypeptide binding]; other site 1123519012137 LBP interface [polypeptide binding]; other site 1123519012138 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1123519012139 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1123519012140 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 1123519012141 alpha subunit interaction interface [polypeptide binding]; other site 1123519012142 Walker A motif; other site 1123519012143 ATP binding site [chemical binding]; other site 1123519012144 Walker B motif; other site 1123519012145 inhibitor binding site; inhibition site 1123519012146 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1123519012147 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1123519012148 core domain interface [polypeptide binding]; other site 1123519012149 delta subunit interface [polypeptide binding]; other site 1123519012150 epsilon subunit interface [polypeptide binding]; other site 1123519012151 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1123519012152 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1123519012153 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 1123519012154 beta subunit interaction interface [polypeptide binding]; other site 1123519012155 Walker A motif; other site 1123519012156 ATP binding site [chemical binding]; other site 1123519012157 Walker B motif; other site 1123519012158 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1123519012159 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1123519012160 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1123519012161 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1123519012162 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1123519012163 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1123519012164 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1123519012165 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1123519012166 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 1123519012167 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1123519012168 ParB-like nuclease domain; Region: ParBc; pfam02195 1123519012169 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1123519012170 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 1123519012171 P-loop; other site 1123519012172 Magnesium ion binding site [ion binding]; other site 1123519012173 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 1123519012174 Magnesium ion binding site [ion binding]; other site 1123519012175 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1123519012176 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 1123519012177 S-adenosylmethionine binding site [chemical binding]; other site 1123519012178 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1123519012179 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1123519012180 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1123519012181 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1123519012182 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1123519012183 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1123519012184 G1 box; other site 1123519012185 GTP/Mg2+ binding site [chemical binding]; other site 1123519012186 Switch I region; other site 1123519012187 G2 box; other site 1123519012188 Switch II region; other site 1123519012189 G3 box; other site 1123519012190 G4 box; other site 1123519012191 G5 box; other site 1123519012192 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1123519012193 membrane protein insertase; Provisional; Region: PRK01318 1123519012194 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1123519012195 hypothetical protein; Provisional; Region: PRK14371 1123519012196 ribonuclease P; Reviewed; Region: rnpA; PRK00396 1123519012197 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399