-- dump date 20140619_064126 -- class Genbank::misc_feature -- table misc_feature_note -- id note 207559000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 207559000002 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 207559000003 Walker A motif; other site 207559000004 ATP binding site [chemical binding]; other site 207559000005 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 207559000006 DnaA box-binding interface [nucleotide binding]; other site 207559000007 DNA polymerase III subunit beta; Provisional; Region: PRK14947 207559000008 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 207559000009 putative DNA binding surface [nucleotide binding]; other site 207559000010 dimer interface [polypeptide binding]; other site 207559000011 beta-clamp/clamp loader binding surface; other site 207559000012 beta-clamp/translesion DNA polymerase binding surface; other site 207559000013 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 207559000014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000015 ATP binding site [chemical binding]; other site 207559000016 Mg2+ binding site [ion binding]; other site 207559000017 G-X-G motif; other site 207559000018 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 207559000019 anchoring element; other site 207559000020 dimer interface [polypeptide binding]; other site 207559000021 ATP binding site [chemical binding]; other site 207559000022 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 207559000023 active site 207559000024 putative metal-binding site [ion binding]; other site 207559000025 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 207559000026 DNA gyrase subunit A; Validated; Region: PRK05560 207559000027 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 207559000028 CAP-like domain; other site 207559000029 active site 207559000030 primary dimer interface [polypeptide binding]; other site 207559000031 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000032 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000033 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 207559000037 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 207559000038 S-adenosylmethionine binding site [chemical binding]; other site 207559000039 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 207559000040 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 207559000041 dimer interface [polypeptide binding]; other site 207559000042 motif 1; other site 207559000043 active site 207559000044 motif 2; other site 207559000045 motif 3; other site 207559000046 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 207559000047 anticodon binding site; other site 207559000048 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 207559000049 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 207559000050 dimer interface [polypeptide binding]; other site 207559000051 anticodon binding site; other site 207559000052 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 207559000053 homodimer interface [polypeptide binding]; other site 207559000054 motif 1; other site 207559000055 active site 207559000056 motif 2; other site 207559000057 GAD domain; Region: GAD; pfam02938 207559000058 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 207559000059 motif 3; other site 207559000060 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 207559000061 active site 207559000062 catalytic residues [active] 207559000063 metal binding site [ion binding]; metal-binding site 207559000064 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 207559000065 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 207559000066 putative active site [active] 207559000067 substrate binding site [chemical binding]; other site 207559000068 putative cosubstrate binding site; other site 207559000069 catalytic site [active] 207559000070 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 207559000071 substrate binding site [chemical binding]; other site 207559000072 Protein of unknown function DUF116; Region: DUF116; pfam01976 207559000073 Protein of unknown function DUF116; Region: DUF116; cl00800 207559000074 NusB family; Region: NusB; pfam01029 207559000075 putative RNA binding site [nucleotide binding]; other site 207559000076 16S rRNA methyltransferase B; Provisional; Region: PRK14901 207559000077 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 207559000078 S-adenosylmethionine binding site [chemical binding]; other site 207559000079 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 207559000080 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 207559000081 mce related protein; Region: MCE; pfam02470 207559000082 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 207559000083 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 207559000084 Walker A/P-loop; other site 207559000085 ATP binding site [chemical binding]; other site 207559000086 Q-loop/lid; other site 207559000087 ABC transporter signature motif; other site 207559000088 Walker B; other site 207559000089 D-loop; other site 207559000090 H-loop/switch region; other site 207559000091 Permease; Region: Permease; pfam02405 207559000092 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 207559000093 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 207559000094 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 207559000095 anti sigma factor interaction site; other site 207559000096 regulatory phosphorylation site [posttranslational modification]; other site 207559000097 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 207559000098 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 207559000099 putative ribose interaction site [chemical binding]; other site 207559000100 putative ADP binding site [chemical binding]; other site 207559000101 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 207559000102 ParB-like nuclease domain; Region: ParBc; pfam02195 207559000103 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559000104 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 207559000105 P-loop; other site 207559000106 Magnesium ion binding site [ion binding]; other site 207559000107 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 207559000108 Magnesium ion binding site [ion binding]; other site 207559000109 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559000110 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 207559000111 putative NAD(P) binding site [chemical binding]; other site 207559000112 active site 207559000113 putative substrate binding site [chemical binding]; other site 207559000114 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 207559000115 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 207559000116 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 207559000117 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 207559000118 dimer interface [polypeptide binding]; other site 207559000119 active site residues [active] 207559000120 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 207559000121 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 207559000122 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 207559000123 Flavoprotein; Region: Flavoprotein; pfam02441 207559000124 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 207559000125 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 207559000126 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 207559000127 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559000128 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559000129 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 207559000130 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 207559000131 dimer interface [polypeptide binding]; other site 207559000132 PYR/PP interface [polypeptide binding]; other site 207559000133 TPP binding site [chemical binding]; other site 207559000134 substrate binding site [chemical binding]; other site 207559000135 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559000136 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 207559000137 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559000138 TPP-binding site [chemical binding]; other site 207559000139 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 207559000140 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559000141 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 207559000142 FeS/SAM binding site; other site 207559000143 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 207559000144 Ligand Binding Site [chemical binding]; other site 207559000145 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 207559000146 Ligand Binding Site [chemical binding]; other site 207559000147 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 207559000148 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 207559000149 dimer interface [polypeptide binding]; other site 207559000150 active site 207559000151 metal binding site [ion binding]; metal-binding site 207559000152 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 207559000153 Proline dehydrogenase; Region: Pro_dh; cl03282 207559000154 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 207559000155 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 207559000156 Glutamate binding site [chemical binding]; other site 207559000157 homodimer interface [polypeptide binding]; other site 207559000158 NAD binding site [chemical binding]; other site 207559000159 catalytic residues [active] 207559000160 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 207559000161 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 207559000162 heterodimer interface [polypeptide binding]; other site 207559000163 active site 207559000164 FMN binding site [chemical binding]; other site 207559000165 homodimer interface [polypeptide binding]; other site 207559000166 substrate binding site [chemical binding]; other site 207559000167 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 207559000168 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 207559000169 FAD binding pocket [chemical binding]; other site 207559000170 FAD binding motif [chemical binding]; other site 207559000171 phosphate binding motif [ion binding]; other site 207559000172 beta-alpha-beta structure motif; other site 207559000173 NAD binding pocket [chemical binding]; other site 207559000174 Iron coordination center [ion binding]; other site 207559000175 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 207559000176 Peptidase family U32; Region: Peptidase_U32; pfam01136 207559000177 Peptidase family U32; Region: Peptidase_U32; cl03113 207559000178 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 207559000179 GTP-binding protein Der; Reviewed; Region: PRK00093 207559000180 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 207559000181 G1 box; other site 207559000182 GTP/Mg2+ binding site [chemical binding]; other site 207559000183 Switch I region; other site 207559000184 G2 box; other site 207559000185 Switch II region; other site 207559000186 G3 box; other site 207559000187 G4 box; other site 207559000188 G5 box; other site 207559000189 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 207559000190 G1 box; other site 207559000191 GTP/Mg2+ binding site [chemical binding]; other site 207559000192 Switch I region; other site 207559000193 G2 box; other site 207559000194 G3 box; other site 207559000195 Switch II region; other site 207559000196 G4 box; other site 207559000197 G5 box; other site 207559000198 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 207559000199 active site 207559000200 Zn binding site [ion binding]; other site 207559000201 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 207559000202 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 207559000203 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 207559000204 homodimer interface [polypeptide binding]; other site 207559000205 substrate-cofactor binding pocket; other site 207559000206 catalytic residue [active] 207559000207 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 207559000208 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 207559000209 Walker A motif; other site 207559000210 ATP binding site [chemical binding]; other site 207559000211 Walker B motif; other site 207559000212 arginine finger; other site 207559000213 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 207559000214 hypothetical protein; Validated; Region: PRK00153 207559000215 recombination protein RecR; Reviewed; Region: recR; PRK00076 207559000216 RecR protein; Region: RecR; pfam02132 207559000217 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 207559000218 putative active site [active] 207559000219 putative metal-binding site [ion binding]; other site 207559000220 tetramer interface [polypeptide binding]; other site 207559000221 Peptidase family M48; Region: Peptidase_M48; cl12018 207559000222 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000224 active site 207559000225 phosphorylation site [posttranslational modification] 207559000226 intermolecular recognition site; other site 207559000227 dimerization interface [polypeptide binding]; other site 207559000228 Domain of unknown function (DUF309); Region: DUF309; pfam03745 207559000229 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 207559000230 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 207559000231 active site 207559000232 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 207559000233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559000234 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 207559000235 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 207559000236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559000237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000238 metal binding site [ion binding]; metal-binding site 207559000239 active site 207559000240 I-site; other site 207559000241 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 207559000242 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 207559000243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000244 catalytic residue [active] 207559000245 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559000246 4Fe-4S binding domain; Region: Fer4; pfam00037 207559000247 4Fe-4S binding domain; Region: Fer4; pfam00037 207559000248 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559000249 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559000250 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559000251 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 207559000252 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559000253 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 207559000254 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 207559000255 dimer interface [polypeptide binding]; other site 207559000256 FMN binding site [chemical binding]; other site 207559000257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559000258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559000259 LysR substrate binding domain; Region: LysR_substrate; pfam03466 207559000260 dimerization interface [polypeptide binding]; other site 207559000261 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 207559000262 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 207559000263 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 207559000264 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 207559000265 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559000266 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 207559000267 Methyltransferase domain; Region: Methyltransf_31; pfam13847 207559000268 Putative rRNA methylase; Region: rRNA_methylase; pfam06962 207559000269 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 207559000270 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 207559000271 Ligand Binding Site [chemical binding]; other site 207559000272 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 207559000273 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 207559000274 putative dimer interface [polypeptide binding]; other site 207559000275 putative anticodon binding site; other site 207559000276 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 207559000277 homodimer interface [polypeptide binding]; other site 207559000278 motif 1; other site 207559000279 motif 2; other site 207559000280 active site 207559000281 motif 3; other site 207559000282 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 207559000283 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 207559000284 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000285 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 207559000286 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 207559000287 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000288 DNA topoisomerase I; Validated; Region: PRK06599 207559000289 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 207559000290 active site 207559000291 interdomain interaction site; other site 207559000292 putative metal-binding site [ion binding]; other site 207559000293 nucleotide binding site [chemical binding]; other site 207559000294 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 207559000295 domain I; other site 207559000296 DNA binding groove [nucleotide binding] 207559000297 phosphate binding site [ion binding]; other site 207559000298 domain II; other site 207559000299 domain III; other site 207559000300 nucleotide binding site [chemical binding]; other site 207559000301 catalytic site [active] 207559000302 domain IV; other site 207559000303 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000304 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 207559000305 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000306 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000307 Peptidase family M48; Region: Peptidase_M48; pfam01435 207559000308 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559000309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000310 active site 207559000311 phosphorylation site [posttranslational modification] 207559000312 intermolecular recognition site; other site 207559000313 dimerization interface [polypeptide binding]; other site 207559000314 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 207559000315 Walker A motif; other site 207559000316 ATP binding site [chemical binding]; other site 207559000317 Walker B motif; other site 207559000318 arginine finger; other site 207559000319 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559000320 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559000321 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 207559000322 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 207559000323 dimer interface [polypeptide binding]; other site 207559000324 phosphorylation site [posttranslational modification] 207559000325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000326 ATP binding site [chemical binding]; other site 207559000327 Mg2+ binding site [ion binding]; other site 207559000328 G-X-G motif; other site 207559000329 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559000330 dimer interface [polypeptide binding]; other site 207559000331 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 207559000332 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 207559000333 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 207559000334 active site 207559000335 dimer interface [polypeptide binding]; other site 207559000336 effector binding site; other site 207559000337 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559000338 TSCPD domain; Region: TSCPD; pfam12637 207559000339 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 207559000340 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559000341 Walker A/P-loop; other site 207559000342 ATP binding site [chemical binding]; other site 207559000343 Q-loop/lid; other site 207559000344 ABC transporter signature motif; other site 207559000345 Walker B; other site 207559000346 D-loop; other site 207559000347 H-loop/switch region; other site 207559000348 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 207559000349 FtsX-like permease family; Region: FtsX; pfam02687 207559000350 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 207559000351 Helix-turn-helix domain; Region: HTH_17; pfam12728 207559000352 PBP superfamily domain; Region: PBP_like; pfam12727 207559000353 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559000354 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 207559000355 RNA binding surface [nucleotide binding]; other site 207559000356 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559000357 active site 207559000358 Family description; Region: VCBS; pfam13517 207559000359 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 207559000360 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 207559000361 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 207559000362 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 207559000363 active site 207559000364 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 207559000365 NlpC/P60 family; Region: NLPC_P60; pfam00877 207559000366 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 207559000367 IHF - DNA interface [nucleotide binding]; other site 207559000368 IHF dimer interface [polypeptide binding]; other site 207559000369 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559000370 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559000371 DNA binding residues [nucleotide binding] 207559000372 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 207559000373 homodimer interface [polypeptide binding]; other site 207559000374 putative GKAP docking site [polypeptide binding]; other site 207559000375 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559000376 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 207559000377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 207559000378 Protein of unknown function, DUF1537; Region: DUF1537; pfam07005 207559000379 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 207559000380 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 207559000381 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 207559000382 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 207559000383 Predicted permeases [General function prediction only]; Region: COG0701 207559000384 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 207559000385 Ferritin-like domain; Region: Ferritin; pfam00210 207559000386 heme binding site [chemical binding]; other site 207559000387 ferroxidase pore; other site 207559000388 ferroxidase diiron center [ion binding]; other site 207559000389 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 207559000390 Amidohydrolase; Region: Amidohydro_5; pfam13594 207559000391 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 207559000392 active site 207559000393 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 207559000394 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 207559000395 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559000396 TM-ABC transporter signature motif; other site 207559000397 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559000398 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 207559000399 TM-ABC transporter signature motif; other site 207559000400 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559000401 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 207559000402 Walker A/P-loop; other site 207559000403 ATP binding site [chemical binding]; other site 207559000404 Q-loop/lid; other site 207559000405 ABC transporter signature motif; other site 207559000406 Walker B; other site 207559000407 D-loop; other site 207559000408 H-loop/switch region; other site 207559000409 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 207559000410 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559000411 active site 207559000412 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 207559000413 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 207559000414 putative ligand binding site [chemical binding]; other site 207559000415 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 207559000416 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000417 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 207559000418 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000419 PEP-CTERM motif; Region: VPEP; pfam07589 207559000420 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 207559000421 Flavoprotein; Region: Flavoprotein; pfam02441 207559000422 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 207559000423 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559000424 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 207559000425 GIY-YIG motif/motif A; other site 207559000426 putative active site [active] 207559000427 putative metal binding site [ion binding]; other site 207559000428 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 207559000429 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 207559000430 ATP binding site [chemical binding]; other site 207559000431 Mg++ binding site [ion binding]; other site 207559000432 motif III; other site 207559000433 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 207559000434 nucleotide binding region [chemical binding]; other site 207559000435 ATP-binding site [chemical binding]; other site 207559000436 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 207559000437 RNA binding site [nucleotide binding]; other site 207559000438 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 207559000439 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000440 dimer interface [polypeptide binding]; other site 207559000441 conserved gate region; other site 207559000442 putative PBP binding loops; other site 207559000443 ABC-ATPase subunit interface; other site 207559000444 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559000445 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 207559000446 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 207559000447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559000448 DNA-binding site [nucleotide binding]; DNA binding site 207559000449 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 207559000450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000451 homodimer interface [polypeptide binding]; other site 207559000452 catalytic residue [active] 207559000453 AzlC protein; Region: AzlC; cl00570 207559000454 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 207559000455 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 207559000456 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 207559000457 Histidine kinase; Region: His_kinase; pfam06580 207559000458 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000459 ATP binding site [chemical binding]; other site 207559000460 Mg2+ binding site [ion binding]; other site 207559000461 G-X-G motif; other site 207559000462 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 207559000463 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000464 active site 207559000465 phosphorylation site [posttranslational modification] 207559000466 intermolecular recognition site; other site 207559000467 dimerization interface [polypeptide binding]; other site 207559000468 LytTr DNA-binding domain; Region: LytTR; smart00850 207559000469 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000470 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 207559000471 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000472 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559000473 Walker A/P-loop; other site 207559000474 ATP binding site [chemical binding]; other site 207559000475 Q-loop/lid; other site 207559000476 ABC transporter signature motif; other site 207559000477 Walker B; other site 207559000478 D-loop; other site 207559000479 H-loop/switch region; other site 207559000480 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000481 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000482 dimer interface [polypeptide binding]; other site 207559000483 conserved gate region; other site 207559000484 putative PBP binding loops; other site 207559000485 ABC-ATPase subunit interface; other site 207559000486 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 207559000487 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 207559000488 substrate binding pocket [chemical binding]; other site 207559000489 membrane-bound complex binding site; other site 207559000490 hinge residues; other site 207559000491 threonine synthase; Validated; Region: PRK06260 207559000492 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 207559000493 homodimer interface [polypeptide binding]; other site 207559000494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000495 catalytic residue [active] 207559000496 membrane protein; Provisional; Region: PRK14397 207559000497 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 207559000498 RNB domain; Region: RNB; pfam00773 207559000499 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 207559000500 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 207559000501 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 207559000502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559000503 catalytic residue [active] 207559000504 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 207559000505 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 207559000506 GDP-binding site [chemical binding]; other site 207559000507 ACT binding site; other site 207559000508 IMP binding site; other site 207559000509 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 207559000510 DNA polymerase III subunit delta'; Validated; Region: PRK08485 207559000511 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000513 active site 207559000514 phosphorylation site [posttranslational modification] 207559000515 intermolecular recognition site; other site 207559000516 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000517 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000518 active site 207559000519 phosphorylation site [posttranslational modification] 207559000520 intermolecular recognition site; other site 207559000521 dimerization interface [polypeptide binding]; other site 207559000522 photolyase PhrII; Region: phr2; TIGR00591 207559000523 DNA photolyase; Region: DNA_photolyase; pfam00875 207559000524 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000526 active site 207559000527 phosphorylation site [posttranslational modification] 207559000528 intermolecular recognition site; other site 207559000529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000530 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000531 active site 207559000532 phosphorylation site [posttranslational modification] 207559000533 intermolecular recognition site; other site 207559000534 dimerization interface [polypeptide binding]; other site 207559000535 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000536 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559000537 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000538 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000539 dimer interface [polypeptide binding]; other site 207559000540 conserved gate region; other site 207559000541 putative PBP binding loops; other site 207559000542 ABC-ATPase subunit interface; other site 207559000543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000544 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559000545 Walker A/P-loop; other site 207559000546 ATP binding site [chemical binding]; other site 207559000547 Q-loop/lid; other site 207559000548 ABC transporter signature motif; other site 207559000549 Walker B; other site 207559000550 D-loop; other site 207559000551 H-loop/switch region; other site 207559000552 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000553 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000554 dimer interface [polypeptide binding]; other site 207559000555 conserved gate region; other site 207559000556 putative PBP binding loops; other site 207559000557 ABC-ATPase subunit interface; other site 207559000558 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559000559 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 207559000560 substrate binding pocket [chemical binding]; other site 207559000561 membrane-bound complex binding site; other site 207559000562 hinge residues; other site 207559000563 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 207559000564 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 207559000565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000566 Coenzyme A binding pocket [chemical binding]; other site 207559000567 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 207559000568 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 207559000569 FeS/SAM binding site; other site 207559000570 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559000571 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 207559000572 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 207559000573 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559000574 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 207559000575 acyl-activating enzyme (AAE) consensus motif; other site 207559000576 acyl-activating enzyme (AAE) consensus motif; other site 207559000577 putative AMP binding site [chemical binding]; other site 207559000578 putative active site [active] 207559000579 putative CoA binding site [chemical binding]; other site 207559000580 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 207559000581 seryl-tRNA synthetase; Provisional; Region: PRK05431 207559000582 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 207559000583 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 207559000584 dimer interface [polypeptide binding]; other site 207559000585 active site 207559000586 motif 1; other site 207559000587 motif 2; other site 207559000588 motif 3; other site 207559000589 hypothetical protein; Provisional; Region: PRK09256 207559000590 PilZ domain; Region: PilZ; pfam07238 207559000591 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559000592 hypothetical protein; Provisional; Region: PRK02250 207559000593 SEC-C motif; Region: SEC-C; pfam02810 207559000594 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559000595 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 207559000596 substrate binding site [chemical binding]; other site 207559000597 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000598 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 207559000599 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 207559000600 catalytic residues [active] 207559000601 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559000602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559000603 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559000604 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559000605 PAS domain; Region: PAS; smart00091 207559000606 PAS domain S-box; Region: sensory_box; TIGR00229 207559000607 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 207559000608 putative active site [active] 207559000609 heme pocket [chemical binding]; other site 207559000610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559000611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000612 metal binding site [ion binding]; metal-binding site 207559000613 active site 207559000614 I-site; other site 207559000615 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 207559000616 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559000617 minor groove reading motif; other site 207559000618 helix-hairpin-helix signature motif; other site 207559000619 substrate binding pocket [chemical binding]; other site 207559000620 active site 207559000621 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 207559000622 active site 207559000623 8-oxo-dGMP binding site [chemical binding]; other site 207559000624 nudix motif; other site 207559000625 metal binding site [ion binding]; metal-binding site 207559000626 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 207559000627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559000628 Walker A/P-loop; other site 207559000629 ATP binding site [chemical binding]; other site 207559000630 Q-loop/lid; other site 207559000631 ABC transporter signature motif; other site 207559000632 Walker B; other site 207559000633 D-loop; other site 207559000634 H-loop/switch region; other site 207559000635 TOBE domain; Region: TOBE_2; pfam08402 207559000636 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 207559000637 Phosphotransferase enzyme family; Region: APH; pfam01636 207559000638 active site 207559000639 ATP binding site [chemical binding]; other site 207559000640 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 207559000641 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 207559000642 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559000643 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559000644 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559000645 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 207559000646 active site 207559000647 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559000648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559000649 dimer interface [polypeptide binding]; other site 207559000650 putative CheW interface [polypeptide binding]; other site 207559000651 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 207559000652 Sel1-like repeats; Region: SEL1; smart00671 207559000653 Sel1-like repeats; Region: SEL1; smart00671 207559000654 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000655 phosphorylation site [posttranslational modification] 207559000656 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 207559000657 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 207559000658 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000659 Transcriptional regulator; Region: Rrf2; pfam02082 207559000660 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000661 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000662 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000663 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000664 Carbon starvation protein CstA; Region: CstA; pfam02554 207559000665 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 207559000666 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 207559000667 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 207559000668 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 207559000669 active site 207559000670 HIGH motif; other site 207559000671 dimer interface [polypeptide binding]; other site 207559000672 KMSKS motif; other site 207559000673 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 207559000674 RNA binding surface [nucleotide binding]; other site 207559000675 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 207559000676 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559000677 putative active site [active] 207559000678 metal binding site [ion binding]; metal-binding site 207559000679 homodimer binding site [polypeptide binding]; other site 207559000680 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 207559000681 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 207559000682 dimer interface [polypeptide binding]; other site 207559000683 putative functional site; other site 207559000684 putative MPT binding site; other site 207559000685 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559000686 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 207559000687 Walker A/P-loop; other site 207559000688 ATP binding site [chemical binding]; other site 207559000689 Q-loop/lid; other site 207559000690 ABC transporter signature motif; other site 207559000691 Walker B; other site 207559000692 D-loop; other site 207559000693 H-loop/switch region; other site 207559000694 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000695 dimer interface [polypeptide binding]; other site 207559000696 conserved gate region; other site 207559000697 putative PBP binding loops; other site 207559000698 ABC-ATPase subunit interface; other site 207559000699 PBP superfamily domain; Region: PBP_like_2; pfam12849 207559000700 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559000701 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000702 Transcriptional regulator; Region: Rrf2; pfam02082 207559000703 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 207559000704 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 207559000705 putative NAD(P) binding site [chemical binding]; other site 207559000706 putative active site [active] 207559000707 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 207559000708 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 207559000709 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000710 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000711 active site 207559000712 phosphorylation site [posttranslational modification] 207559000713 intermolecular recognition site; other site 207559000714 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 207559000715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000716 putative active site [active] 207559000717 heme pocket [chemical binding]; other site 207559000718 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 207559000719 dimer interface [polypeptide binding]; other site 207559000720 phosphorylation site [posttranslational modification] 207559000721 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000722 ATP binding site [chemical binding]; other site 207559000723 Mg2+ binding site [ion binding]; other site 207559000724 G-X-G motif; other site 207559000725 fumarate hydratase; Reviewed; Region: fumC; PRK00485 207559000726 Class II fumarases; Region: Fumarase_classII; cd01362 207559000727 active site 207559000728 tetramer interface [polypeptide binding]; other site 207559000729 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559000730 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 207559000731 substrate binding pocket [chemical binding]; other site 207559000732 membrane-bound complex binding site; other site 207559000733 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559000734 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559000735 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 207559000736 Ligand Binding Site [chemical binding]; other site 207559000737 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 207559000738 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 207559000739 chaperone protein DnaJ; Provisional; Region: PRK14301 207559000740 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 207559000741 HSP70 interaction site [polypeptide binding]; other site 207559000742 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 207559000743 substrate binding site [polypeptide binding]; other site 207559000744 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 207559000745 Zn binding sites [ion binding]; other site 207559000746 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 207559000747 dimer interface [polypeptide binding]; other site 207559000748 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 207559000749 trimer interface [polypeptide binding]; other site 207559000750 dimer interface [polypeptide binding]; other site 207559000751 putative active site [active] 207559000752 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 207559000753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559000754 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559000755 ABC transporter; Region: ABC_tran_2; pfam12848 207559000756 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559000757 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 207559000758 active site 207559000759 8-oxo-dGMP binding site [chemical binding]; other site 207559000760 nudix motif; other site 207559000761 metal binding site [ion binding]; metal-binding site 207559000762 Protein of unknown function, DUF606; Region: DUF606; pfam04657 207559000763 Hemerythrin; Region: Hemerythrin; cd12107 207559000764 Fe binding site [ion binding]; other site 207559000765 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 207559000766 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 207559000767 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 207559000768 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 207559000769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000770 catalytic residue [active] 207559000771 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559000772 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 207559000773 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559000774 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559000775 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 207559000776 dimer interface [polypeptide binding]; other site 207559000777 phosphorylation site [posttranslational modification] 207559000778 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000779 ATP binding site [chemical binding]; other site 207559000780 Mg2+ binding site [ion binding]; other site 207559000781 G-X-G motif; other site 207559000782 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000784 active site 207559000785 phosphorylation site [posttranslational modification] 207559000786 intermolecular recognition site; other site 207559000787 dimerization interface [polypeptide binding]; other site 207559000788 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559000789 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 207559000790 dimerization interface [polypeptide binding]; other site 207559000791 ligand binding site [chemical binding]; other site 207559000792 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559000793 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 207559000794 TM-ABC transporter signature motif; other site 207559000795 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 207559000796 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 207559000797 TM-ABC transporter signature motif; other site 207559000798 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 207559000799 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 207559000800 Walker A/P-loop; other site 207559000801 ATP binding site [chemical binding]; other site 207559000802 Q-loop/lid; other site 207559000803 ABC transporter signature motif; other site 207559000804 Walker B; other site 207559000805 D-loop; other site 207559000806 H-loop/switch region; other site 207559000807 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559000808 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 207559000809 Walker A/P-loop; other site 207559000810 ATP binding site [chemical binding]; other site 207559000811 Q-loop/lid; other site 207559000812 ABC transporter signature motif; other site 207559000813 Walker B; other site 207559000814 D-loop; other site 207559000815 H-loop/switch region; other site 207559000816 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559000817 Zn2+ binding site [ion binding]; other site 207559000818 Mg2+ binding site [ion binding]; other site 207559000819 4Fe-4S binding domain; Region: Fer4; pfam00037 207559000820 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559000821 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 207559000822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000823 Coenzyme A binding pocket [chemical binding]; other site 207559000824 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000825 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 207559000826 Transglycosylase; Region: Transgly; pfam00912 207559000827 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 207559000828 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 207559000829 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 207559000830 MG2 domain; Region: A2M_N; pfam01835 207559000831 Alpha-2-macroglobulin family; Region: A2M; pfam00207 207559000832 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 207559000833 surface patch; other site 207559000834 thioester region; other site 207559000835 specificity defining residues; other site 207559000836 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559000837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559000838 Walker A/P-loop; other site 207559000839 ATP binding site [chemical binding]; other site 207559000840 Q-loop/lid; other site 207559000841 ABC transporter signature motif; other site 207559000842 Walker B; other site 207559000843 D-loop; other site 207559000844 H-loop/switch region; other site 207559000845 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 207559000846 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559000847 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559000848 Walker A/P-loop; other site 207559000849 ATP binding site [chemical binding]; other site 207559000850 Q-loop/lid; other site 207559000851 ABC transporter signature motif; other site 207559000852 Walker B; other site 207559000853 D-loop; other site 207559000854 H-loop/switch region; other site 207559000855 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559000856 dipeptide transporter; Provisional; Region: PRK10913 207559000857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000858 dimer interface [polypeptide binding]; other site 207559000859 conserved gate region; other site 207559000860 putative PBP binding loops; other site 207559000861 ABC-ATPase subunit interface; other site 207559000862 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559000863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000864 dimer interface [polypeptide binding]; other site 207559000865 conserved gate region; other site 207559000866 putative PBP binding loops; other site 207559000867 ABC-ATPase subunit interface; other site 207559000868 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_2; cd08498 207559000869 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559000870 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 207559000871 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 207559000872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000873 homodimer interface [polypeptide binding]; other site 207559000874 catalytic residue [active] 207559000875 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559000876 ATP cone domain; Region: ATP-cone; pfam03477 207559000877 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559000878 effector binding site; other site 207559000879 active site 207559000880 Zn binding site [ion binding]; other site 207559000881 glycine loop; other site 207559000882 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 207559000883 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 207559000884 FeS/SAM binding site; other site 207559000885 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559000886 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 207559000887 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 207559000888 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 207559000889 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 207559000890 High-affinity nickel-transport protein; Region: NicO; cl00964 207559000891 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 207559000892 Propionate catabolism activator; Region: PrpR_N; pfam06506 207559000893 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559000894 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 207559000895 Walker A motif; other site 207559000896 ATP binding site [chemical binding]; other site 207559000897 Walker B motif; other site 207559000898 arginine finger; other site 207559000899 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559000900 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 207559000901 Cytochrome c; Region: Cytochrom_C; pfam00034 207559000902 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 207559000903 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 207559000904 putative hydrophobic ligand binding site [chemical binding]; other site 207559000905 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 207559000906 nucleotide binding site [chemical binding]; other site 207559000907 Type III pantothenate kinase; Region: Pan_kinase; cl17198 207559000908 enolase; Provisional; Region: eno; PRK00077 207559000909 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 207559000910 dimer interface [polypeptide binding]; other site 207559000911 metal binding site [ion binding]; metal-binding site 207559000912 substrate binding pocket [chemical binding]; other site 207559000913 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 207559000914 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 207559000915 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 207559000916 homodimer interface [polypeptide binding]; other site 207559000917 NADP binding site [chemical binding]; other site 207559000918 substrate binding site [chemical binding]; other site 207559000919 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559000920 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 207559000921 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 207559000922 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 207559000923 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 207559000924 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559000925 EamA-like transporter family; Region: EamA; pfam00892 207559000926 EamA-like transporter family; Region: EamA; pfam00892 207559000927 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559000928 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 207559000929 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 207559000930 Zn binding site [ion binding]; other site 207559000931 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 207559000932 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 207559000933 dimer interface [polypeptide binding]; other site 207559000934 catalytic triad [active] 207559000935 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 207559000936 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 207559000937 catalytic residues [active] 207559000938 FtsJ-like methyltransferase; Region: FtsJ; cl17430 207559000939 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 207559000940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559000941 dimer interface [polypeptide binding]; other site 207559000942 conserved gate region; other site 207559000943 putative PBP binding loops; other site 207559000944 ABC-ATPase subunit interface; other site 207559000945 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559000946 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 207559000947 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 207559000948 Cl- selectivity filter; other site 207559000949 Cl- binding residues [ion binding]; other site 207559000950 pore gating glutamate residue; other site 207559000951 dimer interface [polypeptide binding]; other site 207559000952 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 207559000953 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000954 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559000955 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 207559000956 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000957 Cysteine-rich domain; Region: CCG; pfam02754 207559000958 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 207559000959 YceG-like family; Region: YceG; pfam02618 207559000960 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 207559000961 dimerization interface [polypeptide binding]; other site 207559000962 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 207559000963 PAS domain; Region: PAS_9; pfam13426 207559000964 putative active site [active] 207559000965 heme pocket [chemical binding]; other site 207559000966 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559000967 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 207559000968 Walker A motif; other site 207559000969 ATP binding site [chemical binding]; other site 207559000970 Walker B motif; other site 207559000971 arginine finger; other site 207559000972 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559000973 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 207559000974 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000975 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 207559000976 dimer interface [polypeptide binding]; other site 207559000977 phosphorylation site [posttranslational modification] 207559000978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000979 ATP binding site [chemical binding]; other site 207559000980 G-X-G motif; other site 207559000981 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000983 active site 207559000984 phosphorylation site [posttranslational modification] 207559000985 intermolecular recognition site; other site 207559000986 dimerization interface [polypeptide binding]; other site 207559000987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000988 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559000989 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000990 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000991 active site 207559000992 phosphorylation site [posttranslational modification] 207559000993 intermolecular recognition site; other site 207559000994 dimerization interface [polypeptide binding]; other site 207559000995 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 207559000996 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 207559000997 transmembrane helices; other site 207559000998 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001000 active site 207559001001 phosphorylation site [posttranslational modification] 207559001002 intermolecular recognition site; other site 207559001003 dimerization interface [polypeptide binding]; other site 207559001004 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 207559001005 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001007 active site 207559001008 phosphorylation site [posttranslational modification] 207559001009 intermolecular recognition site; other site 207559001010 dimerization interface [polypeptide binding]; other site 207559001011 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 207559001012 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 207559001013 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 207559001014 substrate binding site [chemical binding]; other site 207559001015 glutamase interaction surface [polypeptide binding]; other site 207559001016 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 207559001017 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 207559001018 putative active site [active] 207559001019 oxyanion strand; other site 207559001020 catalytic triad [active] 207559001021 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 207559001022 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559001023 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 207559001024 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 207559001025 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559001026 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559001027 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 207559001028 IMP binding site; other site 207559001029 dimer interface [polypeptide binding]; other site 207559001030 interdomain contacts; other site 207559001031 partial ornithine binding site; other site 207559001032 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 207559001033 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 207559001034 active site 207559001035 tetramer interface [polypeptide binding]; other site 207559001036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559001037 active site 207559001038 KpsF/GutQ family protein; Region: kpsF; TIGR00393 207559001039 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 207559001040 putative active site [active] 207559001041 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 207559001042 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 207559001043 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 207559001044 active site 207559001045 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 207559001046 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 207559001047 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 207559001048 ATP binding site [chemical binding]; other site 207559001049 putative Mg++ binding site [ion binding]; other site 207559001050 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 207559001051 nucleotide binding region [chemical binding]; other site 207559001052 ATP-binding site [chemical binding]; other site 207559001053 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 207559001054 Precorrin-8X methylmutase; Region: CbiC; pfam02570 207559001055 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559001056 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 207559001057 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559001058 catalytic triad [active] 207559001059 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559001060 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559001061 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 207559001062 dimerization interface [polypeptide binding]; other site 207559001063 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001064 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001065 dimer interface [polypeptide binding]; other site 207559001066 putative CheW interface [polypeptide binding]; other site 207559001067 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559001068 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559001069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559001070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559001071 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 207559001072 dimerization interface [polypeptide binding]; other site 207559001073 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 207559001074 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 207559001075 Walker A motif/ATP binding site; other site 207559001076 Walker B motif; other site 207559001077 Flagellar assembly protein FliH; Region: FliH; pfam02108 207559001078 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 207559001079 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559001080 FliG C-terminal domain; Region: FliG_C; pfam01706 207559001081 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 207559001082 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 207559001083 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 207559001084 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 207559001085 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 207559001086 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559001087 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 207559001088 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 207559001089 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 207559001090 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 207559001091 binding surface 207559001092 TPR repeat; Region: TPR_11; pfam13414 207559001093 TPR motif; other site 207559001094 TPR repeat; Region: TPR_11; pfam13414 207559001095 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 207559001096 binding surface 207559001097 TPR motif; other site 207559001098 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 207559001099 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 207559001100 NAD binding site [chemical binding]; other site 207559001101 substrate binding site [chemical binding]; other site 207559001102 homodimer interface [polypeptide binding]; other site 207559001103 active site 207559001104 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 207559001105 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 207559001106 putative trimer interface [polypeptide binding]; other site 207559001107 putative CoA binding site [chemical binding]; other site 207559001108 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 207559001109 CoA binding domain; Region: CoA_binding; cl17356 207559001110 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 207559001111 NAD(P) binding site [chemical binding]; other site 207559001112 homodimer interface [polypeptide binding]; other site 207559001113 substrate binding site [chemical binding]; other site 207559001114 active site 207559001115 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 207559001116 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 207559001117 inhibitor-cofactor binding pocket; inhibition site 207559001118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001119 catalytic residue [active] 207559001120 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 207559001121 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001122 putative ADP-binding pocket [chemical binding]; other site 207559001123 Bacterial sugar transferase; Region: Bac_transf; pfam02397 207559001124 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 207559001125 dimerization interface [polypeptide binding]; other site 207559001126 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 207559001127 ATP binding site [chemical binding]; other site 207559001128 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 207559001129 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 207559001130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559001131 Zn2+ binding site [ion binding]; other site 207559001132 Mg2+ binding site [ion binding]; other site 207559001133 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 207559001134 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 207559001135 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559001136 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 207559001137 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 207559001138 dimerization interface [polypeptide binding]; other site 207559001139 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001140 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001141 dimer interface [polypeptide binding]; other site 207559001142 putative CheW interface [polypeptide binding]; other site 207559001143 CHASE4 domain; Region: CHASE4; cl01308 207559001144 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 207559001145 dimerization interface [polypeptide binding]; other site 207559001146 PAS domain S-box; Region: sensory_box; TIGR00229 207559001147 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 207559001148 putative active site [active] 207559001149 heme pocket [chemical binding]; other site 207559001150 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559001151 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 207559001152 dimer interface [polypeptide binding]; other site 207559001153 phosphorylation site [posttranslational modification] 207559001154 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001155 ATP binding site [chemical binding]; other site 207559001156 Mg2+ binding site [ion binding]; other site 207559001157 G-X-G motif; other site 207559001158 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001160 active site 207559001161 phosphorylation site [posttranslational modification] 207559001162 intermolecular recognition site; other site 207559001163 dimerization interface [polypeptide binding]; other site 207559001164 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_8; cd08495 207559001165 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559001166 HEAT-like repeat; Region: HEAT_EZ; pfam13513 207559001167 PAP2_like_4 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_4; cd03395 207559001168 active site 207559001169 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 207559001170 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 207559001171 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559001172 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559001173 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559001174 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 207559001175 active site residue [active] 207559001176 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 207559001177 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 207559001178 HflX GTPase family; Region: HflX; cd01878 207559001179 G1 box; other site 207559001180 GTP/Mg2+ binding site [chemical binding]; other site 207559001181 Switch I region; other site 207559001182 G2 box; other site 207559001183 G3 box; other site 207559001184 Switch II region; other site 207559001185 G4 box; other site 207559001186 G5 box; other site 207559001187 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 207559001188 purine monophosphate binding site [chemical binding]; other site 207559001189 dimer interface [polypeptide binding]; other site 207559001190 putative catalytic residues [active] 207559001191 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 207559001192 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 207559001193 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 207559001194 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 207559001195 FHIPEP family; Region: FHIPEP; pfam00771 207559001196 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 207559001197 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 207559001198 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559001199 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 207559001200 P-loop; other site 207559001201 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 207559001202 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 207559001203 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559001204 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559001205 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 207559001206 DNA binding residues [nucleotide binding] 207559001207 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 207559001208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001209 active site 207559001210 phosphorylation site [posttranslational modification] 207559001211 intermolecular recognition site; other site 207559001212 dimerization interface [polypeptide binding]; other site 207559001213 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 207559001214 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 207559001215 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 207559001216 FMN binding site [chemical binding]; other site 207559001217 active site 207559001218 catalytic residues [active] 207559001219 substrate binding site [chemical binding]; other site 207559001220 LytB protein; Region: LYTB; cl00507 207559001221 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 207559001222 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559001223 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559001224 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001225 active site 207559001226 phosphorylation site [posttranslational modification] 207559001227 intermolecular recognition site; other site 207559001228 dimerization interface [polypeptide binding]; other site 207559001229 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 207559001230 binding surface 207559001231 TPR motif; other site 207559001232 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 207559001233 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001234 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 207559001235 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559001236 substrate binding pocket [chemical binding]; other site 207559001237 membrane-bound complex binding site; other site 207559001238 hinge residues; other site 207559001239 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559001240 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559001241 dimer interface [polypeptide binding]; other site 207559001242 conserved gate region; other site 207559001243 putative PBP binding loops; other site 207559001244 ABC-ATPase subunit interface; other site 207559001245 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 207559001246 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559001247 PYR/PP interface [polypeptide binding]; other site 207559001248 dimer interface [polypeptide binding]; other site 207559001249 TPP binding site [chemical binding]; other site 207559001250 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559001251 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 207559001252 TPP-binding site [chemical binding]; other site 207559001253 dimer interface [polypeptide binding]; other site 207559001254 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559001255 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 207559001256 putative valine binding site [chemical binding]; other site 207559001257 dimer interface [polypeptide binding]; other site 207559001258 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 207559001259 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 207559001260 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001261 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559001262 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559001263 MarR family; Region: MarR; pfam01047 207559001264 MarR family; Region: MarR_2; pfam12802 207559001265 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 207559001266 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 207559001267 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 207559001268 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 207559001269 amphipathic channel; other site 207559001270 Asn-Pro-Ala signature motifs; other site 207559001271 glycerol kinase; Provisional; Region: glpK; PRK00047 207559001272 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 207559001273 N- and C-terminal domain interface [polypeptide binding]; other site 207559001274 active site 207559001275 MgATP binding site [chemical binding]; other site 207559001276 catalytic site [active] 207559001277 metal binding site [ion binding]; metal-binding site 207559001278 glycerol binding site [chemical binding]; other site 207559001279 homotetramer interface [polypeptide binding]; other site 207559001280 homodimer interface [polypeptide binding]; other site 207559001281 FBP binding site [chemical binding]; other site 207559001282 protein IIAGlc interface [polypeptide binding]; other site 207559001283 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 207559001284 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 207559001285 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559001286 Walker A/P-loop; other site 207559001287 ATP binding site [chemical binding]; other site 207559001288 Q-loop/lid; other site 207559001289 ABC transporter signature motif; other site 207559001290 Walker B; other site 207559001291 D-loop; other site 207559001292 H-loop/switch region; other site 207559001293 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 207559001294 active site 207559001295 catalytic triad [active] 207559001296 oxyanion hole [active] 207559001297 switch loop; other site 207559001298 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 207559001299 putative deacylase active site [active] 207559001300 N-terminal catalytic domain of alpha-galactosidase; glycoside hydrolase family 57 (GH57); Region: GH57N_PfGalA_like; cd10794 207559001301 putative active site [active] 207559001302 catalytic site [active] 207559001303 KduI/IolB family; Region: KduI; pfam04962 207559001304 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 207559001305 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 207559001306 inhibitor-cofactor binding pocket; inhibition site 207559001307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001308 catalytic residue [active] 207559001309 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 207559001310 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 207559001311 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 207559001312 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559001313 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 207559001314 S-adenosylmethionine binding site [chemical binding]; other site 207559001315 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 207559001316 active site 207559001317 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 207559001318 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559001319 Coenzyme A binding pocket [chemical binding]; other site 207559001320 NeuB family; Region: NeuB; pfam03102 207559001321 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559001322 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559001323 NADP binding site [chemical binding]; other site 207559001324 active site 207559001325 putative substrate binding site [chemical binding]; other site 207559001326 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559001327 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 207559001328 active site 207559001329 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 207559001330 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559001331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001332 NAD(P) binding site [chemical binding]; other site 207559001333 active site 207559001334 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001335 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 207559001336 Methyltransferase domain; Region: Methyltransf_24; pfam13578 207559001337 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559001338 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 207559001339 active site 207559001340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 207559001341 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 207559001342 S-adenosylmethionine binding site [chemical binding]; other site 207559001343 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559001344 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 207559001345 active site 207559001346 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 207559001347 active site 207559001348 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 207559001349 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001350 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 207559001351 active site 207559001352 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 207559001353 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001354 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 207559001355 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559001356 NADP-binding site; other site 207559001357 homotetramer interface [polypeptide binding]; other site 207559001358 substrate binding site [chemical binding]; other site 207559001359 homodimer interface [polypeptide binding]; other site 207559001360 active site 207559001361 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001362 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001363 dimer interface [polypeptide binding]; other site 207559001364 putative CheW interface [polypeptide binding]; other site 207559001365 Hemerythrin; Region: Hemerythrin; cd12107 207559001366 Fe binding site [ion binding]; other site 207559001367 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 207559001368 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 207559001369 active site 207559001370 catalytic site [active] 207559001371 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 207559001372 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 207559001373 oligomer interface [polypeptide binding]; other site 207559001374 metal binding site [ion binding]; metal-binding site 207559001375 metal binding site [ion binding]; metal-binding site 207559001376 Cl binding site [ion binding]; other site 207559001377 aspartate ring; other site 207559001378 basic sphincter; other site 207559001379 putative hydrophobic gate; other site 207559001380 periplasmic entrance; other site 207559001381 Uncharacterized conserved protein [Function unknown]; Region: COG1359 207559001382 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 207559001383 active site 207559001384 metal-binding site 207559001385 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 207559001386 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001387 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 207559001388 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 207559001389 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559001390 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559001391 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001392 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001393 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559001394 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 207559001395 Walker A/P-loop; other site 207559001396 ATP binding site [chemical binding]; other site 207559001397 Q-loop/lid; other site 207559001398 ABC transporter signature motif; other site 207559001399 Walker B; other site 207559001400 D-loop; other site 207559001401 H-loop/switch region; other site 207559001402 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 207559001403 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 207559001404 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 207559001405 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 207559001406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559001407 dimer interface [polypeptide binding]; other site 207559001408 conserved gate region; other site 207559001409 putative PBP binding loops; other site 207559001410 ABC-ATPase subunit interface; other site 207559001411 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 207559001412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559001413 dimer interface [polypeptide binding]; other site 207559001414 conserved gate region; other site 207559001415 putative PBP binding loops; other site 207559001416 ABC-ATPase subunit interface; other site 207559001417 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 207559001418 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559001419 Walker A/P-loop; other site 207559001420 ATP binding site [chemical binding]; other site 207559001421 Q-loop/lid; other site 207559001422 ABC transporter signature motif; other site 207559001423 Walker B; other site 207559001424 D-loop; other site 207559001425 H-loop/switch region; other site 207559001426 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001427 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559001428 Walker A/P-loop; other site 207559001429 ATP binding site [chemical binding]; other site 207559001430 Q-loop/lid; other site 207559001431 ABC transporter signature motif; other site 207559001432 Walker B; other site 207559001433 D-loop; other site 207559001434 H-loop/switch region; other site 207559001435 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001436 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559001437 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559001438 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559001439 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 207559001440 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 207559001441 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 207559001442 TPR repeat; Region: TPR_11; pfam13414 207559001443 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 207559001444 binding surface 207559001445 TPR motif; other site 207559001446 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 207559001447 binding surface 207559001448 TPR motif; other site 207559001449 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 207559001450 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001451 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001452 dimer interface [polypeptide binding]; other site 207559001453 putative CheW interface [polypeptide binding]; other site 207559001454 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559001455 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 207559001456 substrate binding pocket [chemical binding]; other site 207559001457 membrane-bound complex binding site; other site 207559001458 hinge residues; other site 207559001459 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 207559001460 Sulfatase; Region: Sulfatase; pfam00884 207559001461 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 207559001462 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 207559001463 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559001464 ligand binding site [chemical binding]; other site 207559001465 flexible hinge region; other site 207559001466 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 207559001467 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 207559001468 catalytic residues [active] 207559001469 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 207559001470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559001471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559001472 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 207559001473 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 207559001474 dimer interface [polypeptide binding]; other site 207559001475 PYR/PP interface [polypeptide binding]; other site 207559001476 TPP binding site [chemical binding]; other site 207559001477 substrate binding site [chemical binding]; other site 207559001478 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 207559001479 TPP-binding site [chemical binding]; other site 207559001480 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 207559001481 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 207559001482 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 207559001483 CoA binding domain; Region: CoA_binding_2; pfam13380 207559001484 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 207559001485 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 207559001486 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 207559001487 [4Fe-4S] binding site [ion binding]; other site 207559001488 molybdopterin cofactor binding site; other site 207559001489 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 207559001490 molybdopterin cofactor binding site; other site 207559001491 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 207559001492 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559001493 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559001494 4Fe-4S binding domain; Region: Fer4; pfam00037 207559001495 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559001496 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559001497 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 207559001498 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559001499 Transposase IS200 like; Region: Y1_Tnp; pfam01797 207559001500 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001501 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 207559001502 putative ADP-binding pocket [chemical binding]; other site 207559001503 O-Antigen ligase; Region: Wzy_C; pfam04932 207559001504 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 207559001505 Bacterial sugar transferase; Region: Bac_transf; pfam02397 207559001506 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 207559001507 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559001508 Walker A motif; other site 207559001509 ATP binding site [chemical binding]; other site 207559001510 Walker B motif; other site 207559001511 arginine finger; other site 207559001512 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 207559001513 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 207559001514 Transposase domain (DUF772); Region: DUF772; pfam05598 207559001515 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559001516 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559001517 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001518 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001519 Soluble P-type ATPase [General function prediction only]; Region: COG4087 207559001520 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001521 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001522 Soluble P-type ATPase [General function prediction only]; Region: COG4087 207559001523 FeoA domain; Region: FeoA; pfam04023 207559001524 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559001525 putative DNA binding helix; other site 207559001526 metal binding site 2 [ion binding]; metal-binding site 207559001527 metal binding site 1 [ion binding]; metal-binding site 207559001528 dimer interface [polypeptide binding]; other site 207559001529 structural Zn2+ binding site [ion binding]; other site 207559001530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001531 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001532 Soluble P-type ATPase [General function prediction only]; Region: COG4087 207559001533 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 207559001534 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 207559001535 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 207559001536 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 207559001537 glutaminase active site [active] 207559001538 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 207559001539 dimer interface [polypeptide binding]; other site 207559001540 active site 207559001541 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 207559001542 dimer interface [polypeptide binding]; other site 207559001543 active site 207559001544 HPP family; Region: HPP; pfam04982 207559001545 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 207559001546 active site 207559001547 dimerization interface [polypeptide binding]; other site 207559001548 PAS domain; Region: PAS_9; pfam13426 207559001549 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 207559001550 dimer interface [polypeptide binding]; other site 207559001551 phosphorylation site [posttranslational modification] 207559001552 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001553 ATP binding site [chemical binding]; other site 207559001554 Mg2+ binding site [ion binding]; other site 207559001555 G-X-G motif; other site 207559001556 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559001557 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 207559001558 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 207559001559 FeS/SAM binding site; other site 207559001560 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 207559001561 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 207559001562 RNA binding site [nucleotide binding]; other site 207559001563 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 207559001564 RNA binding site [nucleotide binding]; other site 207559001565 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 207559001566 RNA binding site [nucleotide binding]; other site 207559001567 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 207559001568 RNA binding site [nucleotide binding]; other site 207559001569 S1_RPS1_repeat_ec5: 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_ec5; cd05690 207559001570 RNA binding site [nucleotide binding]; other site 207559001571 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 207559001572 RNA binding site [nucleotide binding]; other site 207559001573 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 207559001574 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559001575 tandem repeat interface [polypeptide binding]; other site 207559001576 oligomer interface [polypeptide binding]; other site 207559001577 active site residues [active] 207559001578 4-alpha-glucanotransferase; Provisional; Region: PRK14508 207559001579 AAA domain; Region: AAA_33; pfam13671 207559001580 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 207559001581 active site 207559001582 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 207559001583 catalytic core [active] 207559001584 aspartate aminotransferase; Provisional; Region: PRK05764 207559001585 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 207559001586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001587 homodimer interface [polypeptide binding]; other site 207559001588 catalytic residue [active] 207559001589 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 207559001590 ligand binding site [chemical binding]; other site 207559001591 active site 207559001592 UGI interface [polypeptide binding]; other site 207559001593 catalytic site [active] 207559001594 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 207559001595 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559001596 FeS/SAM binding site; other site 207559001597 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 207559001598 IHF - DNA interface [nucleotide binding]; other site 207559001599 IHF dimer interface [polypeptide binding]; other site 207559001600 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559001601 Amidase; Region: Amidase; pfam01425 207559001602 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 207559001603 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 207559001604 Sporulation related domain; Region: SPOR; pfam05036 207559001605 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 207559001606 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 207559001607 active site 207559001608 catalytic residues [active] 207559001609 metal binding site [ion binding]; metal-binding site 207559001610 Cache domain; Region: Cache_1; pfam02743 207559001611 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559001612 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 207559001613 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001614 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 207559001615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001616 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 207559001617 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559001618 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 207559001619 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559001620 catalytic triad [active] 207559001621 EamA-like transporter family; Region: EamA; pfam00892 207559001622 EamA-like transporter family; Region: EamA; pfam00892 207559001623 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 207559001624 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 207559001625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 207559001626 Sporulation related domain; Region: SPOR; pfam05036 207559001627 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001628 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001629 active site 207559001630 phosphorylation site [posttranslational modification] 207559001631 intermolecular recognition site; other site 207559001632 dimerization interface [polypeptide binding]; other site 207559001633 PAS fold; Region: PAS; pfam00989 207559001634 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 207559001635 putative active site [active] 207559001636 heme pocket [chemical binding]; other site 207559001637 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559001638 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001639 metal binding site [ion binding]; metal-binding site 207559001640 active site 207559001641 I-site; other site 207559001642 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 207559001643 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559001644 Winged helix-turn helix; Region: HTH_29; pfam13551 207559001645 Homeodomain-like domain; Region: HTH_32; pfam13565 207559001646 Integrase core domain; Region: rve; pfam00665 207559001647 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 207559001648 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 207559001649 FeS/SAM binding site; other site 207559001650 HemN C-terminal domain; Region: HemN_C; pfam06969 207559001651 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 207559001652 Ligand Binding Site [chemical binding]; other site 207559001653 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 207559001654 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 207559001655 oligonucleotide binding site [chemical binding]; other site 207559001656 homodimer interface [polypeptide binding]; other site 207559001657 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 207559001658 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559001659 FeS/SAM binding site; other site 207559001660 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 207559001661 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 207559001662 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559001663 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559001664 acyl-activating enzyme (AAE) consensus motif; other site 207559001665 AMP binding site [chemical binding]; other site 207559001666 active site 207559001667 CoA binding site [chemical binding]; other site 207559001668 Protein of unknown function, DUF399; Region: DUF399; pfam04187 207559001669 Protein of unknown function, DUF399; Region: DUF399; cl01139 207559001670 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 207559001671 protein binding site [polypeptide binding]; other site 207559001672 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 207559001673 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 207559001674 DNA binding site [nucleotide binding] 207559001675 catalytic residue [active] 207559001676 H2TH interface [polypeptide binding]; other site 207559001677 putative catalytic residues [active] 207559001678 turnover-facilitating residue; other site 207559001679 intercalation triad [nucleotide binding]; other site 207559001680 8OG recognition residue [nucleotide binding]; other site 207559001681 putative reading head residues; other site 207559001682 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 207559001683 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 207559001684 MviN-like protein; Region: MVIN; pfam03023 207559001685 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 207559001686 dimer interface [polypeptide binding]; other site 207559001687 phosphorylation site [posttranslational modification] 207559001688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001689 ATP binding site [chemical binding]; other site 207559001690 Mg2+ binding site [ion binding]; other site 207559001691 G-X-G motif; other site 207559001692 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001694 active site 207559001695 phosphorylation site [posttranslational modification] 207559001696 intermolecular recognition site; other site 207559001697 dimerization interface [polypeptide binding]; other site 207559001698 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559001699 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001700 active site 207559001701 phosphorylation site [posttranslational modification] 207559001702 intermolecular recognition site; other site 207559001703 dimerization interface [polypeptide binding]; other site 207559001704 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 207559001705 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 207559001706 hinge; other site 207559001707 active site 207559001708 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 207559001709 Competence protein; Region: Competence; pfam03772 207559001710 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 207559001711 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 207559001712 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559001713 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001714 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559001715 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559001716 PAS fold; Region: PAS; pfam00989 207559001717 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 207559001718 putative active site [active] 207559001719 heme pocket [chemical binding]; other site 207559001720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559001721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001722 metal binding site [ion binding]; metal-binding site 207559001723 active site 207559001724 I-site; other site 207559001725 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 207559001726 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 207559001727 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001728 putative catalytic site [active] 207559001729 putative metal binding site [ion binding]; other site 207559001730 putative phosphate binding site [ion binding]; other site 207559001731 Divergent AAA domain; Region: AAA_4; pfam04326 207559001732 Uncharacterized conserved protein [Function unknown]; Region: COG1915 207559001733 Acylphosphatase; Region: Acylphosphatase; pfam00708 207559001734 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 207559001735 HypF finger; Region: zf-HYPF; pfam07503 207559001736 HypF finger; Region: zf-HYPF; pfam07503 207559001737 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 207559001738 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 207559001739 non-specific DNA binding site [nucleotide binding]; other site 207559001740 salt bridge; other site 207559001741 sequence-specific DNA binding site [nucleotide binding]; other site 207559001742 Cupin domain; Region: Cupin_2; pfam07883 207559001743 AMP-binding domain protein; Validated; Region: PRK08315 207559001744 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559001745 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 207559001746 acyl-activating enzyme (AAE) consensus motif; other site 207559001747 putative AMP binding site [chemical binding]; other site 207559001748 putative active site [active] 207559001749 putative CoA binding site [chemical binding]; other site 207559001750 HAMP domain; Region: HAMP; pfam00672 207559001751 dimerization interface [polypeptide binding]; other site 207559001752 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 207559001753 PAS fold; Region: PAS_3; pfam08447 207559001754 putative active site [active] 207559001755 heme pocket [chemical binding]; other site 207559001756 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001757 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 207559001758 putative active site [active] 207559001759 heme pocket [chemical binding]; other site 207559001760 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 207559001761 dimer interface [polypeptide binding]; other site 207559001762 phosphorylation site [posttranslational modification] 207559001763 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001764 ATP binding site [chemical binding]; other site 207559001765 Mg2+ binding site [ion binding]; other site 207559001766 G-X-G motif; other site 207559001767 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 207559001768 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 207559001769 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 207559001770 P loop; other site 207559001771 GTP binding site [chemical binding]; other site 207559001772 Cytochrome c; Region: Cytochrom_C; pfam00034 207559001773 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559001774 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 207559001775 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 207559001776 putative active site [active] 207559001777 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001778 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559001779 TrkA-N domain; Region: TrkA_N; pfam02254 207559001780 TrkA-C domain; Region: TrkA_C; pfam02080 207559001781 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 207559001782 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 207559001783 multifunctional aminopeptidase A; Provisional; Region: PRK00913 207559001784 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 207559001785 interface (dimer of trimers) [polypeptide binding]; other site 207559001786 Substrate-binding/catalytic site; other site 207559001787 Zn-binding sites [ion binding]; other site 207559001788 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559001789 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001790 metal binding site [ion binding]; metal-binding site 207559001791 active site 207559001792 I-site; other site 207559001793 arginine decarboxylase; Provisional; Region: PRK05354 207559001794 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 207559001795 dimer interface [polypeptide binding]; other site 207559001796 active site 207559001797 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001798 catalytic residues [active] 207559001799 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 207559001800 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 207559001801 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559001802 NAD(P) binding site [chemical binding]; other site 207559001803 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 207559001804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 207559001805 dimer interface [polypeptide binding]; other site 207559001806 active site 207559001807 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001808 catalytic residues [active] 207559001809 substrate binding site [chemical binding]; other site 207559001810 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 207559001811 agmatinase; Region: agmatinase; TIGR01230 207559001812 putative active site [active] 207559001813 Mn binding site [ion binding]; other site 207559001814 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 207559001815 putative CheA interaction surface; other site 207559001816 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 207559001817 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 207559001818 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001819 heme-binding residues [chemical binding]; other site 207559001820 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001821 heme-binding residues [chemical binding]; other site 207559001822 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001823 heme-binding residues [chemical binding]; other site 207559001824 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 207559001825 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 207559001826 FMN-binding domain; Region: FMN_bind; cl01081 207559001827 electron transport complex RsxE subunit; Provisional; Region: PRK12405 207559001828 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 207559001829 ferredoxin; Validated; Region: PRK07118 207559001830 4Fe-4S binding domain; Region: Fer4; pfam00037 207559001831 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 207559001832 ApbE family; Region: ApbE; pfam02424 207559001833 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 207559001834 Ligand Binding Site [chemical binding]; other site 207559001835 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 207559001836 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 207559001837 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559001838 putative active site [active] 207559001839 catalytic site [active] 207559001840 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 207559001841 putative active site [active] 207559001842 catalytic site [active] 207559001843 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 207559001844 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 207559001845 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 207559001846 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001847 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 207559001848 putative ADP-binding pocket [chemical binding]; other site 207559001849 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 207559001850 metal ion-dependent adhesion site (MIDAS); other site 207559001851 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 207559001852 Predicted permeases [General function prediction only]; Region: COG0730 207559001853 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559001854 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 207559001855 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559001856 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001857 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 207559001858 putative active site [active] 207559001859 heme pocket [chemical binding]; other site 207559001860 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 207559001861 dimer interface [polypeptide binding]; other site 207559001862 phosphorylation site [posttranslational modification] 207559001863 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001864 ATP binding site [chemical binding]; other site 207559001865 Mg2+ binding site [ion binding]; other site 207559001866 G-X-G motif; other site 207559001867 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001869 active site 207559001870 phosphorylation site [posttranslational modification] 207559001871 intermolecular recognition site; other site 207559001872 dimerization interface [polypeptide binding]; other site 207559001873 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559001874 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 207559001875 active site 207559001876 catalytic residues [active] 207559001877 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 207559001878 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559001879 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 207559001880 Walker A/P-loop; other site 207559001881 ATP binding site [chemical binding]; other site 207559001882 Q-loop/lid; other site 207559001883 ABC transporter signature motif; other site 207559001884 Walker B; other site 207559001885 D-loop; other site 207559001886 H-loop/switch region; other site 207559001887 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 207559001888 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 207559001889 Walker A/P-loop; other site 207559001890 ATP binding site [chemical binding]; other site 207559001891 Q-loop/lid; other site 207559001892 ABC transporter signature motif; other site 207559001893 Walker B; other site 207559001894 D-loop; other site 207559001895 H-loop/switch region; other site 207559001896 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 207559001897 TM-ABC transporter signature motif; other site 207559001898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559001899 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 207559001900 TM-ABC transporter signature motif; other site 207559001901 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559001902 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 207559001903 dimerization interface [polypeptide binding]; other site 207559001904 ligand binding site [chemical binding]; other site 207559001905 Integrase core domain; Region: rve; pfam00665 207559001906 Integrase core domain; Region: rve_3; pfam13683 207559001907 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 207559001908 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 207559001909 active site 207559001910 Int/Topo IB signature motif; other site 207559001911 DNA binding site [nucleotide binding] 207559001912 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 207559001913 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559001914 DNA-binding site [nucleotide binding]; DNA binding site 207559001915 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 207559001916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001917 homodimer interface [polypeptide binding]; other site 207559001918 catalytic residue [active] 207559001919 Transposase; Region: HTH_Tnp_1; pfam01527 207559001920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559001921 putative transposase OrfB; Reviewed; Region: PHA02517 207559001922 HTH-like domain; Region: HTH_21; pfam13276 207559001923 Integrase core domain; Region: rve; pfam00665 207559001924 Integrase core domain; Region: rve_3; pfam13683 207559001925 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 207559001926 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559001927 active site 207559001928 HIGH motif; other site 207559001929 nucleotide binding site [chemical binding]; other site 207559001930 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 207559001931 KMSKS motif; other site 207559001932 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 207559001933 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 207559001934 active site 207559001935 catalytic site [active] 207559001936 substrate binding site [chemical binding]; other site 207559001937 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 207559001938 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 207559001939 ligand binding site [chemical binding]; other site 207559001940 flexible hinge region; other site 207559001941 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 207559001942 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559001943 metal binding triad; other site 207559001944 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 207559001945 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559001946 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 207559001947 Na binding site [ion binding]; other site 207559001948 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 207559001949 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559001950 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559001951 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 207559001952 DctM-like transporters; Region: DctM; pfam06808 207559001953 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 207559001954 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 207559001955 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 207559001956 Maf-like protein; Region: Maf; pfam02545 207559001957 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 207559001958 active site 207559001959 dimer interface [polypeptide binding]; other site 207559001960 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 207559001961 tetramer interfaces [polypeptide binding]; other site 207559001962 binuclear metal-binding site [ion binding]; other site 207559001963 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 207559001964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559001965 HDOD domain; Region: HDOD; pfam08668 207559001966 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 207559001967 PAS domain; Region: PAS_9; pfam13426 207559001968 putative active site [active] 207559001969 heme pocket [chemical binding]; other site 207559001970 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 207559001971 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559001972 Walker A motif; other site 207559001973 ATP binding site [chemical binding]; other site 207559001974 Walker B motif; other site 207559001975 arginine finger; other site 207559001976 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 207559001977 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 207559001978 Transcriptional regulator; Region: Rrf2; cl17282 207559001979 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559001980 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559001981 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 207559001982 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 207559001983 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559001984 4Fe-4S binding domain; Region: Fer4; cl02805 207559001985 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001986 heme-binding residues [chemical binding]; other site 207559001987 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001988 heme-binding residues [chemical binding]; other site 207559001989 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 207559001990 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001991 heme-binding residues [chemical binding]; other site 207559001992 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001993 heme-binding residues [chemical binding]; other site 207559001994 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 207559001995 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559001996 DNA interaction; other site 207559001997 Metal-binding active site; metal-binding site 207559001998 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 207559001999 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 207559002000 PAS domain; Region: PAS_9; pfam13426 207559002001 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559002002 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 207559002003 Walker A motif; other site 207559002004 ATP binding site [chemical binding]; other site 207559002005 Walker B motif; other site 207559002006 arginine finger; other site 207559002007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559002008 maltose O-acetyltransferase; Provisional; Region: PRK10092 207559002009 Maltose acetyltransferase; Region: Mac; pfam12464 207559002010 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 207559002011 trimer interface [polypeptide binding]; other site 207559002012 active site 207559002013 substrate binding site [chemical binding]; other site 207559002014 CoA binding site [chemical binding]; other site 207559002015 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559002016 putative catalytic site [active] 207559002017 putative phosphate binding site [ion binding]; other site 207559002018 putative metal binding site [ion binding]; other site 207559002019 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559002020 putative substrate translocation pore; other site 207559002021 Transcriptional regulators [Transcription]; Region: MarR; COG1846 207559002022 MarR family; Region: MarR_2; pfam12802 207559002023 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559002024 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559002025 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559002026 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559002027 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 207559002028 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 207559002029 Walker A/P-loop; other site 207559002030 ATP binding site [chemical binding]; other site 207559002031 Q-loop/lid; other site 207559002032 ABC transporter signature motif; other site 207559002033 Walker B; other site 207559002034 D-loop; other site 207559002035 H-loop/switch region; other site 207559002036 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 207559002037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559002038 dimer interface [polypeptide binding]; other site 207559002039 conserved gate region; other site 207559002040 putative PBP binding loops; other site 207559002041 ABC-ATPase subunit interface; other site 207559002042 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 207559002043 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559002044 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 207559002045 putative homodimer interface [polypeptide binding]; other site 207559002046 putative homotetramer interface [polypeptide binding]; other site 207559002047 putative allosteric switch controlling residues; other site 207559002048 putative metal binding site [ion binding]; other site 207559002049 putative homodimer-homodimer interface [polypeptide binding]; other site 207559002050 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 207559002051 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 207559002052 active site residue [active] 207559002053 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559002054 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 207559002055 active site residue [active] 207559002056 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 207559002057 active site residue [active] 207559002058 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 207559002059 active site residue [active] 207559002060 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 207559002061 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559002062 4Fe-4S binding domain; Region: Fer4; pfam00037 207559002063 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559002064 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 207559002065 putative [Fe4-S4] binding site [ion binding]; other site 207559002066 putative molybdopterin cofactor binding site [chemical binding]; other site 207559002067 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559002068 putative molybdopterin cofactor binding site; other site 207559002069 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 207559002070 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559002071 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559002072 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 207559002073 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 207559002074 putative MPT binding site; other site 207559002075 Integral membrane protein TerC family; Region: TerC; cl10468 207559002076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002077 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002078 active site 207559002079 phosphorylation site [posttranslational modification] 207559002080 intermolecular recognition site; other site 207559002081 dimerization interface [polypeptide binding]; other site 207559002082 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 207559002083 transmembrane helices; other site 207559002084 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559002085 TrkA-C domain; Region: TrkA_C; pfam02080 207559002086 TrkA-C domain; Region: TrkA_C; pfam02080 207559002087 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 207559002088 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002090 active site 207559002091 phosphorylation site [posttranslational modification] 207559002092 intermolecular recognition site; other site 207559002093 dimerization interface [polypeptide binding]; other site 207559002094 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002096 active site 207559002097 phosphorylation site [posttranslational modification] 207559002098 intermolecular recognition site; other site 207559002099 dimerization interface [polypeptide binding]; other site 207559002100 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 207559002101 dimer interface [polypeptide binding]; other site 207559002102 phosphorylation site [posttranslational modification] 207559002103 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002104 ATP binding site [chemical binding]; other site 207559002105 Mg2+ binding site [ion binding]; other site 207559002106 G-X-G motif; other site 207559002107 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 207559002108 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559002109 Walker A motif; other site 207559002110 ATP binding site [chemical binding]; other site 207559002111 Walker B motif; other site 207559002112 arginine finger; other site 207559002113 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 207559002114 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 207559002115 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 207559002116 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 207559002117 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 207559002118 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559002119 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 207559002120 Walker A/P-loop; other site 207559002121 ATP binding site [chemical binding]; other site 207559002122 Q-loop/lid; other site 207559002123 ABC transporter signature motif; other site 207559002124 Walker B; other site 207559002125 D-loop; other site 207559002126 H-loop/switch region; other site 207559002127 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559002128 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559002129 xanthine permease; Region: pbuX; TIGR03173 207559002130 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 207559002131 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 207559002132 active site 207559002133 putative substrate binding pocket [chemical binding]; other site 207559002134 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 207559002135 dimerization interface [polypeptide binding]; other site 207559002136 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 207559002137 PAS domain; Region: PAS_9; pfam13426 207559002138 putative active site [active] 207559002139 heme pocket [chemical binding]; other site 207559002140 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559002141 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559002142 dimer interface [polypeptide binding]; other site 207559002143 putative CheW interface [polypeptide binding]; other site 207559002144 methionine sulfoxide reductase B; Provisional; Region: PRK00222 207559002145 SelR domain; Region: SelR; pfam01641 207559002146 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559002147 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 207559002148 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 207559002149 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559002150 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559002151 GTP binding site; other site 207559002152 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 207559002153 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 207559002154 FeS/SAM binding site; other site 207559002155 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 207559002156 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002157 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002158 active site 207559002159 phosphorylation site [posttranslational modification] 207559002160 intermolecular recognition site; other site 207559002161 dimerization interface [polypeptide binding]; other site 207559002162 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 207559002163 anti sigma factor interaction site; other site 207559002164 regulatory phosphorylation site [posttranslational modification]; other site 207559002165 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002166 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 207559002167 putative active site [active] 207559002168 heme pocket [chemical binding]; other site 207559002169 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 207559002170 dimer interface [polypeptide binding]; other site 207559002171 phosphorylation site [posttranslational modification] 207559002172 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002173 ATP binding site [chemical binding]; other site 207559002174 Mg2+ binding site [ion binding]; other site 207559002175 G-X-G motif; other site 207559002176 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 207559002177 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 207559002178 putative ligand binding site [chemical binding]; other site 207559002179 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 207559002180 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 207559002181 catalytic residues [active] 207559002182 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 207559002183 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 207559002184 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 207559002185 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 207559002186 [4Fe-4S] binding site [ion binding]; other site 207559002187 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 207559002188 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 207559002189 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 207559002190 molybdopterin cofactor binding site; other site 207559002191 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559002192 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 207559002193 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 207559002194 Putative Fe-S cluster; Region: FeS; cl17515 207559002195 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 207559002196 anti sigma factor interaction site; other site 207559002197 regulatory phosphorylation site [posttranslational modification]; other site 207559002198 Cache domain; Region: Cache_1; pfam02743 207559002199 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 207559002200 dimerization interface [polypeptide binding]; other site 207559002201 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 207559002202 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 207559002203 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 207559002204 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559002205 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559002206 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 207559002207 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 207559002208 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559002209 Walker A/P-loop; other site 207559002210 ATP binding site [chemical binding]; other site 207559002211 Q-loop/lid; other site 207559002212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559002213 ABC transporter signature motif; other site 207559002214 Walker B; other site 207559002215 D-loop; other site 207559002216 H-loop/switch region; other site 207559002217 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559002218 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 207559002219 ligand binding site [chemical binding]; other site 207559002220 flexible hinge region; other site 207559002221 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 207559002222 4Fe-4S binding domain; Region: Fer4_6; pfam12837 207559002223 4Fe-4S binding domain; Region: Fer4; pfam00037 207559002224 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559002225 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 207559002226 putative cation:proton antiport protein; Provisional; Region: PRK10669 207559002227 TrkA-N domain; Region: TrkA_N; pfam02254 207559002228 TrkA-C domain; Region: TrkA_C; pfam02080 207559002229 PA domain; Region: PA; pfam02225 207559002230 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 207559002231 metal binding site [ion binding]; metal-binding site 207559002232 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 207559002233 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559002234 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559002235 FtsX-like permease family; Region: FtsX; pfam02687 207559002236 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 207559002237 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559002238 Walker A/P-loop; other site 207559002239 ATP binding site [chemical binding]; other site 207559002240 Q-loop/lid; other site 207559002241 ABC transporter signature motif; other site 207559002242 Walker B; other site 207559002243 D-loop; other site 207559002244 H-loop/switch region; other site 207559002245 Methyltransferase domain; Region: Methyltransf_24; pfam13578 207559002246 FtsX-like permease family; Region: FtsX; pfam02687 207559002247 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 207559002248 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002249 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 207559002250 catalytic core [active] 207559002251 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002252 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 207559002253 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 207559002254 putative ADP-binding pocket [chemical binding]; other site 207559002255 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002256 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002257 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 207559002258 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559002259 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 207559002260 FeS/SAM binding site; other site 207559002261 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559002262 Winged helix-turn helix; Region: HTH_29; pfam13551 207559002263 Homeodomain-like domain; Region: HTH_32; pfam13565 207559002264 Integrase core domain; Region: rve; pfam00665 207559002265 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559002266 Winged helix-turn helix; Region: HTH_29; pfam13551 207559002267 Homeodomain-like domain; Region: HTH_32; pfam13565 207559002268 Integrase core domain; Region: rve; pfam00665 207559002269 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 207559002270 dimerization interface [polypeptide binding]; other site 207559002271 putative DNA binding site [nucleotide binding]; other site 207559002272 putative Zn2+ binding site [ion binding]; other site 207559002273 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 207559002274 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559002275 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559002276 DNA-binding site [nucleotide binding]; DNA binding site 207559002277 FCD domain; Region: FCD; pfam07729 207559002278 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 207559002279 active site 207559002280 substrate binding site [chemical binding]; other site 207559002281 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 207559002282 FMN binding site [chemical binding]; other site 207559002283 putative catalytic residues [active] 207559002284 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559002285 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559002286 metal binding site 2 [ion binding]; metal-binding site 207559002287 putative DNA binding helix; other site 207559002288 metal binding site 1 [ion binding]; metal-binding site 207559002289 dimer interface [polypeptide binding]; other site 207559002290 structural Zn2+ binding site [ion binding]; other site 207559002291 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559002292 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559002293 Transposase domain (DUF772); Region: DUF772; pfam05598 207559002294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559002295 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559002296 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559002297 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002298 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 207559002299 dimer interface [polypeptide binding]; other site 207559002300 phosphorylation site [posttranslational modification] 207559002301 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002302 ATP binding site [chemical binding]; other site 207559002303 Mg2+ binding site [ion binding]; other site 207559002304 G-X-G motif; other site 207559002305 hypothetical protein; Provisional; Region: PRK11622 207559002306 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 207559002307 nuc_hydro_CjNH. Nucleoside hydrolases similar to Campylobacter jejuni nucleoside hydrolase. This group contains eukaryotic and bacterial proteins similar to C. jejuni nucleoside hydrolase. Nucleoside hydrolases cleave the N-glycosidic bond in...; Region: nuc_hydro_CjNH; cd02654 207559002308 active site 207559002309 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 207559002310 DsrC like protein; Region: DsrC; pfam04358 207559002311 FOG: CBS domain [General function prediction only]; Region: COG0517 207559002312 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 207559002313 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 207559002314 hypothetical protein; Provisional; Region: PRK04194 207559002315 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 207559002316 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 207559002317 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 207559002318 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 207559002319 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 207559002320 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002321 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002322 active site 207559002323 phosphorylation site [posttranslational modification] 207559002324 intermolecular recognition site; other site 207559002325 dimerization interface [polypeptide binding]; other site 207559002326 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559002327 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 207559002328 ATP binding site [chemical binding]; other site 207559002329 putative Mg++ binding site [ion binding]; other site 207559002330 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 207559002331 nucleotide binding region [chemical binding]; other site 207559002332 ATP-binding site [chemical binding]; other site 207559002333 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 207559002334 DEAD/DEAH box helicase; Region: DEAD; pfam00270 207559002335 ATP binding site [chemical binding]; other site 207559002336 putative Mg++ binding site [ion binding]; other site 207559002337 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 207559002338 nucleotide binding region [chemical binding]; other site 207559002339 ATP-binding site [chemical binding]; other site 207559002340 comF family protein; Region: comF; TIGR00201 207559002341 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559002342 active site 207559002343 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 207559002344 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 207559002345 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 207559002346 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 207559002347 putative FMN binding site [chemical binding]; other site 207559002348 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559002349 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002350 I-site; other site 207559002351 active site 207559002352 metal binding site [ion binding]; metal-binding site 207559002353 TPR repeat; Region: TPR_11; pfam13414 207559002354 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 207559002355 binding surface 207559002356 TPR motif; other site 207559002357 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 207559002358 binding surface 207559002359 TPR motif; other site 207559002360 TPR repeat; Region: TPR_11; pfam13414 207559002361 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559002362 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 207559002363 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 207559002364 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559002365 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559002366 Coenzyme A binding pocket [chemical binding]; other site 207559002367 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 207559002368 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 207559002369 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 207559002370 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 207559002371 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 207559002372 FeS/SAM binding site; other site 207559002373 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 207559002374 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002375 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 207559002376 active site 207559002377 SAM binding site [chemical binding]; other site 207559002378 homodimer interface [polypeptide binding]; other site 207559002379 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559002380 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 207559002381 substrate binding pocket [chemical binding]; other site 207559002382 membrane-bound complex binding site; other site 207559002383 hinge residues; other site 207559002384 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 207559002385 active site 207559002386 putative homodimer interface [polypeptide binding]; other site 207559002387 SAM binding site [chemical binding]; other site 207559002388 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 207559002389 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 207559002390 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 207559002391 Methylamine utilisation protein MauE; Region: MauE; pfam07291 207559002392 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 207559002393 active site residue [active] 207559002394 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 207559002395 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 207559002396 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 207559002397 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 207559002398 homotrimer interaction site [polypeptide binding]; other site 207559002399 putative active site [active] 207559002400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 207559002401 YheO-like PAS domain; Region: PAS_6; pfam08348 207559002402 HTH domain; Region: HTH_22; pfam13309 207559002403 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 207559002404 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559002405 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 207559002406 active site 207559002407 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559002408 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 207559002409 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 207559002410 [4Fe-4S] binding site [ion binding]; other site 207559002411 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 207559002412 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 207559002413 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 207559002414 molybdopterin cofactor binding site; other site 207559002415 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559002416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002417 metal binding site [ion binding]; metal-binding site 207559002418 active site 207559002419 I-site; other site 207559002420 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 207559002421 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 207559002422 putative active site [active] 207559002423 heme pocket [chemical binding]; other site 207559002424 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559002425 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002426 metal binding site [ion binding]; metal-binding site 207559002427 active site 207559002428 I-site; other site 207559002429 PilZ domain; Region: PilZ; pfam07238 207559002430 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 207559002431 active site 207559002432 nucleophile elbow; other site 207559002433 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 207559002434 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 207559002436 active site 207559002437 phosphorylation site [posttranslational modification] 207559002438 dimerization interface [polypeptide binding]; other site 207559002439 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 207559002440 Walker A motif; other site 207559002441 ATP binding site [chemical binding]; other site 207559002442 Walker B motif; other site 207559002443 arginine finger; other site 207559002444 PilZ domain; Region: PilZ; pfam07238 207559002445 hypothetical protein; Provisional; Region: PRK14852 207559002446 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 207559002447 ATP binding site [chemical binding]; other site 207559002448 substrate interface [chemical binding]; other site 207559002449 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 207559002450 dimer interface [polypeptide binding]; other site 207559002451 PEP-CTERM motif; Region: VPEP; pfam07589 207559002452 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 207559002453 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559002454 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 207559002455 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559002456 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559002457 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559002458 Walker A/P-loop; other site 207559002459 ATP binding site [chemical binding]; other site 207559002460 Q-loop/lid; other site 207559002461 ABC transporter signature motif; other site 207559002462 Walker B; other site 207559002463 D-loop; other site 207559002464 H-loop/switch region; other site 207559002465 DevC protein; Region: devC; TIGR01185 207559002466 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559002467 FtsX-like permease family; Region: FtsX; pfam02687 207559002468 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559002469 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 207559002470 binding surface 207559002471 TPR motif; other site 207559002472 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 207559002473 binding surface 207559002474 TPR motif; other site 207559002475 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 207559002476 binding surface 207559002477 TPR motif; other site 207559002478 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 207559002479 TPR motif; other site 207559002480 binding surface 207559002481 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 207559002482 binding surface 207559002483 TPR motif; other site 207559002484 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 207559002485 binding surface 207559002486 TPR motif; other site 207559002487 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 207559002488 TPR motif; other site 207559002489 binding surface 207559002490 Bacterial sugar transferase; Region: Bac_transf; pfam02397 207559002491 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 207559002492 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002493 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002494 SLBB domain; Region: SLBB; pfam10531 207559002495 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 207559002496 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 207559002497 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 207559002498 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 207559002499 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 207559002500 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 207559002501 Walker A motif; other site 207559002502 ATP binding site [chemical binding]; other site 207559002503 Walker B motif; other site 207559002504 arginine finger; other site 207559002505 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 207559002506 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559002507 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559002508 acyl-activating enzyme (AAE) consensus motif; other site 207559002509 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 207559002510 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002511 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 207559002512 DXD motif; other site 207559002513 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 207559002514 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 207559002515 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002516 putative ADP-binding pocket [chemical binding]; other site 207559002517 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002518 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 207559002519 Ligand binding site; other site 207559002520 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 207559002521 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002522 putative ADP-binding pocket [chemical binding]; other site 207559002523 TIGR03790 family protein; Region: TIGR03790 207559002524 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 207559002525 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 207559002526 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 207559002527 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 207559002528 Ligand Binding Site [chemical binding]; other site 207559002529 Molecular Tunnel; other site 207559002530 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002531 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 207559002532 active site 207559002533 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 207559002534 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 207559002535 active site 207559002536 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 207559002537 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 207559002538 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 207559002539 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002540 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 207559002541 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 207559002542 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 207559002543 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 207559002544 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002545 ATP binding site [chemical binding]; other site 207559002546 Mg2+ binding site [ion binding]; other site 207559002547 G-X-G motif; other site 207559002548 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 207559002549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002550 active site 207559002551 phosphorylation site [posttranslational modification] 207559002552 intermolecular recognition site; other site 207559002553 dimerization interface [polypeptide binding]; other site 207559002554 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 207559002555 Walker A motif; other site 207559002556 ATP binding site [chemical binding]; other site 207559002557 Walker B motif; other site 207559002558 arginine finger; other site 207559002559 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559002560 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559002561 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 207559002562 Walker A/P-loop; other site 207559002563 ATP binding site [chemical binding]; other site 207559002564 Q-loop/lid; other site 207559002565 ABC transporter signature motif; other site 207559002566 Walker B; other site 207559002567 D-loop; other site 207559002568 H-loop/switch region; other site 207559002569 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 207559002570 putative carbohydrate binding site [chemical binding]; other site 207559002571 putative ssRNA endonuclease; Provisional; Region: PRK11558 207559002572 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 207559002573 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 207559002574 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 207559002575 CT1975-like protein; Region: Cas_CT1975; pfam09344 207559002576 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 207559002577 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 207559002578 helicase Cas3; Provisional; Region: PRK09694 207559002579 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 207559002580 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 207559002581 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 207559002582 PAS domain; Region: PAS_9; pfam13426 207559002583 putative active site [active] 207559002584 heme pocket [chemical binding]; other site 207559002585 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559002586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002587 metal binding site [ion binding]; metal-binding site 207559002588 active site 207559002589 I-site; other site 207559002590 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 207559002591 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 207559002592 TrkA-N domain; Region: TrkA_N; pfam02254 207559002593 putative transposase OrfB; Reviewed; Region: PHA02517 207559002594 Integrase core domain; Region: rve; pfam00665 207559002595 Integrase core domain; Region: rve_3; pfam13683 207559002596 molybdenum-pterin binding domain; Region: Mop; TIGR00638 207559002597 TOBE domain; Region: TOBE; cl01440 207559002598 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 207559002599 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 207559002600 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559002601 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002602 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 207559002603 dimer interface [polypeptide binding]; other site 207559002604 phosphorylation site [posttranslational modification] 207559002605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002606 ATP binding site [chemical binding]; other site 207559002607 Mg2+ binding site [ion binding]; other site 207559002608 G-X-G motif; other site 207559002609 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002611 active site 207559002612 phosphorylation site [posttranslational modification] 207559002613 intermolecular recognition site; other site 207559002614 dimerization interface [polypeptide binding]; other site 207559002615 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 207559002616 Walker A motif; other site 207559002617 ATP binding site [chemical binding]; other site 207559002618 Walker B motif; other site 207559002619 arginine finger; other site 207559002620 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 207559002621 Predicted permeases [General function prediction only]; Region: COG0679 207559002622 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 207559002623 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002624 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 207559002625 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 207559002626 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 207559002627 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; cl00120 207559002628 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 207559002629 putative DNA binding site [nucleotide binding]; other site 207559002630 putative Zn2+ binding site [ion binding]; other site 207559002631 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559002632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002633 metal binding site [ion binding]; metal-binding site 207559002634 active site 207559002635 I-site; other site 207559002636 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002637 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 207559002638 LexA repressor; Validated; Region: PRK00215 207559002639 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 207559002640 Catalytic site [active] 207559002641 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559002642 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559002643 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559002644 catalytic residues [active] 207559002645 catalytic nucleophile [active] 207559002646 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559002647 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559002648 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559002649 Synaptic Site I dimer interface [polypeptide binding]; other site 207559002650 DNA binding site [nucleotide binding] 207559002651 Recombinase; Region: Recombinase; pfam07508 207559002652 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559002653 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 207559002654 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559002655 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559002656 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 207559002657 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 207559002658 AAA domain; Region: AAA_24; pfam13479 207559002659 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559002660 ERCC4 domain; Region: ERCC4; pfam02732 207559002661 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 207559002662 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 207559002663 DNA binding site [nucleotide binding] 207559002664 AAA domain; Region: AAA_30; pfam13604 207559002665 Family description; Region: UvrD_C_2; pfam13538 207559002666 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559002667 CHC2 zinc finger; Region: zf-CHC2; cl17510 207559002668 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559002669 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 207559002670 active site 207559002671 metal binding site [ion binding]; metal-binding site 207559002672 interdomain interaction site; other site 207559002673 Fic family protein [Function unknown]; Region: COG3177 207559002674 Fic/DOC family; Region: Fic; pfam02661 207559002675 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559002676 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 207559002677 active site 207559002678 DNA binding site [nucleotide binding] 207559002679 Int/Topo IB signature motif; other site 207559002680 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 207559002681 Terminase-like family; Region: Terminase_6; pfam03237 207559002682 Phage portal protein; Region: Phage_portal; pfam04860 207559002683 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559002684 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559002685 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 207559002686 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 207559002687 tail sheath protein; Provisional; Region: 18; PHA02539 207559002688 tail sheath protein; Provisional; Region: 18; PHA02539 207559002689 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 207559002690 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559002691 Phage-related protein [Function unknown]; Region: COG5412 207559002692 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 207559002693 Phage protein D [General function prediction only]; Region: COG3500 207559002694 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559002695 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559002696 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 207559002697 PAAR motif; Region: PAAR_motif; pfam05488 207559002698 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 207559002699 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 207559002700 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 207559002701 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 207559002702 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 207559002703 NADH dehydrogenase subunit G; Validated; Region: PRK08166 207559002704 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559002705 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 207559002706 active site 207559002707 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 207559002708 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 207559002709 putative active site pocket [active] 207559002710 dimerization interface [polypeptide binding]; other site 207559002711 putative catalytic residue [active] 207559002712 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559002713 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559002714 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 207559002715 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559002716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559002717 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559002718 hypothetical protein; Provisional; Region: PRK10279 207559002719 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 207559002720 active site 207559002721 nucleophile elbow; other site 207559002722 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559002723 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 207559002724 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559002725 Zn2+ binding site [ion binding]; other site 207559002726 Mg2+ binding site [ion binding]; other site 207559002727 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 207559002728 nucleotide binding site [chemical binding]; other site 207559002729 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 207559002730 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 207559002731 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 207559002732 nucleotide binding site [chemical binding]; other site 207559002733 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 207559002734 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 207559002735 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 207559002736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 207559002737 Fic family protein [Function unknown]; Region: COG3177 207559002738 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 207559002739 Fic/DOC family; Region: Fic; pfam02661 207559002740 dimerization interface [polypeptide binding]; other site 207559002741 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 207559002742 putative Zn2+ binding site [ion binding]; other site 207559002743 putative DNA binding site [nucleotide binding]; other site 207559002744 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002745 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559002746 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559002747 acyl-activating enzyme (AAE) consensus motif; other site 207559002748 AMP binding site [chemical binding]; other site 207559002749 active site 207559002750 CoA binding site [chemical binding]; other site 207559002751 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 207559002752 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 207559002753 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559002754 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559002755 active site 207559002756 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559002757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002758 active site 207559002759 phosphorylation site [posttranslational modification] 207559002760 intermolecular recognition site; other site 207559002761 dimerization interface [polypeptide binding]; other site 207559002762 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 207559002763 DNA binding residues [nucleotide binding] 207559002764 phosphodiesterase; Provisional; Region: PRK12704 207559002765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559002766 Zn2+ binding site [ion binding]; other site 207559002767 Mg2+ binding site [ion binding]; other site 207559002768 Cell division protein ZapA; Region: ZapA; pfam05164 207559002769 Protein of unknown function (DUF904); Region: DUF904; pfam06005 207559002770 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 207559002771 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 207559002772 Substrate binding site; other site 207559002773 Mg++ binding site; other site 207559002774 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 207559002775 active site 207559002776 substrate binding site [chemical binding]; other site 207559002777 CoA binding site [chemical binding]; other site 207559002778 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 207559002779 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 207559002780 gamma subunit interface [polypeptide binding]; other site 207559002781 epsilon subunit interface [polypeptide binding]; other site 207559002782 LBP interface [polypeptide binding]; other site 207559002783 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 207559002784 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 207559002785 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 207559002786 alpha subunit interaction interface [polypeptide binding]; other site 207559002787 Walker A motif; other site 207559002788 ATP binding site [chemical binding]; other site 207559002789 Walker B motif; other site 207559002790 inhibitor binding site; inhibition site 207559002791 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002792 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 207559002793 core domain interface [polypeptide binding]; other site 207559002794 delta subunit interface [polypeptide binding]; other site 207559002795 epsilon subunit interface [polypeptide binding]; other site 207559002796 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 207559002797 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 207559002798 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 207559002799 beta subunit interaction interface [polypeptide binding]; other site 207559002800 Walker A motif; other site 207559002801 ATP binding site [chemical binding]; other site 207559002802 Walker B motif; other site 207559002803 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002804 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 207559002805 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 207559002806 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 207559002807 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 207559002808 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 207559002809 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 207559002810 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 207559002811 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 207559002812 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002813 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 207559002814 rod shape-determining protein MreC; Provisional; Region: PRK13922 207559002815 rod shape-determining protein MreC; Region: MreC; pfam04085 207559002816 rod shape-determining protein MreB; Provisional; Region: PRK13927 207559002817 MreB and similar proteins; Region: MreB_like; cd10225 207559002818 nucleotide binding site [chemical binding]; other site 207559002819 Mg binding site [ion binding]; other site 207559002820 putative protofilament interaction site [polypeptide binding]; other site 207559002821 RodZ interaction site [polypeptide binding]; other site 207559002822 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 207559002823 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 207559002824 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 207559002825 DNA binding site [nucleotide binding] 207559002826 active site 207559002827 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 207559002828 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 207559002829 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 207559002830 catalytic site [active] 207559002831 active site 207559002832 methionine sulfoxide reductase A; Provisional; Region: PRK14054 207559002833 methionine sulfoxide reductase B; Provisional; Region: PRK00222 207559002834 SelR domain; Region: SelR; pfam01641 207559002835 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 207559002836 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 207559002837 NAD binding site [chemical binding]; other site 207559002838 homotetramer interface [polypeptide binding]; other site 207559002839 homodimer interface [polypeptide binding]; other site 207559002840 substrate binding site [chemical binding]; other site 207559002841 active site 207559002842 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 207559002843 ATP binding site [chemical binding]; other site 207559002844 active site 207559002845 substrate binding site [chemical binding]; other site 207559002846 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 207559002847 histidinol dehydrogenase; Region: hisD; TIGR00069 207559002848 NAD binding site [chemical binding]; other site 207559002849 dimerization interface [polypeptide binding]; other site 207559002850 product binding site; other site 207559002851 substrate binding site [chemical binding]; other site 207559002852 zinc binding site [ion binding]; other site 207559002853 catalytic residues [active] 207559002854 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 207559002855 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 207559002856 GIY-YIG motif/motif A; other site 207559002857 active site 207559002858 catalytic site [active] 207559002859 putative DNA binding site [nucleotide binding]; other site 207559002860 metal binding site [ion binding]; metal-binding site 207559002861 UvrB/uvrC motif; Region: UVR; pfam02151 207559002862 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 207559002863 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 207559002864 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002865 ATP binding site [chemical binding]; other site 207559002866 Mg2+ binding site [ion binding]; other site 207559002867 G-X-G motif; other site 207559002868 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002870 active site 207559002871 phosphorylation site [posttranslational modification] 207559002872 intermolecular recognition site; other site 207559002873 dimerization interface [polypeptide binding]; other site 207559002874 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 207559002875 Walker A motif; other site 207559002876 ATP binding site [chemical binding]; other site 207559002877 Walker B motif; other site 207559002878 arginine finger; other site 207559002879 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 207559002880 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002882 active site 207559002883 phosphorylation site [posttranslational modification] 207559002884 intermolecular recognition site; other site 207559002885 dimerization interface [polypeptide binding]; other site 207559002886 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 207559002887 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 207559002888 Ligand Binding Site [chemical binding]; other site 207559002889 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559002890 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 207559002891 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 207559002892 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559002893 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 207559002894 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 207559002895 nucleotide binding site [chemical binding]; other site 207559002896 NEF interaction site [polypeptide binding]; other site 207559002897 SBD interface [polypeptide binding]; other site 207559002898 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 207559002899 SnoaL-like domain; Region: SnoaL_3; pfam13474 207559002900 GrpE; Region: GrpE; pfam01025 207559002901 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 207559002902 dimer interface [polypeptide binding]; other site 207559002903 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 207559002904 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 207559002905 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 207559002906 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 207559002907 catalytic triad [active] 207559002908 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 207559002909 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 207559002910 cheY-homologous receiver domain; Region: REC; smart00448 207559002911 PilZ domain; Region: PilZ; pfam07238 207559002912 cobyric acid synthase; Provisional; Region: PRK00784 207559002913 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 207559002914 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 207559002915 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 207559002916 catalytic triad [active] 207559002917 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559002918 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 207559002919 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 207559002920 domain interfaces; other site 207559002921 active site 207559002922 cell division protein MraZ; Reviewed; Region: PRK00326 207559002923 MraZ protein; Region: MraZ; pfam02381 207559002924 MraZ protein; Region: MraZ; pfam02381 207559002925 MraW methylase family; Region: Methyltransf_5; cl17771 207559002926 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 207559002927 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 207559002928 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002929 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 207559002930 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 207559002931 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002932 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002933 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002934 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 207559002935 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002936 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002937 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 207559002938 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 207559002939 Mg++ binding site [ion binding]; other site 207559002940 putative catalytic motif [active] 207559002941 putative substrate binding site [chemical binding]; other site 207559002942 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 207559002943 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 207559002944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002946 cell division protein FtsW; Region: ftsW; TIGR02614 207559002947 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 207559002948 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 207559002949 active site 207559002950 homodimer interface [polypeptide binding]; other site 207559002951 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 207559002952 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002954 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002955 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 207559002956 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 207559002957 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 207559002958 Cell division protein FtsQ; Region: FtsQ; pfam03799 207559002959 cell division protein FtsA; Region: ftsA; TIGR01174 207559002960 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 207559002961 nucleotide binding site [chemical binding]; other site 207559002962 Cell division protein FtsA; Region: FtsA; pfam14450 207559002963 cell division protein FtsZ; Region: ftsZ; TIGR00065 207559002964 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 207559002965 nucleotide binding site [chemical binding]; other site 207559002966 SulA interaction site; other site 207559002967 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 207559002968 CoenzymeA binding site [chemical binding]; other site 207559002969 subunit interaction site [polypeptide binding]; other site 207559002970 PHB binding site; other site 207559002971 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 207559002972 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 207559002973 Peptidase family M48; Region: Peptidase_M48; cl12018 207559002974 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 207559002975 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559002976 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 207559002977 active site 207559002978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559002979 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 207559002980 Walker A/P-loop; other site 207559002981 ATP binding site [chemical binding]; other site 207559002982 Q-loop/lid; other site 207559002983 ABC transporter signature motif; other site 207559002984 Walker B; other site 207559002985 D-loop; other site 207559002986 H-loop/switch region; other site 207559002987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559002988 Walker A/P-loop; other site 207559002989 ATP binding site [chemical binding]; other site 207559002990 Q-loop/lid; other site 207559002991 ABC transporter signature motif; other site 207559002992 Walker B; other site 207559002993 D-loop; other site 207559002994 H-loop/switch region; other site 207559002995 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 207559002996 histidinol-phosphatase; Provisional; Region: PRK07328 207559002997 active site 207559002998 dimer interface [polypeptide binding]; other site 207559002999 Late competence development protein ComFB; Region: ComFB; pfam10719 207559003000 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 207559003001 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 207559003002 putative active site [active] 207559003003 PhoH-like protein; Region: PhoH; pfam02562 207559003004 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 207559003005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003006 dimer interface [polypeptide binding]; other site 207559003007 conserved gate region; other site 207559003008 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003009 ABC-ATPase subunit interface; other site 207559003010 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 207559003011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003012 dimer interface [polypeptide binding]; other site 207559003013 conserved gate region; other site 207559003014 putative PBP binding loops; other site 207559003015 ABC-ATPase subunit interface; other site 207559003016 PBP superfamily domain; Region: PBP_like_2; cl17296 207559003017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559003018 hypothetical protein; Provisional; Region: PHA02515 207559003019 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559003020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003021 metal binding site [ion binding]; metal-binding site 207559003022 active site 207559003023 I-site; other site 207559003024 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 207559003025 active site 207559003026 intersubunit interactions; other site 207559003027 catalytic residue [active] 207559003028 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559003029 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559003030 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 207559003031 putative active site [active] 207559003032 heme pocket [chemical binding]; other site 207559003033 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 207559003034 dimer interface [polypeptide binding]; other site 207559003035 phosphorylation site [posttranslational modification] 207559003036 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003037 ATP binding site [chemical binding]; other site 207559003038 Mg2+ binding site [ion binding]; other site 207559003039 G-X-G motif; other site 207559003040 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 207559003041 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 207559003042 L-lactate permease; Region: Lactate_perm; cl00701 207559003043 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559003044 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559003045 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 207559003046 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559003047 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 207559003048 putative [Fe4-S4] binding site [ion binding]; other site 207559003049 putative molybdopterin cofactor binding site [chemical binding]; other site 207559003050 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559003051 putative molybdopterin cofactor binding site; other site 207559003052 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 207559003053 dimerization interface [polypeptide binding]; other site 207559003054 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559003056 dimer interface [polypeptide binding]; other site 207559003057 putative CheW interface [polypeptide binding]; other site 207559003058 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559003059 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 207559003060 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559003061 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 207559003062 heterotetramer interface [polypeptide binding]; other site 207559003063 active site pocket [active] 207559003064 cleavage site 207559003065 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 207559003066 DEAD/DEAH box helicase; Region: DEAD; pfam00270 207559003067 ATP binding site [chemical binding]; other site 207559003068 putative Mg++ binding site [ion binding]; other site 207559003069 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 207559003070 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 207559003071 nucleotide binding region [chemical binding]; other site 207559003072 ATP-binding site [chemical binding]; other site 207559003073 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559003074 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 207559003075 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 207559003076 putative amphipathic alpha helix; other site 207559003077 FAD binding domain; Region: FAD_binding_4; pfam01565 207559003078 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559003079 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 207559003080 SmpB-tmRNA interface; other site 207559003081 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559003082 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559003083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 207559003084 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 207559003085 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 207559003086 dimerization domain swap beta strand [polypeptide binding]; other site 207559003087 regulatory protein interface [polypeptide binding]; other site 207559003088 active site 207559003089 regulatory phosphorylation site [posttranslational modification]; other site 207559003090 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 207559003091 Predicted methyltransferases [General function prediction only]; Region: COG0313 207559003092 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 207559003093 putative SAM binding site [chemical binding]; other site 207559003094 putative homodimer interface [polypeptide binding]; other site 207559003095 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 207559003096 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 207559003097 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 207559003098 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559003099 active site 207559003100 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 207559003101 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 207559003102 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 207559003103 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 207559003104 RimM N-terminal domain; Region: RimM; pfam01782 207559003105 PRC-barrel domain; Region: PRC; pfam05239 207559003106 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 207559003107 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 207559003108 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 207559003109 signal recognition particle protein; Provisional; Region: PRK10867 207559003110 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 207559003111 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 207559003112 P loop; other site 207559003113 GTP binding site [chemical binding]; other site 207559003114 Signal peptide binding domain; Region: SRP_SPB; pfam02978 207559003115 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 207559003116 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 207559003117 Sulfate transporter family; Region: Sulfate_transp; pfam00916 207559003118 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 207559003119 aspartate aminotransferase; Provisional; Region: PRK06836 207559003120 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 207559003121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003122 homodimer interface [polypeptide binding]; other site 207559003123 catalytic residue [active] 207559003124 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 207559003125 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 207559003126 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 207559003127 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559003128 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 207559003129 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 207559003130 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559003131 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559003132 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559003133 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 207559003134 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 207559003135 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 207559003136 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559003137 tricarballylate utilization protein B; Provisional; Region: PRK15033 207559003138 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559003139 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 207559003140 Yip1 domain; Region: Yip1; pfam04893 207559003141 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 207559003142 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559003143 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 207559003144 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 207559003145 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 207559003146 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 207559003147 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 207559003148 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 207559003149 Glycoprotease family; Region: Peptidase_M22; pfam00814 207559003150 RIP metalloprotease RseP; Region: TIGR00054 207559003151 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 207559003152 active site 207559003153 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 207559003154 protein binding site [polypeptide binding]; other site 207559003155 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 207559003156 putative substrate binding region [chemical binding]; other site 207559003157 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 207559003158 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 207559003159 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 207559003160 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 207559003161 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 207559003162 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559003163 catalytic residue [active] 207559003164 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 207559003165 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 207559003166 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 207559003167 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 207559003168 catalytic residue [active] 207559003169 putative FPP diphosphate binding site; other site 207559003170 putative FPP binding hydrophobic cleft; other site 207559003171 dimer interface [polypeptide binding]; other site 207559003172 putative IPP diphosphate binding site; other site 207559003173 ribosome recycling factor; Reviewed; Region: frr; PRK00083 207559003174 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 207559003175 hinge region; other site 207559003176 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 207559003177 putative nucleotide binding site [chemical binding]; other site 207559003178 uridine monophosphate binding site [chemical binding]; other site 207559003179 homohexameric interface [polypeptide binding]; other site 207559003180 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 207559003181 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559003182 putative metal binding site; other site 207559003183 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559003184 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 207559003185 inhibitor-cofactor binding pocket; inhibition site 207559003186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003187 catalytic residue [active] 207559003188 elongation factor Ts; Reviewed; Region: tsf; PRK12332 207559003189 UBA/TS-N domain; Region: UBA; pfam00627 207559003190 Elongation factor TS; Region: EF_TS; pfam00889 207559003191 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 207559003192 rRNA interaction site [nucleotide binding]; other site 207559003193 S8 interaction site; other site 207559003194 putative laminin-1 binding site; other site 207559003195 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 207559003196 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 207559003197 Ligand Binding Site [chemical binding]; other site 207559003198 Molecular Tunnel; other site 207559003199 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 207559003200 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559003201 putative acyl-acceptor binding pocket; other site 207559003202 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 207559003203 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 207559003204 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559003205 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 207559003206 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 207559003207 MgtC family; Region: MgtC; pfam02308 207559003208 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 207559003209 EamA-like transporter family; Region: EamA; pfam00892 207559003210 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559003211 EamA-like transporter family; Region: EamA; pfam00892 207559003212 heat shock protein 90; Provisional; Region: PRK05218 207559003213 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003214 ATP binding site [chemical binding]; other site 207559003215 Mg2+ binding site [ion binding]; other site 207559003216 G-X-G motif; other site 207559003217 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 207559003218 TSCPD domain; Region: TSCPD; cl14834 207559003219 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 207559003220 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003221 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003222 Zn2+ binding site [ion binding]; other site 207559003223 Mg2+ binding site [ion binding]; other site 207559003224 Predicted transcriptional regulator [Transcription]; Region: COG2932 207559003225 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 207559003226 Catalytic site [active] 207559003227 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 207559003228 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 207559003229 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559003230 putative active site [active] 207559003231 metal binding site [ion binding]; metal-binding site 207559003232 PAS domain; Region: PAS_9; pfam13426 207559003233 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 207559003234 putative active site [active] 207559003235 heme pocket [chemical binding]; other site 207559003236 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559003237 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 207559003238 putative active site [active] 207559003239 heme pocket [chemical binding]; other site 207559003240 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559003241 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 207559003242 putative active site [active] 207559003243 heme pocket [chemical binding]; other site 207559003244 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 207559003245 dimer interface [polypeptide binding]; other site 207559003246 phosphorylation site [posttranslational modification] 207559003247 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003248 ATP binding site [chemical binding]; other site 207559003249 Mg2+ binding site [ion binding]; other site 207559003250 G-X-G motif; other site 207559003251 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 207559003252 PAS domain; Region: PAS_9; pfam13426 207559003253 putative active site [active] 207559003254 heme pocket [chemical binding]; other site 207559003255 PAS fold; Region: PAS_4; pfam08448 207559003256 PAS fold; Region: PAS_4; pfam08448 207559003257 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 207559003258 putative active site [active] 207559003259 heme pocket [chemical binding]; other site 207559003260 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 207559003261 PAS domain; Region: PAS_9; pfam13426 207559003262 putative active site [active] 207559003263 heme pocket [chemical binding]; other site 207559003264 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559003265 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003266 metal binding site [ion binding]; metal-binding site 207559003267 active site 207559003268 I-site; other site 207559003269 TPR repeat; Region: TPR_11; pfam13414 207559003270 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 207559003271 binding surface 207559003272 TPR motif; other site 207559003273 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003274 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 207559003275 intracellular protease, PfpI family; Region: PfpI; TIGR01382 207559003276 conserved cys residue [active] 207559003277 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 207559003278 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 207559003279 NMT1/THI5 like; Region: NMT1; pfam09084 207559003280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559003281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003282 metal binding site [ion binding]; metal-binding site 207559003283 active site 207559003284 I-site; other site 207559003285 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 207559003286 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 207559003287 ATP binding site [chemical binding]; other site 207559003288 putative Mg++ binding site [ion binding]; other site 207559003289 helicase superfamily c-terminal domain; Region: HELICc; smart00490 207559003290 Helicase associated domain (HA2); Region: HA2; pfam04408 207559003291 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 207559003292 META domain; Region: META; pfam03724 207559003293 malate synthase G; Provisional; Region: PRK02999 207559003294 active site 207559003295 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 207559003296 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 207559003297 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 207559003298 active site 207559003299 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 207559003300 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 207559003301 DAK2 domain; Region: Dak2; cl03685 207559003302 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 207559003303 PTS_IIA, PTS system, mannose/sorbose 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 family...; Region: PTS_IIA_man; cl00025 207559003304 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 207559003305 dimerization domain swap beta strand [polypeptide binding]; other site 207559003306 regulatory protein interface [polypeptide binding]; other site 207559003307 active site 207559003308 regulatory phosphorylation site [posttranslational modification]; other site 207559003309 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559003310 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559003311 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 207559003312 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 207559003313 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559003314 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559003315 Walker A/P-loop; other site 207559003316 ATP binding site [chemical binding]; other site 207559003317 Q-loop/lid; other site 207559003318 ABC transporter signature motif; other site 207559003319 Walker B; other site 207559003320 D-loop; other site 207559003321 H-loop/switch region; other site 207559003322 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559003323 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559003324 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559003325 Walker A/P-loop; other site 207559003326 ATP binding site [chemical binding]; other site 207559003327 Q-loop/lid; other site 207559003328 ABC transporter signature motif; other site 207559003329 Walker B; other site 207559003330 D-loop; other site 207559003331 H-loop/switch region; other site 207559003332 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 207559003333 dipeptide transporter; Provisional; Region: PRK10913 207559003334 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 207559003335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003336 dimer interface [polypeptide binding]; other site 207559003337 conserved gate region; other site 207559003338 putative PBP binding loops; other site 207559003339 ABC-ATPase subunit interface; other site 207559003340 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559003341 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003342 dimer interface [polypeptide binding]; other site 207559003343 conserved gate region; other site 207559003344 putative PBP binding loops; other site 207559003345 ABC-ATPase subunit interface; other site 207559003346 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559003347 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559003348 peptide binding site [polypeptide binding]; other site 207559003349 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 207559003350 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 207559003351 metal binding site [ion binding]; metal-binding site 207559003352 dimer interface [polypeptide binding]; other site 207559003353 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559003354 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003355 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003356 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 207559003357 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 207559003358 cobalt transport protein CbiM; Validated; Region: PRK06265 207559003359 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 207559003360 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 207559003361 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559003362 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 207559003363 Walker A/P-loop; other site 207559003364 ATP binding site [chemical binding]; other site 207559003365 Q-loop/lid; other site 207559003366 ABC transporter signature motif; other site 207559003367 Walker B; other site 207559003368 D-loop; other site 207559003369 H-loop/switch region; other site 207559003370 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559003371 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 207559003372 substrate binding pocket [chemical binding]; other site 207559003373 membrane-bound complex binding site; other site 207559003374 hinge residues; other site 207559003375 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559003376 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559003377 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 207559003378 putative FMN binding site [chemical binding]; other site 207559003379 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559003380 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 207559003381 HDOD domain; Region: HDOD; pfam08668 207559003382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003383 Zn2+ binding site [ion binding]; other site 207559003384 Mg2+ binding site [ion binding]; other site 207559003385 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559003386 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559003387 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 207559003388 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559003389 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 207559003390 ligand binding site [chemical binding]; other site 207559003391 flexible hinge region; other site 207559003392 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 207559003393 Sulfatase; Region: Sulfatase; pfam00884 207559003394 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 207559003395 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 207559003396 catalytic residues [active] 207559003397 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559003398 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559003399 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003400 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 207559003401 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 207559003402 EamA-like transporter family; Region: EamA; pfam00892 207559003403 EamA-like transporter family; Region: EamA; pfam00892 207559003404 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 207559003405 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559003406 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559003407 Cysteine-rich domain; Region: CCG; pfam02754 207559003408 Cysteine-rich domain; Region: CCG; pfam02754 207559003409 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559003410 4Fe-4S binding domain; Region: Fer4; pfam00037 207559003411 4Fe-4S binding domain; Region: Fer4_6; pfam12837 207559003412 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 207559003413 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559003414 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 207559003415 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 207559003416 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559003417 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 207559003418 FAD binding pocket [chemical binding]; other site 207559003419 FAD binding motif [chemical binding]; other site 207559003420 phosphate binding motif [ion binding]; other site 207559003421 beta-alpha-beta structure motif; other site 207559003422 NAD binding pocket [chemical binding]; other site 207559003423 Iron coordination center [ion binding]; other site 207559003424 Uncharacterized conserved protein [Function unknown]; Region: COG1633 207559003425 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559003426 diiron binding motif [ion binding]; other site 207559003427 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 207559003428 active site 207559003429 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 207559003430 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 207559003431 active site 207559003432 dimer interface [polypeptide binding]; other site 207559003433 YibE/F-like protein; Region: YibE_F; pfam07907 207559003434 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 207559003435 phosphate binding site [ion binding]; other site 207559003436 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003437 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003438 binuclear metal center [ion binding]; other site 207559003439 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 207559003440 iron binding site [ion binding]; other site 207559003441 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559003442 putative active site [active] 207559003443 putative substrate binding site [chemical binding]; other site 207559003444 putative cosubstrate binding site; other site 207559003445 catalytic site [active] 207559003446 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 207559003447 Transposase; Region: HTH_Tnp_1; pfam01527 207559003448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559003449 putative transposase OrfB; Reviewed; Region: PHA02517 207559003450 HTH-like domain; Region: HTH_21; pfam13276 207559003451 Integrase core domain; Region: rve; pfam00665 207559003452 Integrase core domain; Region: rve_3; pfam13683 207559003453 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 207559003454 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559003455 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559003456 DNA-binding site [nucleotide binding]; DNA binding site 207559003457 FCD domain; Region: FCD; pfam07729 207559003458 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559003459 Methyltransferase domain; Region: Methyltransf_25; pfam13649 207559003460 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 207559003461 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 207559003462 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 207559003463 putative oxidoreductase; Provisional; Region: PRK12831 207559003464 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559003465 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559003466 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 207559003467 FAD binding pocket [chemical binding]; other site 207559003468 FAD binding motif [chemical binding]; other site 207559003469 phosphate binding motif [ion binding]; other site 207559003470 beta-alpha-beta structure motif; other site 207559003471 NAD binding pocket [chemical binding]; other site 207559003472 Iron coordination center [ion binding]; other site 207559003473 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003474 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 207559003475 transmembrane helices; other site 207559003476 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559003477 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559003478 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559003479 putative NAD(P) binding site [chemical binding]; other site 207559003480 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559003481 fumarate hydratase; Provisional; Region: PRK06246 207559003482 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 207559003483 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 207559003484 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 207559003485 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 207559003486 L-aspartate oxidase; Provisional; Region: PRK06175 207559003487 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 207559003488 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 207559003489 Iron-sulfur protein interface; other site 207559003490 proximal heme binding site [chemical binding]; other site 207559003491 distal heme binding site [chemical binding]; other site 207559003492 dimer interface [polypeptide binding]; other site 207559003493 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003495 active site 207559003496 phosphorylation site [posttranslational modification] 207559003497 intermolecular recognition site; other site 207559003498 dimerization interface [polypeptide binding]; other site 207559003499 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 207559003500 Walker A motif; other site 207559003501 ATP binding site [chemical binding]; other site 207559003502 Walker B motif; other site 207559003503 arginine finger; other site 207559003504 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559003505 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 207559003506 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 207559003507 dimer interface [polypeptide binding]; other site 207559003508 phosphorylation site [posttranslational modification] 207559003509 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003510 ATP binding site [chemical binding]; other site 207559003511 Mg2+ binding site [ion binding]; other site 207559003512 G-X-G motif; other site 207559003513 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003515 active site 207559003516 phosphorylation site [posttranslational modification] 207559003517 intermolecular recognition site; other site 207559003518 dimerization interface [polypeptide binding]; other site 207559003519 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003520 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559003521 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 207559003522 Walker A motif; other site 207559003523 ATP binding site [chemical binding]; other site 207559003524 Walker B motif; other site 207559003525 arginine finger; other site 207559003526 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559003527 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 207559003528 homotrimer interaction site [polypeptide binding]; other site 207559003529 putative active site [active] 207559003530 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 207559003531 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; cd00640 207559003532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559003533 catalytic residue [active] 207559003534 peptidase; Reviewed; Region: PRK13004 207559003535 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 207559003536 putative metal binding site [ion binding]; other site 207559003537 putative dimer interface [polypeptide binding]; other site 207559003538 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 207559003539 Na binding site [ion binding]; other site 207559003540 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 207559003541 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 207559003542 active site 207559003543 putative substrate binding pocket [chemical binding]; other site 207559003544 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 207559003545 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 207559003546 PAS domain; Region: PAS_9; pfam13426 207559003547 putative active site [active] 207559003548 heme pocket [chemical binding]; other site 207559003549 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559003550 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 207559003551 Walker A motif; other site 207559003552 ATP binding site [chemical binding]; other site 207559003553 Walker B motif; other site 207559003554 arginine finger; other site 207559003555 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559003556 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559003557 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559003558 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 207559003559 dimer interface [polypeptide binding]; other site 207559003560 active site 207559003561 glycine loop; other site 207559003562 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 207559003563 DctM-like transporters; Region: DctM; pfam06808 207559003564 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 207559003565 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559003566 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 207559003567 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 207559003568 PAS domain; Region: PAS_9; pfam13426 207559003569 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559003571 dimer interface [polypeptide binding]; other site 207559003572 putative CheW interface [polypeptide binding]; other site 207559003573 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 207559003574 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559003575 ABC transporter; Region: ABC_tran_2; pfam12848 207559003576 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559003577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559003578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559003579 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559003580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003581 active site 207559003582 phosphorylation site [posttranslational modification] 207559003583 intermolecular recognition site; other site 207559003584 dimerization interface [polypeptide binding]; other site 207559003585 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 207559003586 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559003587 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 207559003588 dimer interface [polypeptide binding]; other site 207559003589 phosphorylation site [posttranslational modification] 207559003590 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003591 ATP binding site [chemical binding]; other site 207559003592 Mg2+ binding site [ion binding]; other site 207559003593 G-X-G motif; other site 207559003594 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003595 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003596 active site 207559003597 phosphorylation site [posttranslational modification] 207559003598 intermolecular recognition site; other site 207559003599 dimerization interface [polypeptide binding]; other site 207559003600 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003601 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 207559003602 binding surface 207559003603 TPR motif; other site 207559003604 TPR repeat; Region: TPR_11; pfam13414 207559003605 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559003606 Winged helix-turn helix; Region: HTH_29; pfam13551 207559003607 Homeodomain-like domain; Region: HTH_32; pfam13565 207559003608 Integrase core domain; Region: rve; pfam00665 207559003609 Transposase; Region: HTH_Tnp_1; pfam01527 207559003610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559003611 putative transposase OrfB; Reviewed; Region: PHA02517 207559003612 HTH-like domain; Region: HTH_21; pfam13276 207559003613 Integrase core domain; Region: rve; pfam00665 207559003614 Integrase core domain; Region: rve_3; pfam13683 207559003615 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 207559003616 DNA methylase; Region: N6_N4_Mtase; pfam01555 207559003617 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 207559003618 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559003619 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003620 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 207559003621 HSP70 interaction site [polypeptide binding]; other site 207559003622 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 207559003623 Flagellin N-methylase; Region: FliB; pfam03692 207559003624 CoA binding domain; Region: CoA_binding_2; pfam13380 207559003625 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559003626 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559003627 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 207559003628 active site 207559003629 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 207559003630 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 207559003631 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559003632 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 207559003633 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 207559003634 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 207559003635 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 207559003636 TPR motif; other site 207559003637 binding surface 207559003638 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003639 AMIN domain; Region: AMIN; pfam11741 207559003640 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 207559003641 putative catalytic residues [active] 207559003642 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 207559003643 metal-binding site [ion binding] 207559003644 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 207559003645 metal-binding site [ion binding] 207559003646 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559003647 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 207559003648 metal-binding site [ion binding] 207559003649 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559003650 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 207559003651 motif II; other site 207559003652 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 207559003653 active site 207559003654 substrate binding site; other site 207559003655 hypothetical protein; Provisional; Region: PRK11568 207559003656 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 207559003657 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 207559003658 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 207559003659 active site 207559003660 putative interdomain interaction site [polypeptide binding]; other site 207559003661 putative metal-binding site [ion binding]; other site 207559003662 putative nucleotide binding site [chemical binding]; other site 207559003663 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 207559003664 domain I; other site 207559003665 phosphate binding site [ion binding]; other site 207559003666 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 207559003667 domain II; other site 207559003668 domain III; other site 207559003669 nucleotide binding site [chemical binding]; other site 207559003670 DNA binding groove [nucleotide binding] 207559003671 catalytic site [active] 207559003672 domain IV; other site 207559003673 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 207559003674 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003675 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003676 binuclear metal center [ion binding]; other site 207559003677 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 207559003678 iron binding site [ion binding]; other site 207559003679 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 207559003680 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 207559003681 PAS domain; Region: PAS_9; pfam13426 207559003682 putative active site [active] 207559003683 heme pocket [chemical binding]; other site 207559003684 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003685 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559003686 dimer interface [polypeptide binding]; other site 207559003687 putative CheW interface [polypeptide binding]; other site 207559003688 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 207559003689 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 207559003690 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 207559003691 putative active site [active] 207559003692 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559003693 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003694 Walker A/P-loop; other site 207559003695 ATP binding site [chemical binding]; other site 207559003696 Q-loop/lid; other site 207559003697 ABC transporter signature motif; other site 207559003698 Walker B; other site 207559003699 D-loop; other site 207559003700 H-loop/switch region; other site 207559003701 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559003702 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559003703 Walker A/P-loop; other site 207559003704 ATP binding site [chemical binding]; other site 207559003705 Q-loop/lid; other site 207559003706 ABC transporter signature motif; other site 207559003707 Walker B; other site 207559003708 D-loop; other site 207559003709 H-loop/switch region; other site 207559003710 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 207559003711 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 207559003712 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003713 dimer interface [polypeptide binding]; other site 207559003714 conserved gate region; other site 207559003715 putative PBP binding loops; other site 207559003716 ABC-ATPase subunit interface; other site 207559003717 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559003718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003719 dimer interface [polypeptide binding]; other site 207559003720 conserved gate region; other site 207559003721 putative PBP binding loops; other site 207559003722 ABC-ATPase subunit interface; other site 207559003723 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559003724 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_19; cd08518 207559003725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 207559003726 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 207559003727 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 207559003728 active site 207559003729 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 207559003730 active site 2 [active] 207559003731 active site 1 [active] 207559003732 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003733 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003734 FtsX-like permease family; Region: FtsX; pfam02687 207559003735 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003736 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003737 FtsX-like permease family; Region: FtsX; pfam02687 207559003738 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 207559003739 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559003740 Na binding site [ion binding]; other site 207559003741 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003742 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559003743 Walker A/P-loop; other site 207559003744 ATP binding site [chemical binding]; other site 207559003745 Q-loop/lid; other site 207559003746 ABC transporter signature motif; other site 207559003747 Walker B; other site 207559003748 D-loop; other site 207559003749 H-loop/switch region; other site 207559003750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559003751 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559003752 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559003753 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 207559003754 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 207559003755 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559003756 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559003757 putative dimer interface [polypeptide binding]; other site 207559003758 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559003759 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559003760 putative dimer interface [polypeptide binding]; other site 207559003761 Predicted permeases [General function prediction only]; Region: RarD; COG2962 207559003762 PAS domain S-box; Region: sensory_box; TIGR00229 207559003763 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 207559003764 putative active site [active] 207559003765 heme pocket [chemical binding]; other site 207559003766 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559003767 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003768 metal binding site [ion binding]; metal-binding site 207559003769 active site 207559003770 I-site; other site 207559003771 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 207559003772 Predicted transcriptional regulators [Transcription]; Region: COG1733 207559003773 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 207559003774 NAD(P)H:flavin oxidoreductase-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; Region: NADPH_oxidoreductase_1; cd02150 207559003775 putative FMN binding site [chemical binding]; other site 207559003776 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 207559003777 active site residue [active] 207559003778 SlyX; Region: SlyX; pfam04102 207559003779 EVE domain; Region: EVE; pfam01878 207559003780 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 207559003781 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 207559003782 PAS domain S-box; Region: sensory_box; TIGR00229 207559003783 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 207559003784 putative active site [active] 207559003785 heme pocket [chemical binding]; other site 207559003786 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559003787 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 207559003788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559003789 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 207559003790 dimer interface [polypeptide binding]; other site 207559003791 phosphorylation site [posttranslational modification] 207559003792 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003793 ATP binding site [chemical binding]; other site 207559003794 Mg2+ binding site [ion binding]; other site 207559003795 G-X-G motif; other site 207559003796 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003798 active site 207559003799 phosphorylation site [posttranslational modification] 207559003800 intermolecular recognition site; other site 207559003801 dimerization interface [polypeptide binding]; other site 207559003802 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003803 COG (conserved oligomeric Golgi) complex component, COG2; Region: COG2; pfam06148 207559003804 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 207559003805 EF-hand domain pair; Region: EF_hand_5; pfam13499 207559003806 Ca2+ binding site [ion binding]; other site 207559003807 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 207559003808 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 207559003809 dimer interface [polypeptide binding]; other site 207559003810 putative anticodon binding site; other site 207559003811 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 207559003812 motif 1; other site 207559003813 active site 207559003814 motif 2; other site 207559003815 motif 3; other site 207559003816 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 207559003817 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003818 FtsX-like permease family; Region: FtsX; pfam02687 207559003819 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003820 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 207559003821 Walker A/P-loop; other site 207559003822 ATP binding site [chemical binding]; other site 207559003823 Q-loop/lid; other site 207559003824 ABC transporter signature motif; other site 207559003825 Walker B; other site 207559003826 D-loop; other site 207559003827 H-loop/switch region; other site 207559003828 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 207559003829 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 207559003830 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 207559003831 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 207559003832 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 207559003833 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 207559003834 Surface antigen; Region: Bac_surface_Ag; pfam01103 207559003835 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559003836 AMIN domain; Region: AMIN; pfam11741 207559003837 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 207559003838 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 207559003839 active site 207559003840 metal binding site [ion binding]; metal-binding site 207559003841 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 207559003842 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 207559003843 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 207559003844 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 207559003845 trimer interface [polypeptide binding]; other site 207559003846 active site 207559003847 UDP-GlcNAc binding site [chemical binding]; other site 207559003848 lipid binding site [chemical binding]; lipid-binding site 207559003849 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 207559003850 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 207559003851 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 207559003852 active site 207559003853 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 207559003854 potential frameshift: common BLAST hit: gi|218888087|ref|YP_002437408.1| GntR family transcriptional regulator 207559003855 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 207559003856 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 207559003857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003858 homodimer interface [polypeptide binding]; other site 207559003859 catalytic residue [active] 207559003860 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 207559003861 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 207559003862 substrate binding site [chemical binding]; other site 207559003863 multimerization interface [polypeptide binding]; other site 207559003864 ATP binding site [chemical binding]; other site 207559003865 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 207559003866 thiamine phosphate binding site [chemical binding]; other site 207559003867 active site 207559003868 pyrophosphate binding site [ion binding]; other site 207559003869 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559003870 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 207559003871 FAD binding pocket [chemical binding]; other site 207559003872 FAD binding motif [chemical binding]; other site 207559003873 phosphate binding motif [ion binding]; other site 207559003874 beta-alpha-beta structure motif; other site 207559003875 NAD binding pocket [chemical binding]; other site 207559003876 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 207559003877 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 207559003878 NAD(P) binding pocket [chemical binding]; other site 207559003879 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 207559003880 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003881 substrate binding pocket [chemical binding]; other site 207559003882 membrane-bound complex binding site; other site 207559003883 hinge residues; other site 207559003884 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559003885 dimer interface [polypeptide binding]; other site 207559003886 conserved gate region; other site 207559003887 putative PBP binding loops; other site 207559003888 ABC-ATPase subunit interface; other site 207559003889 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559003890 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559003891 Walker A/P-loop; other site 207559003892 ATP binding site [chemical binding]; other site 207559003893 Q-loop/lid; other site 207559003894 ABC transporter signature motif; other site 207559003895 Walker B; other site 207559003896 D-loop; other site 207559003897 H-loop/switch region; other site 207559003898 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 207559003899 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 207559003900 MPT binding site; other site 207559003901 trimer interface [polypeptide binding]; other site 207559003902 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003904 Zn2+ binding site [ion binding]; other site 207559003905 Mg2+ binding site [ion binding]; other site 207559003906 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 207559003907 UbiA prenyltransferase family; Region: UbiA; pfam01040 207559003908 hypothetical protein; Provisional; Region: PRK05255 207559003909 Transposase; Region: HTH_Tnp_1; pfam01527 207559003910 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559003911 putative transposase OrfB; Reviewed; Region: PHA02517 207559003912 HTH-like domain; Region: HTH_21; pfam13276 207559003913 Integrase core domain; Region: rve; pfam00665 207559003914 Integrase core domain; Region: rve_3; pfam13683 207559003915 HDOD domain; Region: HDOD; pfam08668 207559003916 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 207559003917 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 207559003918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003919 homodimer interface [polypeptide binding]; other site 207559003920 catalytic residue [active] 207559003921 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559003922 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 207559003923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559003924 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 207559003925 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 207559003926 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 207559003927 AIR carboxylase; Region: AIRC; smart01001 207559003928 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003930 active site 207559003931 phosphorylation site [posttranslational modification] 207559003932 intermolecular recognition site; other site 207559003933 dimerization interface [polypeptide binding]; other site 207559003934 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 207559003935 Walker A motif; other site 207559003936 ATP binding site [chemical binding]; other site 207559003937 Walker B motif; other site 207559003938 arginine finger; other site 207559003939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559003940 aconitate hydratase; Validated; Region: PRK07229 207559003941 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 207559003942 substrate binding site [chemical binding]; other site 207559003943 ligand binding site [chemical binding]; other site 207559003944 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 207559003945 substrate binding site [chemical binding]; other site 207559003946 periplasmic folding chaperone; Provisional; Region: PRK10788 207559003947 SurA N-terminal domain; Region: SurA_N_3; cl07813 207559003948 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 207559003949 replicative DNA helicase; Region: DnaB; TIGR00665 207559003950 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 207559003951 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 207559003952 Walker A motif; other site 207559003953 ATP binding site [chemical binding]; other site 207559003954 Walker B motif; other site 207559003955 DNA binding loops [nucleotide binding] 207559003956 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 207559003957 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 207559003958 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 207559003959 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 207559003960 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 207559003961 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 207559003962 OstA-like protein; Region: OstA; cl00844 207559003963 Organic solvent tolerance protein; Region: OstA_C; pfam04453 207559003964 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 207559003965 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 207559003966 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 207559003967 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 207559003968 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 207559003969 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 207559003970 Walker A/P-loop; other site 207559003971 ATP binding site [chemical binding]; other site 207559003972 Q-loop/lid; other site 207559003973 ABC transporter signature motif; other site 207559003974 Walker B; other site 207559003975 D-loop; other site 207559003976 H-loop/switch region; other site 207559003977 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 207559003978 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559003979 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559003980 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 207559003981 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 207559003982 PAS fold; Region: PAS_4; pfam08448 207559003983 putative active site [active] 207559003984 heme pocket [chemical binding]; other site 207559003985 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003986 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 207559003987 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 207559003988 Glucose inhibited division protein A; Region: GIDA; pfam01134 207559003989 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003990 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 207559003991 membrane-bound complex binding site; other site 207559003992 hinge residues; other site 207559003993 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 207559003994 putative homodimer interface [polypeptide binding]; other site 207559003995 putative active site pocket [active] 207559003996 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 207559003997 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 207559003998 trimer interface [polypeptide binding]; other site 207559003999 active site 207559004000 acetylornithine aminotransferase; Provisional; Region: PRK02627 207559004001 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 207559004002 inhibitor-cofactor binding pocket; inhibition site 207559004003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004004 catalytic residue [active] 207559004005 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559004006 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559004007 Walker A/P-loop; other site 207559004008 ATP binding site [chemical binding]; other site 207559004009 Q-loop/lid; other site 207559004010 ABC transporter signature motif; other site 207559004011 Walker B; other site 207559004012 D-loop; other site 207559004013 H-loop/switch region; other site 207559004014 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559004015 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 207559004016 substrate binding pocket [chemical binding]; other site 207559004017 membrane-bound complex binding site; other site 207559004018 hinge residues; other site 207559004019 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559004020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559004021 dimer interface [polypeptide binding]; other site 207559004022 conserved gate region; other site 207559004023 putative PBP binding loops; other site 207559004024 ABC-ATPase subunit interface; other site 207559004025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559004026 dimer interface [polypeptide binding]; other site 207559004027 conserved gate region; other site 207559004028 putative PBP binding loops; other site 207559004029 ABC-ATPase subunit interface; other site 207559004030 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 207559004031 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 207559004032 S-adenosylmethionine binding site [chemical binding]; other site 207559004033 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004034 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 207559004035 putative active site [active] 207559004036 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 207559004037 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559004038 minor groove reading motif; other site 207559004039 helix-hairpin-helix signature motif; other site 207559004040 substrate binding pocket [chemical binding]; other site 207559004041 active site 207559004042 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 207559004043 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 207559004044 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 207559004045 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559004046 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 207559004047 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 207559004048 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 207559004049 protein binding site [polypeptide binding]; other site 207559004050 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 207559004051 Catalytic dyad [active] 207559004052 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 207559004053 NodB motif; other site 207559004054 putative active site [active] 207559004055 putative catalytic site [active] 207559004056 Zn binding site [ion binding]; other site 207559004057 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 207559004058 active site 207559004059 multimer interface [polypeptide binding]; other site 207559004060 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 207559004061 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 207559004062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 207559004063 Smr domain; Region: Smr; pfam01713 207559004064 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 207559004065 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559004066 tandem repeat interface [polypeptide binding]; other site 207559004067 oligomer interface [polypeptide binding]; other site 207559004068 active site residues [active] 207559004069 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 207559004070 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 207559004071 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 207559004072 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 207559004073 Walker A/P-loop; other site 207559004074 ATP binding site [chemical binding]; other site 207559004075 Q-loop/lid; other site 207559004076 ABC transporter signature motif; other site 207559004077 Walker B; other site 207559004078 D-loop; other site 207559004079 H-loop/switch region; other site 207559004080 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 207559004081 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559004082 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 207559004083 RNA binding surface [nucleotide binding]; other site 207559004084 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559004085 active site 207559004086 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 207559004087 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 207559004088 CoA-binding site [chemical binding]; other site 207559004089 ATP-binding [chemical binding]; other site 207559004090 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559004091 active site 207559004092 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 207559004093 cytidylate kinase; Provisional; Region: cmk; PRK00023 207559004094 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 207559004095 CMP-binding site; other site 207559004096 The sites determining sugar specificity; other site 207559004097 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 207559004098 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 207559004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004100 homodimer interface [polypeptide binding]; other site 207559004101 catalytic residue [active] 207559004102 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 207559004103 Ligand Binding Site [chemical binding]; other site 207559004104 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 207559004105 S-adenosylmethionine binding site [chemical binding]; other site 207559004106 Competence-damaged protein; Region: CinA; pfam02464 207559004107 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559004108 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 207559004109 substrate binding pocket [chemical binding]; other site 207559004110 membrane-bound complex binding site; other site 207559004111 hinge residues; other site 207559004112 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 207559004113 active site 207559004114 catalytic motif [active] 207559004115 Zn binding site [ion binding]; other site 207559004116 PilZ domain; Region: PilZ; pfam07238 207559004117 Glucokinase; Region: Glucokinase; cl17310 207559004118 glucokinase, proteobacterial type; Region: glk; TIGR00749 207559004119 Uncharacterized conserved protein [Function unknown]; Region: COG0398 207559004120 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 207559004121 mercuric reductase; Validated; Region: PRK06370 207559004122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559004123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559004124 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 207559004125 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 207559004126 catalytic residues [active] 207559004127 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 207559004128 4-fold oligomerization interface [polypeptide binding]; other site 207559004129 putative active site pocket [active] 207559004130 metal binding residues [ion binding]; metal-binding site 207559004131 3-fold/trimer interface [polypeptide binding]; other site 207559004132 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 207559004133 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 207559004134 GMP synthase; Reviewed; Region: guaA; PRK00074 207559004135 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 207559004136 AMP/PPi binding site [chemical binding]; other site 207559004137 candidate oxyanion hole; other site 207559004138 catalytic triad [active] 207559004139 potential glutamine specificity residues [chemical binding]; other site 207559004140 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 207559004141 ATP Binding subdomain [chemical binding]; other site 207559004142 Ligand Binding sites [chemical binding]; other site 207559004143 Dimerization subdomain; other site 207559004144 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 207559004145 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 207559004146 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 207559004147 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 207559004148 active site 207559004149 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 207559004150 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 207559004151 binding surface 207559004152 TPR motif; other site 207559004153 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559004154 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559004155 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 207559004156 Walker A/P-loop; other site 207559004157 ATP binding site [chemical binding]; other site 207559004158 Q-loop/lid; other site 207559004159 ABC transporter signature motif; other site 207559004160 Walker B; other site 207559004161 D-loop; other site 207559004162 H-loop/switch region; other site 207559004163 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 207559004164 CcmE; Region: CcmE; cl00994 207559004165 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559004166 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004167 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 207559004168 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 207559004169 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 207559004170 active site 207559004171 motif I; other site 207559004172 motif II; other site 207559004173 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004174 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 207559004175 putative active site [active] 207559004176 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 207559004177 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 207559004178 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 207559004179 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559004180 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559004181 Probable Catalytic site; other site 207559004182 metal-binding site 207559004183 active site 207559004184 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 207559004185 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559004186 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 207559004187 active site 207559004188 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 207559004189 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 207559004190 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 207559004191 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 207559004192 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 207559004193 substrate binding site [chemical binding]; other site 207559004194 ATP binding site [chemical binding]; other site 207559004195 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 207559004196 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 207559004197 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559004198 minor groove reading motif; other site 207559004199 helix-hairpin-helix signature motif; other site 207559004200 substrate binding pocket [chemical binding]; other site 207559004201 active site 207559004202 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 207559004203 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 207559004204 RNase_H superfamily; Region: RNase_H_2; pfam13482 207559004205 active site 207559004206 catalytic site [active] 207559004207 substrate binding site [chemical binding]; other site 207559004208 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559004209 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559004210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004211 active site 207559004212 phosphorylation site [posttranslational modification] 207559004213 intermolecular recognition site; other site 207559004214 dimerization interface [polypeptide binding]; other site 207559004215 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559004216 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 207559004217 trimer interface [polypeptide binding]; other site 207559004218 active site 207559004219 substrate binding site [chemical binding]; other site 207559004220 CoA binding site [chemical binding]; other site 207559004221 S-adenosylmethionine synthetase; Validated; Region: PRK05250 207559004222 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 207559004223 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 207559004224 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 207559004225 Uncharacterized conserved protein [Function unknown]; Region: COG2928 207559004226 pantoate--beta-alanine ligase; Region: panC; TIGR00018 207559004227 Pantoate-beta-alanine ligase; Region: PanC; cd00560 207559004228 active site 207559004229 ATP-binding site [chemical binding]; other site 207559004230 pantoate-binding site; other site 207559004231 HXXH motif; other site 207559004232 GYF domain: contains conserved Gly-Tyr-Phe residues; Proline-binding domain in CD2-binding and other proteins. Involved in signaling lymphocyte activity. Also present in other unrelated proteins (mainly unknown) derived from diverse eukaryotic species; Region: GYF; cl00072 207559004233 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 207559004234 active site 207559004235 oligomerization interface [polypeptide binding]; other site 207559004236 metal binding site [ion binding]; metal-binding site 207559004237 flagellin; Provisional; Region: PRK12802 207559004238 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004239 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004240 flagellin; Provisional; Region: PRK12802 207559004241 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004242 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004243 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 207559004244 HD domain; Region: HD_3; cl17350 207559004245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559004246 active site 207559004247 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 207559004248 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 207559004249 putative ligand binding site [chemical binding]; other site 207559004250 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559004251 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 207559004252 TM-ABC transporter signature motif; other site 207559004253 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 207559004254 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 207559004255 TM-ABC transporter signature motif; other site 207559004256 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559004257 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 207559004258 Walker A/P-loop; other site 207559004259 ATP binding site [chemical binding]; other site 207559004260 Q-loop/lid; other site 207559004261 ABC transporter signature motif; other site 207559004262 Walker B; other site 207559004263 D-loop; other site 207559004264 H-loop/switch region; other site 207559004265 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 207559004266 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 207559004267 Cation efflux family; Region: Cation_efflux; pfam01545 207559004268 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 207559004269 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559004270 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559004271 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 207559004272 Walker A motif; other site 207559004273 ATP binding site [chemical binding]; other site 207559004274 Walker B motif; other site 207559004275 arginine finger; other site 207559004276 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559004277 dihydropteroate synthase; Region: DHPS; TIGR01496 207559004278 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 207559004279 substrate binding pocket [chemical binding]; other site 207559004280 dimer interface [polypeptide binding]; other site 207559004281 inhibitor binding site; inhibition site 207559004282 TIGR00159 family protein; Region: TIGR00159 207559004283 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 207559004284 YbbR-like protein; Region: YbbR; pfam07949 207559004285 YbbR-like protein; Region: YbbR; pfam07949 207559004286 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 207559004287 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 207559004288 active site 207559004289 substrate binding site [chemical binding]; other site 207559004290 metal binding site [ion binding]; metal-binding site 207559004291 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 207559004292 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 207559004293 active site 207559004294 tetramer interface; other site 207559004295 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559004296 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 207559004297 ATP binding site [chemical binding]; other site 207559004298 putative Mg++ binding site [ion binding]; other site 207559004299 helicase superfamily c-terminal domain; Region: HELICc; smart00490 207559004300 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004302 active site 207559004303 phosphorylation site [posttranslational modification] 207559004304 intermolecular recognition site; other site 207559004305 dimerization interface [polypeptide binding]; other site 207559004306 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004308 active site 207559004309 phosphorylation site [posttranslational modification] 207559004310 intermolecular recognition site; other site 207559004311 dimerization interface [polypeptide binding]; other site 207559004312 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559004313 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 207559004314 dimer interface [polypeptide binding]; other site 207559004315 phosphorylation site [posttranslational modification] 207559004316 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004317 ATP binding site [chemical binding]; other site 207559004318 Mg2+ binding site [ion binding]; other site 207559004319 G-X-G motif; other site 207559004320 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004322 active site 207559004323 phosphorylation site [posttranslational modification] 207559004324 intermolecular recognition site; other site 207559004325 dimerization interface [polypeptide binding]; other site 207559004326 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559004327 Winged helix-turn helix; Region: HTH_29; pfam13551 207559004328 Homeodomain-like domain; Region: HTH_32; pfam13565 207559004329 Integrase core domain; Region: rve; pfam00665 207559004330 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 207559004331 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 207559004332 flavoprotein, HI0933 family; Region: TIGR00275 207559004333 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559004334 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 207559004335 Cytochrome P450; Region: p450; cl12078 207559004336 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 207559004337 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 207559004338 G1 box; other site 207559004339 putative GEF interaction site [polypeptide binding]; other site 207559004340 GTP/Mg2+ binding site [chemical binding]; other site 207559004341 Switch I region; other site 207559004342 G2 box; other site 207559004343 G3 box; other site 207559004344 Switch II region; other site 207559004345 G4 box; other site 207559004346 G5 box; other site 207559004347 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 207559004348 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 207559004349 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559004350 purine nucleoside phosphorylase; Provisional; Region: PRK08202 207559004351 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 207559004352 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559004353 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 207559004354 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559004355 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004356 ligand binding site [chemical binding]; other site 207559004357 PilZ domain; Region: PilZ; pfam07238 207559004358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559004359 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 207559004360 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559004361 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 207559004362 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 207559004363 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 207559004364 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 207559004365 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 207559004366 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 207559004367 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 207559004368 dimer interface [polypeptide binding]; other site 207559004369 ssDNA binding site [nucleotide binding]; other site 207559004370 tetramer (dimer of dimers) interface [polypeptide binding]; other site 207559004371 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 207559004372 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 207559004373 Bacterial transcriptional regulator; Region: IclR; pfam01614 207559004374 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 207559004375 alanine racemase; Reviewed; Region: alr; PRK00053 207559004376 active site 207559004377 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559004378 dimer interface [polypeptide binding]; other site 207559004379 substrate binding site [chemical binding]; other site 207559004380 catalytic residues [active] 207559004381 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559004382 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 207559004383 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 207559004384 DctM-like transporters; Region: DctM; pfam06808 207559004385 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 207559004386 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 207559004387 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 207559004388 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559004389 PAS domain; Region: PAS; smart00091 207559004390 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 207559004391 Walker A motif; other site 207559004392 ATP binding site [chemical binding]; other site 207559004393 Walker B motif; other site 207559004394 arginine finger; other site 207559004395 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 207559004396 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 207559004397 hexamer interface [polypeptide binding]; other site 207559004398 ligand binding site [chemical binding]; other site 207559004399 putative active site [active] 207559004400 NAD(P) binding site [chemical binding]; other site 207559004401 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 207559004402 thiS-thiF/thiG interaction site; other site 207559004403 thiazole synthase; Reviewed; Region: thiG; PRK00208 207559004404 phosphate binding site [ion binding]; other site 207559004405 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 207559004406 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 207559004407 FeS/SAM binding site; other site 207559004408 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 207559004409 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 207559004410 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; cl17196 207559004411 ATP binding site [chemical binding]; other site 207559004412 substrate interface [chemical binding]; other site 207559004413 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 207559004414 thiamine phosphate binding site [chemical binding]; other site 207559004415 active site 207559004416 pyrophosphate binding site [ion binding]; other site 207559004417 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 207559004418 Transcriptional regulators [Transcription]; Region: MarR; COG1846 207559004419 MarR family; Region: MarR_2; pfam12802 207559004420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559004421 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559004422 WHG domain; Region: WHG; pfam13305 207559004423 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559004424 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559004425 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559004426 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 207559004427 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559004428 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 207559004429 ATP binding site [chemical binding]; other site 207559004430 putative Mg++ binding site [ion binding]; other site 207559004431 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 207559004432 nucleotide binding region [chemical binding]; other site 207559004433 ATP-binding site [chemical binding]; other site 207559004434 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 207559004435 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559004436 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004437 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004438 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559004440 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 207559004441 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 207559004442 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004443 Zn2+ binding site [ion binding]; other site 207559004444 Mg2+ binding site [ion binding]; other site 207559004445 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 207559004446 synthetase active site [active] 207559004447 NTP binding site [chemical binding]; other site 207559004448 metal binding site [ion binding]; metal-binding site 207559004449 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 207559004450 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 207559004451 flagellin; Provisional; Region: PRK12802 207559004452 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004453 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 207559004454 active site 207559004455 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004456 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559004457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004458 active site 207559004459 phosphorylation site [posttranslational modification] 207559004460 intermolecular recognition site; other site 207559004461 dimerization interface [polypeptide binding]; other site 207559004462 CheB methylesterase; Region: CheB_methylest; pfam01339 207559004463 HEAT repeats; Region: HEAT_2; pfam13646 207559004464 HEAT repeats; Region: HEAT_2; pfam13646 207559004465 HEAT repeats; Region: HEAT_2; pfam13646 207559004466 HEAT repeats; Region: HEAT_2; pfam13646 207559004467 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 207559004468 HEAT repeats; Region: HEAT_2; pfam13646 207559004469 protein binding surface [polypeptide binding]; other site 207559004470 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559004471 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 207559004472 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 207559004473 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559004474 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 207559004475 P-loop; other site 207559004476 Magnesium ion binding site [ion binding]; other site 207559004477 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 207559004478 Magnesium ion binding site [ion binding]; other site 207559004479 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559004480 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004482 active site 207559004483 phosphorylation site [posttranslational modification] 207559004484 intermolecular recognition site; other site 207559004485 dimerization interface [polypeptide binding]; other site 207559004486 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 207559004487 putative binding surface; other site 207559004488 active site 207559004489 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 207559004490 putative binding surface; other site 207559004491 active site 207559004492 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 207559004493 putative binding surface; other site 207559004494 active site 207559004495 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 207559004496 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559004497 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004498 ATP binding site [chemical binding]; other site 207559004499 Mg2+ binding site [ion binding]; other site 207559004500 G-X-G motif; other site 207559004501 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 207559004502 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559004503 Tetratricopeptide repeat; Region: TPR_6; pfam13174 207559004504 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 207559004505 DNA protecting protein DprA; Region: dprA; TIGR00732 207559004506 HDOD domain; Region: HDOD; pfam08668 207559004507 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004508 Zn2+ binding site [ion binding]; other site 207559004509 Mg2+ binding site [ion binding]; other site 207559004510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004511 active site 207559004512 phosphorylation site [posttranslational modification] 207559004513 intermolecular recognition site; other site 207559004514 dimerization interface [polypeptide binding]; other site 207559004515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004516 metal binding site [ion binding]; metal-binding site 207559004517 active site 207559004518 I-site; other site 207559004519 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559004520 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 207559004521 active site 207559004522 Int/Topo IB signature motif; other site 207559004523 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 207559004524 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 207559004525 FMN binding site [chemical binding]; other site 207559004526 substrate binding site [chemical binding]; other site 207559004527 putative catalytic residue [active] 207559004528 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 207559004529 Family description; Region: UvrD_C_2; pfam13538 207559004530 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 207559004531 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 207559004532 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 207559004533 active site 207559004534 ADP/pyrophosphate binding site [chemical binding]; other site 207559004535 dimerization interface [polypeptide binding]; other site 207559004536 allosteric effector site; other site 207559004537 fructose-1,6-bisphosphate binding site; other site 207559004538 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559004539 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559004540 Probable Catalytic site; other site 207559004541 metal-binding site 207559004542 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 207559004543 PSP1 C-terminal conserved region; Region: PSP1; cl00770 207559004544 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 207559004545 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 207559004546 active site 207559004547 HIGH motif; other site 207559004548 KMSKS motif; other site 207559004549 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 207559004550 anticodon binding site; other site 207559004551 tRNA binding surface [nucleotide binding]; other site 207559004552 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 207559004553 dimer interface [polypeptide binding]; other site 207559004554 putative tRNA-binding site [nucleotide binding]; other site 207559004555 Uncharacterized conserved protein [Function unknown]; Region: COG0398 207559004556 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 207559004557 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 207559004558 Ligand binding site; other site 207559004559 Putative Catalytic site; other site 207559004560 DXD motif; other site 207559004561 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559004562 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 207559004563 G1 box; other site 207559004564 GTP/Mg2+ binding site [chemical binding]; other site 207559004565 Switch I region; other site 207559004566 G2 box; other site 207559004567 G3 box; other site 207559004568 Switch II region; other site 207559004569 G4 box; other site 207559004570 G5 box; other site 207559004571 Nucleoside recognition; Region: Gate; pfam07670 207559004572 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559004573 Nucleoside recognition; Region: Gate; pfam07670 207559004574 FeoA domain; Region: FeoA; pfam04023 207559004575 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 207559004576 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 207559004577 N-terminal plug; other site 207559004578 ligand-binding site [chemical binding]; other site 207559004579 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559004581 Walker A/P-loop; other site 207559004582 ATP binding site [chemical binding]; other site 207559004583 Q-loop/lid; other site 207559004584 ABC transporter signature motif; other site 207559004585 Walker B; other site 207559004586 D-loop; other site 207559004587 H-loop/switch region; other site 207559004588 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004589 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 207559004590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559004591 Walker A/P-loop; other site 207559004592 ATP binding site [chemical binding]; other site 207559004593 Q-loop/lid; other site 207559004594 ABC transporter signature motif; other site 207559004595 Walker B; other site 207559004596 D-loop; other site 207559004597 H-loop/switch region; other site 207559004598 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_III; cd01996 207559004599 Ligand Binding Site [chemical binding]; other site 207559004600 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 207559004601 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 207559004602 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004603 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004604 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004605 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 207559004606 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004607 active site 207559004608 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004609 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 207559004610 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559004611 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 207559004612 S-adenosylmethionine binding site [chemical binding]; other site 207559004613 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 207559004614 NADP binding site [chemical binding]; other site 207559004615 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 207559004616 active site 207559004617 Condensation domain; Region: Condensation; pfam00668 207559004618 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004619 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004620 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 207559004621 acyl-activating enzyme (AAE) consensus motif; other site 207559004622 AMP binding site [chemical binding]; other site 207559004623 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 207559004624 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 207559004625 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 207559004626 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004627 active site 207559004628 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004629 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 207559004630 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 207559004631 Condensation domain; Region: Condensation; pfam00668 207559004632 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004633 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004634 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 207559004635 acyl-activating enzyme (AAE) consensus motif; other site 207559004636 AMP binding site [chemical binding]; other site 207559004637 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 207559004638 Condensation domain; Region: Condensation; pfam00668 207559004639 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004640 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004641 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 207559004642 acyl-activating enzyme (AAE) consensus motif; other site 207559004643 AMP binding site [chemical binding]; other site 207559004644 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 207559004645 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559004646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559004647 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559004648 DNA-binding site [nucleotide binding]; DNA binding site 207559004649 transcriptional regulator NanR; Provisional; Region: PRK03837 207559004650 FCD domain; Region: FCD; pfam07729 207559004651 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559004652 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 207559004653 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 207559004654 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 207559004655 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 207559004656 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 207559004657 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004658 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004659 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 207559004660 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 207559004661 catalytic triad [active] 207559004662 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559004663 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 207559004664 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 207559004665 putative metal binding site [ion binding]; other site 207559004666 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 207559004667 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 207559004668 ABC-ATPase subunit interface; other site 207559004669 dimer interface [polypeptide binding]; other site 207559004670 putative PBP binding regions; other site 207559004671 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559004672 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 207559004673 Walker A/P-loop; other site 207559004674 ATP binding site [chemical binding]; other site 207559004675 Q-loop/lid; other site 207559004676 ABC transporter signature motif; other site 207559004677 Walker B; other site 207559004678 D-loop; other site 207559004679 H-loop/switch region; other site 207559004680 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559004681 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559004682 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 207559004683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004684 dimer interface [polypeptide binding]; other site 207559004685 putative CheW interface [polypeptide binding]; other site 207559004686 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 207559004687 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 207559004688 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004689 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004690 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559004691 metal binding site [ion binding]; metal-binding site 207559004692 active site 207559004693 I-site; other site 207559004694 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004695 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 207559004696 putative active site [active] 207559004697 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 207559004698 TPR motif; other site 207559004699 binding surface 207559004700 TPR repeat; Region: TPR_11; pfam13414 207559004701 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004703 active site 207559004704 phosphorylation site [posttranslational modification] 207559004705 intermolecular recognition site; other site 207559004706 dimerization interface [polypeptide binding]; other site 207559004707 PAS domain; Region: PAS; smart00091 207559004708 PAS domain; Region: PAS_9; pfam13426 207559004709 PAS domain; Region: PAS; smart00091 207559004710 PAS fold; Region: PAS; pfam00989 207559004711 putative active site [active] 207559004712 heme pocket [chemical binding]; other site 207559004713 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559004714 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004715 metal binding site [ion binding]; metal-binding site 207559004716 active site 207559004717 I-site; other site 207559004718 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 207559004719 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 207559004720 active site 207559004721 (T/H)XGH motif; other site 207559004722 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 207559004723 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 207559004724 putative catalytic cysteine [active] 207559004725 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 207559004726 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 207559004727 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 207559004728 Walker A motif; other site 207559004729 ATP binding site [chemical binding]; other site 207559004730 Walker B motif; other site 207559004731 arginine finger; other site 207559004732 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559004733 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 207559004734 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559004735 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 207559004736 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559004737 TPP-binding site [chemical binding]; other site 207559004738 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 207559004739 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 207559004740 dimer interface [polypeptide binding]; other site 207559004741 PYR/PP interface [polypeptide binding]; other site 207559004742 TPP binding site [chemical binding]; other site 207559004743 substrate binding site [chemical binding]; other site 207559004744 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559004745 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559004746 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559004747 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 207559004748 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 207559004749 AMIN domain; Region: AMIN; pfam11741 207559004750 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 207559004751 DAK2 domain; Region: Dak2; pfam02734 207559004752 EDD domain protein, DegV family; Region: DegV; TIGR00762 207559004753 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 207559004754 intracellular protease, PfpI family; Region: PfpI; TIGR01382 207559004755 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 207559004756 proposed catalytic triad [active] 207559004757 conserved cys residue [active] 207559004758 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004759 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004760 putative substrate translocation pore; other site 207559004761 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559004762 Winged helix-turn helix; Region: HTH_29; pfam13551 207559004763 Homeodomain-like domain; Region: HTH_32; pfam13565 207559004764 Integrase core domain; Region: rve; pfam00665 207559004765 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 207559004766 dimerization interface [polypeptide binding]; other site 207559004767 PAS domain; Region: PAS_9; pfam13426 207559004768 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004769 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004770 dimer interface [polypeptide binding]; other site 207559004771 putative CheW interface [polypeptide binding]; other site 207559004772 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 207559004773 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 207559004774 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 207559004775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004776 Zn2+ binding site [ion binding]; other site 207559004777 Mg2+ binding site [ion binding]; other site 207559004778 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 207559004779 PhoH-like protein; Region: PhoH; pfam02562 207559004780 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559004781 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 207559004782 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 207559004783 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 207559004784 tetramer interface [polypeptide binding]; other site 207559004785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004786 catalytic residue [active] 207559004787 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 207559004788 putative active site [active] 207559004789 putative metal binding site [ion binding]; other site 207559004790 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 207559004791 chaperone protein DnaJ; Provisional; Region: PRK14299 207559004792 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 207559004793 HSP70 interaction site [polypeptide binding]; other site 207559004794 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 207559004795 substrate binding site [polypeptide binding]; other site 207559004796 dimer interface [polypeptide binding]; other site 207559004797 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 207559004798 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559004799 DNA binding residues [nucleotide binding] 207559004800 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 207559004801 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004802 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004803 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 207559004804 Walker A motif; other site 207559004805 ATP binding site [chemical binding]; other site 207559004806 Walker B motif; other site 207559004807 arginine finger; other site 207559004808 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 207559004809 Walker A motif; other site 207559004810 ATP binding site [chemical binding]; other site 207559004811 Walker B motif; other site 207559004812 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559004813 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 207559004814 substrate binding site [chemical binding]; other site 207559004815 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 207559004816 Aspartase; Region: Aspartase; cd01357 207559004817 active sites [active] 207559004818 tetramer interface [polypeptide binding]; other site 207559004819 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 207559004820 Cache domain; Region: Cache_1; pfam02743 207559004821 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 207559004822 dimerization interface [polypeptide binding]; other site 207559004823 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 207559004824 PAS domain; Region: PAS_9; pfam13426 207559004825 putative active site [active] 207559004826 heme pocket [chemical binding]; other site 207559004827 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004828 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004829 dimer interface [polypeptide binding]; other site 207559004830 putative CheW interface [polypeptide binding]; other site 207559004831 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 207559004832 binding surface 207559004833 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559004834 TPR motif; other site 207559004835 TPR repeat; Region: TPR_11; pfam13414 207559004836 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 207559004837 putative binding surface; other site 207559004838 active site 207559004839 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 207559004840 Walker A motif; other site 207559004841 homodimer interface [polypeptide binding]; other site 207559004842 ATP binding site [chemical binding]; other site 207559004843 hydroxycobalamin binding site [chemical binding]; other site 207559004844 Walker B motif; other site 207559004845 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 207559004846 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 207559004847 FeS/SAM binding site; other site 207559004848 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 207559004849 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 207559004850 dimerization interface [polypeptide binding]; other site 207559004851 putative ATP binding site [chemical binding]; other site 207559004852 putative transposase OrfB; Reviewed; Region: PHA02517 207559004853 Integrase core domain; Region: rve; pfam00665 207559004854 Integrase core domain; Region: rve_3; pfam13683 207559004855 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 207559004856 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559004857 FeS/SAM binding site; other site 207559004858 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 207559004859 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 207559004860 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 207559004861 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 207559004862 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 207559004863 putative ligand binding site [chemical binding]; other site 207559004864 putative NAD binding site [chemical binding]; other site 207559004865 catalytic site [active] 207559004866 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 207559004867 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 207559004868 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 207559004869 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559004870 PAS domain; Region: PAS; smart00091 207559004871 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 207559004872 phosphorylation site [posttranslational modification] 207559004873 dimer interface [polypeptide binding]; other site 207559004874 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004875 ATP binding site [chemical binding]; other site 207559004876 Mg2+ binding site [ion binding]; other site 207559004877 G-X-G motif; other site 207559004878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559004879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004880 active site 207559004881 phosphorylation site [posttranslational modification] 207559004882 intermolecular recognition site; other site 207559004883 dimerization interface [polypeptide binding]; other site 207559004884 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 207559004885 Walker A motif; other site 207559004886 ATP binding site [chemical binding]; other site 207559004887 Walker B motif; other site 207559004888 arginine finger; other site 207559004889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559004890 Hpt domain; Region: Hpt; pfam01627 207559004891 methylamine methyltransferase corrinoid protein reductive activase; Region: Rama_corrin_act; TIGR04270 207559004892 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 207559004893 metal ion-dependent adhesion site (MIDAS); other site 207559004894 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 207559004895 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004896 ligand binding site [chemical binding]; other site 207559004897 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 207559004898 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 207559004899 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559004900 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559004901 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 207559004902 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004903 catalytic residue [active] 207559004904 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 207559004905 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 207559004906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004907 catalytic residue [active] 207559004908 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 207559004909 lipoyl attachment site [posttranslational modification]; other site 207559004910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004911 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004912 active site 207559004913 phosphorylation site [posttranslational modification] 207559004914 intermolecular recognition site; other site 207559004915 dimerization interface [polypeptide binding]; other site 207559004916 phosphoglucomutase; Validated; Region: PRK07564 207559004917 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 207559004918 active site 207559004919 substrate binding site [chemical binding]; other site 207559004920 metal binding site [ion binding]; metal-binding site 207559004921 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 207559004922 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 207559004923 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559004924 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 207559004925 dimer interface [polypeptide binding]; other site 207559004926 phosphorylation site [posttranslational modification] 207559004927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004928 ATP binding site [chemical binding]; other site 207559004929 Mg2+ binding site [ion binding]; other site 207559004930 G-X-G motif; other site 207559004931 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004933 active site 207559004934 phosphorylation site [posttranslational modification] 207559004935 intermolecular recognition site; other site 207559004936 dimerization interface [polypeptide binding]; other site 207559004937 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 207559004938 putative binding surface; other site 207559004939 active site 207559004940 GTP-binding protein YchF; Reviewed; Region: PRK09601 207559004941 YchF GTPase; Region: YchF; cd01900 207559004942 G1 box; other site 207559004943 GTP/Mg2+ binding site [chemical binding]; other site 207559004944 Switch I region; other site 207559004945 G2 box; other site 207559004946 Switch II region; other site 207559004947 G3 box; other site 207559004948 G4 box; other site 207559004949 G5 box; other site 207559004950 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 207559004951 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004952 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559004953 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004954 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004955 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004956 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 207559004957 putative binding surface; other site 207559004958 active site 207559004959 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 207559004960 anti sigma factor interaction site; other site 207559004961 regulatory phosphorylation site [posttranslational modification]; other site 207559004962 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 207559004963 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 207559004964 FeS/SAM binding site; other site 207559004965 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 207559004966 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 207559004967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004968 putative substrate translocation pore; other site 207559004969 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004970 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559004971 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 207559004972 DRTGG domain; Region: DRTGG; pfam07085 207559004973 ribonuclease III; Reviewed; Region: rnc; PRK00102 207559004974 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 207559004975 dimerization interface [polypeptide binding]; other site 207559004976 active site 207559004977 metal binding site [ion binding]; metal-binding site 207559004978 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 207559004979 dsRNA binding site [nucleotide binding]; other site 207559004980 flagellin; Provisional; Region: PRK12802 207559004981 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004982 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004983 FlaG protein; Region: FlaG; pfam03646 207559004984 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 207559004985 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559004986 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 207559004987 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 207559004988 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 207559004989 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 207559004990 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 207559004991 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 207559004992 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004993 putative active site [active] 207559004994 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559004995 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 207559004996 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 207559004997 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 207559004998 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004999 ligand binding site [chemical binding]; other site 207559005000 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559005001 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559005002 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 207559005003 anti sigma factor interaction site; other site 207559005004 regulatory phosphorylation site [posttranslational modification]; other site 207559005005 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559005006 Transposase domain (DUF772); Region: DUF772; pfam05598 207559005007 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559005008 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 207559005009 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559005010 Response regulator receiver domain; Region: Response_reg; pfam00072 207559005011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005012 active site 207559005013 phosphorylation site [posttranslational modification] 207559005014 intermolecular recognition site; other site 207559005015 dimerization interface [polypeptide binding]; other site 207559005016 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 207559005017 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 207559005018 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 207559005019 putative active site [active] 207559005020 dimerization interface [polypeptide binding]; other site 207559005021 putative tRNAtyr binding site [nucleotide binding]; other site 207559005022 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 207559005023 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 207559005024 acyl-activating enzyme (AAE) consensus motif; other site 207559005025 putative AMP binding site [chemical binding]; other site 207559005026 putative active site [active] 207559005027 putative CoA binding site [chemical binding]; other site 207559005028 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 207559005029 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 207559005030 substrate binding site; other site 207559005031 dimer interface; other site 207559005032 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 207559005033 homotrimer interaction site [polypeptide binding]; other site 207559005034 zinc binding site [ion binding]; other site 207559005035 CDP-binding sites; other site 207559005036 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 207559005037 Putative zinc ribbon domain; Region: DUF164; pfam02591 207559005038 Uncharacterized conserved protein [Function unknown]; Region: COG0327 207559005039 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 207559005040 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 207559005041 Int/Topo IB signature motif; other site 207559005042 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 207559005043 BRO family, N-terminal domain; Region: Bro-N; smart01040 207559005044 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559005045 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559005046 catalytic residues [active] 207559005047 catalytic nucleophile [active] 207559005048 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559005049 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559005050 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559005051 Synaptic Site I dimer interface [polypeptide binding]; other site 207559005052 DNA binding site [nucleotide binding] 207559005053 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559005054 DNA-binding interface [nucleotide binding]; DNA binding site 207559005055 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 207559005056 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559005057 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559005058 putative dimer interface [polypeptide binding]; other site 207559005059 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559005060 Prophage antirepressor [Transcription]; Region: COG3617 207559005061 BRO family, N-terminal domain; Region: Bro-N; smart01040 207559005062 Restriction endonuclease [Defense mechanisms]; Region: COG3587 207559005063 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 207559005064 ATP binding site [chemical binding]; other site 207559005065 putative Mg++ binding site [ion binding]; other site 207559005066 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; cl00083 207559005067 Transposase; Region: HTH_Tnp_1; pfam01527 207559005068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559005069 putative transposase OrfB; Reviewed; Region: PHA02517 207559005070 HTH-like domain; Region: HTH_21; pfam13276 207559005071 Integrase core domain; Region: rve; pfam00665 207559005072 Integrase core domain; Region: rve_3; pfam13683 207559005073 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 207559005074 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 207559005075 putative active site [active] 207559005076 catalytic site [active] 207559005077 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559005078 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 207559005079 ATP binding site [chemical binding]; other site 207559005080 putative Mg++ binding site [ion binding]; other site 207559005081 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 207559005082 nucleotide binding region [chemical binding]; other site 207559005083 ATP-binding site [chemical binding]; other site 207559005084 HAMP domain; Region: HAMP; pfam00672 207559005085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559005086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559005087 dimer interface [polypeptide binding]; other site 207559005088 putative CheW interface [polypeptide binding]; other site 207559005089 Heme NO binding; Region: HNOB; pfam07700 207559005090 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 207559005091 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 207559005092 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 207559005093 dimerization interface [polypeptide binding]; other site 207559005094 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559005095 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559005096 dimer interface [polypeptide binding]; other site 207559005097 putative CheW interface [polypeptide binding]; other site 207559005098 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 207559005099 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 207559005100 phosphoglyceromutase; Provisional; Region: PRK05434 207559005101 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 207559005102 Na2 binding site [ion binding]; other site 207559005103 putative substrate binding site 1 [chemical binding]; other site 207559005104 Na binding site 1 [ion binding]; other site 207559005105 putative substrate binding site 2 [chemical binding]; other site 207559005106 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 207559005107 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 207559005108 putative active site [active] 207559005109 catalytic triad [active] 207559005110 CTP synthetase; Validated; Region: pyrG; PRK05380 207559005111 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 207559005112 Catalytic site [active] 207559005113 active site 207559005114 UTP binding site [chemical binding]; other site 207559005115 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 207559005116 active site 207559005117 putative oxyanion hole; other site 207559005118 catalytic triad [active] 207559005119 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 207559005120 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 207559005121 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 207559005122 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 207559005123 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 207559005124 OstA-like protein; Region: OstA; pfam03968 207559005125 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 207559005126 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 207559005127 Walker A/P-loop; other site 207559005128 ATP binding site [chemical binding]; other site 207559005129 Q-loop/lid; other site 207559005130 ABC transporter signature motif; other site 207559005131 Walker B; other site 207559005132 D-loop; other site 207559005133 H-loop/switch region; other site 207559005134 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 207559005135 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 207559005136 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 207559005137 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 207559005138 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 207559005139 30S subunit binding site; other site 207559005140 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 207559005141 active site 207559005142 phosphorylation site [posttranslational modification] 207559005143 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 207559005144 PTS_IIA, PTS system, mannose/sorbose 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 family...; Region: PTS_IIA_man; cd00006 207559005145 active pocket/dimerization site; other site 207559005146 active site 207559005147 phosphorylation site [posttranslational modification] 207559005148 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 207559005149 active site 207559005150 phosphorylation site [posttranslational modification] 207559005151 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 207559005152 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 207559005153 DHHA2 domain; Region: DHHA2; pfam02833 207559005154 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 207559005155 nucleoside/Zn binding site; other site 207559005156 dimer interface [polypeptide binding]; other site 207559005157 catalytic motif [active] 207559005158 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 207559005159 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 207559005160 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 207559005161 Beta-Casp domain; Region: Beta-Casp; smart01027 207559005162 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559005163 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 207559005164 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 207559005165 S-adenosylmethionine binding site [chemical binding]; other site 207559005166 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 207559005167 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 207559005168 active site 207559005169 (T/H)XGH motif; other site 207559005170 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 207559005171 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 207559005172 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 207559005173 binding surface 207559005174 TPR motif; other site 207559005175 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 207559005176 Stage II sporulation protein; Region: SpoIID; pfam08486 207559005177 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 207559005178 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 207559005179 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 207559005180 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 207559005181 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559005182 catalytic residue [active] 207559005183 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 207559005184 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 207559005185 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 207559005186 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 207559005187 Active Sites [active] 207559005188 alanyl-tRNA synthetase; Region: A-tRNA_syn_arch; TIGR03683 207559005189 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 207559005190 Ferritin-like domain; Region: Ferritin; pfam00210 207559005191 ferroxidase diiron center [ion binding]; other site 207559005192 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 207559005193 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 207559005194 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 207559005195 dimer interface [polypeptide binding]; other site 207559005196 PYR/PP interface [polypeptide binding]; other site 207559005197 TPP binding site [chemical binding]; other site 207559005198 substrate binding site [chemical binding]; other site 207559005199 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 207559005200 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 207559005201 TPP-binding site [chemical binding]; other site 207559005202 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 207559005203 DsrE/DsrF-like family; Region: DrsE; pfam02635 207559005204 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 207559005205 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 207559005206 putative active site [active] 207559005207 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 207559005208 dihydrodipicolinate synthase; Region: dapA; TIGR00674 207559005209 dimer interface [polypeptide binding]; other site 207559005210 active site 207559005211 catalytic residue [active] 207559005212 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 207559005213 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 207559005214 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 207559005215 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 207559005216 IHF - DNA interface [nucleotide binding]; other site 207559005217 IHF dimer interface [polypeptide binding]; other site 207559005218 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559005219 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 207559005220 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 207559005221 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559005222 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005223 metal binding site [ion binding]; metal-binding site 207559005224 active site 207559005225 I-site; other site 207559005226 Transposase domain (DUF772); Region: DUF772; pfam05598 207559005227 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559005228 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559005229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005230 peptide chain release factor 2; Validated; Region: prfB; PRK00578 207559005231 This domain is found in peptide chain release factors; Region: PCRF; smart00937 207559005232 RF-1 domain; Region: RF-1; pfam00472 207559005233 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 207559005234 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 207559005235 putative active site [active] 207559005236 catalytic triad [active] 207559005237 putative dimer interface [polypeptide binding]; other site 207559005238 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005239 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 207559005240 Transporter associated domain; Region: CorC_HlyC; smart01091 207559005241 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 207559005242 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 207559005243 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 207559005244 diaminopimelate aminotransferase; Provisional; Region: PRK13983 207559005245 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 207559005246 metal binding site [ion binding]; metal-binding site 207559005247 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 207559005248 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 207559005249 active site 207559005250 putative substrate binding pocket [chemical binding]; other site 207559005251 Esterase/lipase [General function prediction only]; Region: COG1647 207559005252 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559005253 4Fe-4S binding domain; Region: Fer4; pfam00037 207559005254 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 207559005255 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 207559005256 active site 207559005257 FMN binding site [chemical binding]; other site 207559005258 substrate binding site [chemical binding]; other site 207559005259 3Fe-4S cluster binding site [ion binding]; other site 207559005260 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 207559005261 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 207559005262 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 207559005263 putative active site [active] 207559005264 Archaeal-type gltB domain. This domain shares sequence similarity with a region of unknown function found in the large subunit of glutamate synthase, which is encoded by gltB and found in most bacteria and eukaryotes. It is predicted to be homologous to...; Region: arch_gltB; cd00981 207559005265 putative subunit interface; other site 207559005266 Preprotein translocase subunit; Region: YajC; pfam02699 207559005267 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 207559005268 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 207559005269 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 207559005270 Protein export membrane protein; Region: SecD_SecF; pfam02355 207559005271 Cytochrome c; Region: Cytochrom_C; cl11414 207559005272 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 207559005273 Cu(I) binding site [ion binding]; other site 207559005274 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 207559005275 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 207559005276 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 207559005277 Subunit I/III interface [polypeptide binding]; other site 207559005278 caa(3)-type oxidase, subunit IV; Region: caa3_sub_IV; TIGR02229 207559005279 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 207559005280 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 207559005281 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 207559005282 Cytochrome c; Region: Cytochrom_C; pfam00034 207559005283 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 207559005284 UbiA prenyltransferase family; Region: UbiA; pfam01040 207559005285 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 207559005286 L-aspartate oxidase; Provisional; Region: PRK06175 207559005287 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 207559005288 quinolinate synthetase; Provisional; Region: PRK09375 207559005289 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 207559005290 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 207559005291 dimerization interface [polypeptide binding]; other site 207559005292 active site 207559005293 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 207559005294 MgtE intracellular N domain; Region: MgtE_N; smart00924 207559005295 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 207559005296 Divalent cation transporter; Region: MgtE; cl00786 207559005297 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 207559005298 GAF domain; Region: GAF; cl17456 207559005299 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559005300 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005301 metal binding site [ion binding]; metal-binding site 207559005302 active site 207559005303 I-site; other site 207559005304 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 207559005305 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559005306 This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis; Region: GT1_wcfI_like; cd03825 207559005307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559005308 Lipase (class 2); Region: Lipase_2; pfam01674 207559005309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 207559005310 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 207559005311 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 207559005312 malonic semialdehyde reductase; Provisional; Region: PRK10538 207559005313 putative NAD(P) binding site [chemical binding]; other site 207559005314 homodimer interface [polypeptide binding]; other site 207559005315 homotetramer interface [polypeptide binding]; other site 207559005316 active site 207559005317 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559005318 Cysteine-rich domain; Region: CCG; pfam02754 207559005319 Cysteine-rich domain; Region: CCG; pfam02754 207559005320 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559005321 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 207559005322 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 207559005323 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 207559005324 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 207559005325 amino acid carrier protein; Region: agcS; TIGR00835 207559005326 PilZ domain; Region: PilZ; pfam07238 207559005327 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 207559005328 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559005329 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 207559005330 metal binding site [ion binding]; metal-binding site 207559005331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559005332 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 207559005333 putative ADP-binding pocket [chemical binding]; other site 207559005334 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 207559005335 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559005336 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559005337 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559005338 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 207559005339 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 207559005340 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559005341 Protein of unknown function (DUF511); Region: DUF511; cl01114 207559005342 Restriction endonuclease; Region: Mrr_cat; pfam04471 207559005343 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559005344 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559005345 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 207559005346 ATP binding site [chemical binding]; other site 207559005347 putative Mg++ binding site [ion binding]; other site 207559005348 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559005349 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559005350 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559005351 Methyltransferase domain; Region: Methyltransf_26; pfam13659 207559005352 DNA binding domain, excisionase family; Region: excise; TIGR01764 207559005353 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 207559005354 putative active site pocket [active] 207559005355 dimerization interface [polypeptide binding]; other site 207559005356 putative catalytic residue [active] 207559005357 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cd00352 207559005358 active site 207559005359 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 207559005360 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559005361 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 207559005362 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 207559005363 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 207559005364 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 207559005365 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 207559005366 PAAR motif; Region: PAAR_motif; pfam05488 207559005367 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 207559005368 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559005369 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559005370 Phage protein D [General function prediction only]; Region: COG3500 207559005371 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 207559005372 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559005373 Phage-related protein [Function unknown]; Region: COG5412 207559005374 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 207559005375 tail sheath protein; Provisional; Region: 18; PHA02539 207559005376 tail sheath protein; Provisional; Region: 18; PHA02539 207559005377 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 207559005378 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559005379 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559005380 putative active site [active] 207559005381 putative metal binding site [ion binding]; other site 207559005382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559005384 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 207559005385 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 207559005386 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559005387 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 207559005388 motif II; other site 207559005389 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 207559005390 Dihaem cytochrome c; Region: DHC; pfam09626 207559005391 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 207559005392 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559005393 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 207559005394 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559005395 Phage portal protein; Region: Phage_portal; pfam04860 207559005396 Terminase-like family; Region: Terminase_6; pfam03237 207559005397 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 207559005398 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559005399 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 207559005400 active site 207559005401 DNA binding site [nucleotide binding] 207559005402 Int/Topo IB signature motif; other site 207559005403 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 207559005404 RloB-like protein; Region: RloB; pfam13707 207559005405 Predicted ATPases [General function prediction only]; Region: COG1106 207559005406 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559005407 CHC2 zinc finger; Region: zf-CHC2; cl17510 207559005408 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559005409 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 207559005410 active site 207559005411 metal binding site [ion binding]; metal-binding site 207559005412 interdomain interaction site; other site 207559005413 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 207559005414 AAA domain; Region: AAA_30; pfam13604 207559005415 Family description; Region: UvrD_C_2; pfam13538 207559005416 ERCC4 domain; Region: ERCC4; smart00891 207559005417 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559005418 AAA domain; Region: AAA_24; pfam13479 207559005419 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 207559005420 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559005421 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 207559005422 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 207559005423 LexA repressor; Validated; Region: PRK00215 207559005424 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 207559005425 Catalytic site [active] 207559005426 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559005427 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559005428 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559005429 catalytic residues [active] 207559005430 catalytic nucleophile [active] 207559005431 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559005432 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559005433 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559005434 Synaptic Site I dimer interface [polypeptide binding]; other site 207559005435 DNA binding site [nucleotide binding] 207559005436 Recombinase; Region: Recombinase; pfam07508 207559005437 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559005438 Response regulator receiver domain; Region: Response_reg; pfam00072 207559005439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005440 active site 207559005441 phosphorylation site [posttranslational modification] 207559005442 intermolecular recognition site; other site 207559005443 dimerization interface [polypeptide binding]; other site 207559005444 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 207559005445 dimer interface [polypeptide binding]; other site 207559005446 phosphorylation site [posttranslational modification] 207559005447 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559005448 ATP binding site [chemical binding]; other site 207559005449 Mg2+ binding site [ion binding]; other site 207559005450 G-X-G motif; other site 207559005451 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559005452 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005453 active site 207559005454 phosphorylation site [posttranslational modification] 207559005455 intermolecular recognition site; other site 207559005456 dimerization interface [polypeptide binding]; other site 207559005457 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559005458 Zn2+ binding site [ion binding]; other site 207559005459 Mg2+ binding site [ion binding]; other site 207559005460 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559005461 Winged helix-turn helix; Region: HTH_29; pfam13551 207559005462 Homeodomain-like domain; Region: HTH_32; pfam13565 207559005463 Integrase core domain; Region: rve; pfam00665 207559005464 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 207559005465 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 207559005466 Predicted permeases [General function prediction only]; Region: COG0795 207559005467 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 207559005468 Predicted permeases [General function prediction only]; Region: COG0795 207559005469 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 207559005470 G1 box; other site 207559005471 GTP/Mg2+ binding site [chemical binding]; other site 207559005472 Switch I region; other site 207559005473 G2 box; other site 207559005474 G3 box; other site 207559005475 Switch II region; other site 207559005476 G4 box; other site 207559005477 G5 box; other site 207559005478 Dehydroquinase class II; Region: DHquinase_II; pfam01220 207559005479 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 207559005480 trimer interface [polypeptide binding]; other site 207559005481 active site 207559005482 dimer interface [polypeptide binding]; other site 207559005483 elongation factor P; Validated; Region: PRK00529 207559005484 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 207559005485 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 207559005486 RNA binding site [nucleotide binding]; other site 207559005487 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 207559005488 RNA binding site [nucleotide binding]; other site 207559005489 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 207559005490 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 207559005491 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 207559005492 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 207559005493 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 207559005494 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 207559005495 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 207559005496 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 207559005497 active site 207559005498 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 207559005499 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 207559005500 CPxP motif; other site 207559005501 DsrE/DsrF-like family; Region: DrsE; pfam02635 207559005502 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 207559005503 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 207559005504 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 207559005505 Walker A/P-loop; other site 207559005506 ATP binding site [chemical binding]; other site 207559005507 Q-loop/lid; other site 207559005508 ABC transporter signature motif; other site 207559005509 Walker B; other site 207559005510 D-loop; other site 207559005511 H-loop/switch region; other site 207559005512 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 207559005513 putative acyl-acceptor binding pocket; other site 207559005514 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 207559005515 putative acyl-acceptor binding pocket; other site 207559005516 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 207559005517 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 207559005518 catalytic center binding site [active] 207559005519 ATP binding site [chemical binding]; other site 207559005520 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 207559005521 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 207559005522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559005523 homodimer interface [polypeptide binding]; other site 207559005524 catalytic residue [active] 207559005525 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 207559005526 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 207559005527 active site 207559005528 Int/Topo IB signature motif; other site 207559005529 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559005530 DHH family; Region: DHH; pfam01368 207559005531 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005532 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 207559005533 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 207559005534 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 207559005535 active site 207559005536 NTP binding site [chemical binding]; other site 207559005537 metal binding triad [ion binding]; metal-binding site 207559005538 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559005539 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 207559005540 nucleotide binding site/active site [active] 207559005541 HIT family signature motif; other site 207559005542 catalytic residue [active] 207559005543 tetratricopeptide repeat protein; Provisional; Region: PRK11788 207559005544 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 207559005545 TPR motif; other site 207559005546 binding surface 207559005547 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 207559005548 binding surface 207559005549 TPR motif; other site 207559005550 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 207559005551 MutS domain I; Region: MutS_I; pfam01624 207559005552 MutS domain II; Region: MutS_II; pfam05188 207559005553 MutS domain III; Region: MutS_III; pfam05192 207559005554 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 207559005555 Walker A/P-loop; other site 207559005556 ATP binding site [chemical binding]; other site 207559005557 Q-loop/lid; other site 207559005558 ABC transporter signature motif; other site 207559005559 Walker B; other site 207559005560 D-loop; other site 207559005561 H-loop/switch region; other site 207559005562 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559005563 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559005564 active site 207559005565 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559005566 substrate binding site [chemical binding]; other site 207559005567 catalytic residues [active] 207559005568 dimer interface [polypeptide binding]; other site 207559005569 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 207559005570 active site 207559005571 dimer interfaces [polypeptide binding]; other site 207559005572 catalytic residues [active] 207559005573 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 207559005574 Predicted transcriptional regulator [Transcription]; Region: COG2932 207559005575 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 207559005576 Catalytic site [active] 207559005577 Protein of unknown function (DUF330); Region: DUF330; pfam03886 207559005578 paraquat-inducible protein B; Provisional; Region: PRK10807 207559005579 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559005580 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 207559005581 Walker A/P-loop; other site 207559005582 ATP binding site [chemical binding]; other site 207559005583 Q-loop/lid; other site 207559005584 ABC transporter signature motif; other site 207559005585 Walker B; other site 207559005586 D-loop; other site 207559005587 H-loop/switch region; other site 207559005588 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 207559005589 Permease; Region: Permease; pfam02405 207559005590 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 207559005591 active site 207559005592 Preprotein translocase SecG subunit; Region: SecG; pfam03840 207559005593 triosephosphate isomerase; Provisional; Region: PRK14567 207559005594 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 207559005595 substrate binding site [chemical binding]; other site 207559005596 dimer interface [polypeptide binding]; other site 207559005597 catalytic triad [active] 207559005598 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 207559005599 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559005600 Coenzyme A binding pocket [chemical binding]; other site 207559005601 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 207559005602 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_34; cd04693 207559005603 nudix motif; other site 207559005604 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 207559005605 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 207559005606 active site 207559005607 dimerization interface [polypeptide binding]; other site 207559005608 rod shape-determining protein MreB; Provisional; Region: PRK13930 207559005609 MreB and similar proteins; Region: MreB_like; cd10225 207559005610 nucleotide binding site [chemical binding]; other site 207559005611 Mg binding site [ion binding]; other site 207559005612 putative protofilament interaction site [polypeptide binding]; other site 207559005613 RodZ interaction site [polypeptide binding]; other site 207559005614 GAF domain; Region: GAF; pfam01590 207559005615 GAF domain; Region: GAF_2; pfam13185 207559005616 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559005617 GAF domain; Region: GAF_3; pfam13492 207559005618 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 207559005619 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 207559005620 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 207559005621 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 207559005622 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559005623 Walker A motif; other site 207559005624 ATP binding site [chemical binding]; other site 207559005625 Walker B motif; other site 207559005626 recombination factor protein RarA; Provisional; Region: PRK14700 207559005627 arginine finger; other site 207559005628 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 207559005629 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 207559005630 active site 207559005631 outer membrane lipoprotein; Provisional; Region: PRK11023 207559005632 BON domain; Region: BON; pfam04972 207559005633 BON domain; Region: BON; pfam04972 207559005634 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 207559005635 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559005636 putative acyl-acceptor binding pocket; other site 207559005637 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005638 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559005639 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 207559005640 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 207559005641 active site 207559005642 HIGH motif; other site 207559005643 nucleotide binding site [chemical binding]; other site 207559005644 active site 207559005645 KMSKS motif; other site 207559005646 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 207559005647 AAA domain; Region: AAA_32; pfam13654 207559005648 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559005649 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559005650 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 207559005651 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 207559005652 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 207559005653 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 207559005654 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 207559005655 RNA binding site [nucleotide binding]; other site 207559005656 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 207559005657 RNA binding site [nucleotide binding]; other site 207559005658 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 207559005659 RNA binding site [nucleotide binding]; other site 207559005660 S1_RPS1_repeat_hs4: 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_hs4; cd05692 207559005661 RNA binding site [nucleotide binding]; other site 207559005662 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 207559005663 RNA binding site [nucleotide binding]; other site 207559005664 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 207559005665 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 207559005666 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 207559005667 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 207559005668 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 207559005669 protein binding site [polypeptide binding]; other site 207559005670 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 207559005671 protein binding site [polypeptide binding]; other site 207559005672 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 207559005673 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 207559005674 Walker A motif; other site 207559005675 ATP binding site [chemical binding]; other site 207559005676 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 207559005677 Walker B motif; other site 207559005678 arginine finger; other site 207559005679 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 207559005680 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 207559005681 feedback inhibition sensing region; other site 207559005682 homohexameric interface [polypeptide binding]; other site 207559005683 nucleotide binding site [chemical binding]; other site 207559005684 N-acetyl-L-glutamate binding site [chemical binding]; other site 207559005685 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 207559005686 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559005687 active site 207559005688 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 207559005689 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 207559005690 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559005691 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 207559005692 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559005693 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 207559005694 putative active site [active] 207559005695 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 207559005696 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 207559005697 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559005698 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 207559005699 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 207559005700 tRNA; other site 207559005701 putative tRNA binding site [nucleotide binding]; other site 207559005702 putative NADP binding site [chemical binding]; other site 207559005703 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 207559005704 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 207559005705 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 207559005706 Ligand Binding Site [chemical binding]; other site 207559005707 adenylate kinase; Provisional; Region: PRK14529 207559005708 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 207559005709 AMP-binding site [chemical binding]; other site 207559005710 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 207559005711 Cation transport protein; Region: TrkH; cl17365 207559005712 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 207559005713 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 207559005714 TrkA-N domain; Region: TrkA_N; pfam02254 207559005715 TrkA-C domain; Region: TrkA_C; pfam02080 207559005716 TrkA-N domain; Region: TrkA_N; pfam02254 207559005717 TrkA-C domain; Region: TrkA_C; pfam02080 207559005718 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 207559005719 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559005720 Winged helix-turn helix; Region: HTH_29; pfam13551 207559005721 Homeodomain-like domain; Region: HTH_32; pfam13565 207559005722 Integrase core domain; Region: rve; pfam00665 207559005723 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 207559005724 DALR anticodon binding domain; Region: DALR_1; pfam05746 207559005725 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 207559005726 dimer interface [polypeptide binding]; other site 207559005727 motif 1; other site 207559005728 active site 207559005729 motif 2; other site 207559005730 motif 3; other site 207559005731 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 207559005732 Recombination protein O N terminal; Region: RecO_N; pfam11967 207559005733 Recombination protein O C terminal; Region: RecO_C; pfam02565 207559005734 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 207559005735 non-specific DNA binding site [nucleotide binding]; other site 207559005736 salt bridge; other site 207559005737 sequence-specific DNA binding site [nucleotide binding]; other site 207559005738 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 207559005739 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 207559005740 SurA N-terminal domain; Region: SurA_N; pfam09312 207559005741 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 207559005742 SurA N-terminal domain; Region: SurA_N_3; cl07813 207559005743 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 207559005744 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 207559005745 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 207559005746 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 207559005747 ATP binding site [chemical binding]; other site 207559005748 putative Mg++ binding site [ion binding]; other site 207559005749 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 207559005750 nucleotide binding region [chemical binding]; other site 207559005751 ATP-binding site [chemical binding]; other site 207559005752 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 207559005753 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 207559005754 putative CheA interaction surface; other site 207559005755 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 207559005756 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 207559005757 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559005758 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 207559005759 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 207559005760 active site 207559005761 hydrophilic channel; other site 207559005762 dimerization interface [polypeptide binding]; other site 207559005763 catalytic residues [active] 207559005764 active site lid [active] 207559005765 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14657 207559005766 putative carbohydrate kinase; Provisional; Region: PRK10565 207559005767 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 207559005768 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 207559005769 putative substrate binding site [chemical binding]; other site 207559005770 putative ATP binding site [chemical binding]; other site 207559005771 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005772 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 207559005773 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 207559005774 aspartate kinase; Reviewed; Region: PRK06635 207559005775 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 207559005776 putative nucleotide binding site [chemical binding]; other site 207559005777 putative catalytic residues [active] 207559005778 putative Mg ion binding site [ion binding]; other site 207559005779 putative aspartate binding site [chemical binding]; other site 207559005780 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 207559005781 putative allosteric regulatory site; other site 207559005782 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 207559005783 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 207559005784 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 207559005785 active site 207559005786 catalytic residues [active] 207559005787 metal binding site [ion binding]; metal-binding site 207559005788 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 207559005789 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559005790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005791 metal binding site [ion binding]; metal-binding site 207559005792 active site 207559005793 I-site; other site 207559005794 Staphylococcal nuclease homologues; Region: SNc; smart00318 207559005795 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559005796 Catalytic site; other site 207559005797 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 207559005798 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 207559005799 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559005800 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559005801 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559005802 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 207559005803 DNA binding residues [nucleotide binding] 207559005804 DNA primase; Validated; Region: dnaG; PRK05667 207559005805 CHC2 zinc finger; Region: zf-CHC2; cl17510 207559005806 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559005807 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 207559005808 active site 207559005809 metal binding site [ion binding]; metal-binding site 207559005810 interdomain interaction site; other site 207559005811 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 207559005812 MutS domain III; Region: MutS_III; pfam05192 207559005813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559005814 Walker A/P-loop; other site 207559005815 ATP binding site [chemical binding]; other site 207559005816 Q-loop/lid; other site 207559005817 ABC transporter signature motif; other site 207559005818 Walker B; other site 207559005819 D-loop; other site 207559005820 H-loop/switch region; other site 207559005821 Smr domain; Region: Smr; pfam01713 207559005822 Yqey-like protein; Region: YqeY; pfam09424 207559005823 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 207559005824 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 207559005825 IHF dimer interface [polypeptide binding]; other site 207559005826 IHF - DNA interface [nucleotide binding]; other site 207559005827 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 207559005828 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 207559005829 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 207559005830 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 207559005831 active site 207559005832 homotetramer interface [polypeptide binding]; other site 207559005833 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 207559005834 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 207559005835 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 207559005836 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 207559005837 elongation factor G; Reviewed; Region: PRK12740 207559005838 G1 box; other site 207559005839 putative GEF interaction site [polypeptide binding]; other site 207559005840 GTP/Mg2+ binding site [chemical binding]; other site 207559005841 Switch I region; other site 207559005842 G2 box; other site 207559005843 G3 box; other site 207559005844 Switch II region; other site 207559005845 G4 box; other site 207559005846 G5 box; other site 207559005847 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 207559005848 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cd01680 207559005849 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 207559005850 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559005851 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559005852 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559005853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559005854 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 207559005855 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 207559005856 catalytic residues [active] 207559005857 UGMP family protein; Validated; Region: PRK09604 207559005858 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 207559005859 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 207559005860 AMP binding site [chemical binding]; other site 207559005861 metal binding site [ion binding]; metal-binding site 207559005862 active site 207559005863 Sporulation related domain; Region: SPOR; pfam05036 207559005864 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 207559005865 TPR motif; other site 207559005866 binding surface 207559005867 Septum formation initiator; Region: DivIC; pfam04977 207559005868 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 207559005869 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 207559005870 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 207559005871 Walker A motif; other site 207559005872 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559005873 Predicted membrane protein [Function unknown]; Region: COG1238 207559005874 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 207559005875 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 207559005876 S-adenosylmethionine binding site [chemical binding]; other site 207559005877 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 207559005878 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559005879 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559005880 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559005881 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 207559005882 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 207559005883 pyruvate carboxylase; Reviewed; Region: PRK12999 207559005884 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559005885 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559005886 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 207559005887 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 207559005888 active site 207559005889 catalytic residues [active] 207559005890 metal binding site [ion binding]; metal-binding site 207559005891 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 207559005892 carboxyltransferase (CT) interaction site; other site 207559005893 biotinylation site [posttranslational modification]; other site 207559005894 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 207559005895 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 207559005896 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 207559005897 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 207559005898 metal binding triad [ion binding]; metal-binding site 207559005899 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559005900 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559005901 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 207559005902 acyl-activating enzyme (AAE) consensus motif; other site 207559005903 AMP binding site [chemical binding]; other site 207559005904 active site 207559005905 CoA binding site [chemical binding]; other site 207559005906 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559005907 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 207559005908 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559005909 ACT domain-containing protein [General function prediction only]; Region: COG4747 207559005910 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 207559005911 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 207559005912 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 207559005913 hypothetical protein; Reviewed; Region: PRK09588 207559005914 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 207559005915 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559005916 putative [4Fe-4S] binding site [ion binding]; other site 207559005917 putative molybdopterin cofactor binding site [chemical binding]; other site 207559005918 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 207559005919 NAD synthetase; Provisional; Region: PRK13981 207559005920 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 207559005921 multimer interface [polypeptide binding]; other site 207559005922 active site 207559005923 catalytic triad [active] 207559005924 protein interface 1 [polypeptide binding]; other site 207559005925 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 207559005926 homodimer interface [polypeptide binding]; other site 207559005927 NAD binding pocket [chemical binding]; other site 207559005928 ATP binding pocket [chemical binding]; other site 207559005929 Mg binding site [ion binding]; other site 207559005930 active-site loop [active] 207559005931 dihydrodipicolinate reductase; Provisional; Region: PRK00048 207559005932 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 207559005933 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 207559005934 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 207559005935 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 207559005936 nucleotide binding pocket [chemical binding]; other site 207559005937 K-X-D-G motif; other site 207559005938 catalytic site [active] 207559005939 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 207559005940 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 207559005941 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 207559005942 Dimer interface [polypeptide binding]; other site 207559005943 Ion channel; Region: Ion_trans_2; pfam07885 207559005944 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559005945 TrkA-N domain; Region: TrkA_N; pfam02254 207559005946 TrkA-C domain; Region: TrkA_C; pfam02080 207559005947 excinuclease ABC subunit B; Provisional; Region: PRK05298 207559005948 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 207559005949 ATP binding site [chemical binding]; other site 207559005950 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 207559005951 nucleotide binding region [chemical binding]; other site 207559005952 ATP-binding site [chemical binding]; other site 207559005953 Ultra-violet resistance protein B; Region: UvrB; pfam12344 207559005954 UvrB/uvrC motif; Region: UVR; pfam02151 207559005955 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 207559005956 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 207559005957 Clp amino terminal domain; Region: Clp_N; pfam02861 207559005958 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 207559005959 Walker A motif; other site 207559005960 ATP binding site [chemical binding]; other site 207559005961 Walker B motif; other site 207559005962 arginine finger; other site 207559005963 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 207559005964 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 207559005965 Walker A motif; other site 207559005966 ATP binding site [chemical binding]; other site 207559005967 Walker B motif; other site 207559005968 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559005969 Uncharacterized conserved protein [Function unknown]; Region: COG2127 207559005970 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 207559005971 putative active site [active] 207559005972 putative metal binding residues [ion binding]; other site 207559005973 signature motif; other site 207559005974 putative triphosphate binding site [ion binding]; other site 207559005975 dimer interface [polypeptide binding]; other site 207559005976 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 207559005977 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 207559005978 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559005979 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005980 active site 207559005981 phosphorylation site [posttranslational modification] 207559005982 intermolecular recognition site; other site 207559005983 dimerization interface [polypeptide binding]; other site 207559005984 CheB methylesterase; Region: CheB_methylest; pfam01339 207559005985 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559005986 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559005987 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 207559005988 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 207559005989 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 207559005990 putative binding surface; other site 207559005991 active site 207559005992 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559005993 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559005994 ATP binding site [chemical binding]; other site 207559005995 Mg2+ binding site [ion binding]; other site 207559005996 G-X-G motif; other site 207559005997 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 207559005998 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559005999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006000 active site 207559006001 phosphorylation site [posttranslational modification] 207559006002 intermolecular recognition site; other site 207559006003 dimerization interface [polypeptide binding]; other site 207559006004 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 207559006005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559006006 dimer interface [polypeptide binding]; other site 207559006007 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 207559006008 putative CheW interface [polypeptide binding]; other site 207559006009 DNA repair protein RadA; Provisional; Region: PRK11823 207559006010 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 207559006011 Walker A motif; other site 207559006012 ATP binding site [chemical binding]; other site 207559006013 Walker B motif; other site 207559006014 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 207559006015 zinc-ribbon domain; Region: zinc_ribbon_4; pfam13717 207559006016 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 207559006017 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559006018 active site 207559006019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559006020 Coenzyme A binding pocket [chemical binding]; other site 207559006021 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 207559006022 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 207559006023 catalytic residues [active] 207559006024 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 207559006025 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 207559006026 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 207559006027 substrate binding pocket [chemical binding]; other site 207559006028 dimer interface [polypeptide binding]; other site 207559006029 inhibitor binding site; inhibition site 207559006030 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 207559006031 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 207559006032 B12 binding site [chemical binding]; other site 207559006033 cobalt ligand [ion binding]; other site 207559006034 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 207559006035 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559006036 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559006037 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 207559006038 DNA binding residues [nucleotide binding] 207559006039 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 207559006040 binding surface 207559006041 TPR motif; other site 207559006042 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 207559006043 TPR motif; other site 207559006044 binding surface 207559006045 TPR repeat; Region: TPR_11; pfam13414 207559006046 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559006047 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 207559006048 binding surface 207559006049 TPR motif; other site 207559006050 TPR repeat; Region: TPR_11; pfam13414 207559006051 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 207559006052 binding surface 207559006053 TPR motif; other site 207559006054 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 207559006055 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 207559006056 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559006057 active site 207559006058 HIGH motif; other site 207559006059 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559006060 KMSKS motif; other site 207559006061 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559006062 tRNA binding surface [nucleotide binding]; other site 207559006063 anticodon binding site; other site 207559006064 Peptidase family M48; Region: Peptidase_M48; pfam01435 207559006065 TPR repeat; Region: TPR_11; pfam13414 207559006066 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 207559006067 binding surface 207559006068 TPR motif; other site 207559006069 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 207559006070 putative ADP-ribose binding site [chemical binding]; other site 207559006071 putative active site [active] 207559006072 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 207559006073 active site 207559006074 HslU subunit interaction site [polypeptide binding]; other site 207559006075 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 207559006076 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 207559006077 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 207559006078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559006079 active site 207559006080 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 207559006081 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 207559006082 5S rRNA interface [nucleotide binding]; other site 207559006083 CTC domain interface [polypeptide binding]; other site 207559006084 L16 interface [polypeptide binding]; other site 207559006085 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 207559006086 putative active site [active] 207559006087 catalytic residue [active] 207559006088 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 207559006089 transcription termination factor Rho; Provisional; Region: rho; PRK09376 207559006090 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 207559006091 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 207559006092 RNA binding site [nucleotide binding]; other site 207559006093 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 207559006094 multimer interface [polypeptide binding]; other site 207559006095 Walker A motif; other site 207559006096 ATP binding site [chemical binding]; other site 207559006097 Walker B motif; other site 207559006098 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 207559006099 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 207559006100 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 207559006101 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 207559006102 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 207559006103 putative substrate-binding site; other site 207559006104 nickel binding site [ion binding]; other site 207559006105 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 207559006106 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559006107 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 207559006108 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 207559006109 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 207559006110 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 207559006111 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 207559006112 putative substrate-binding site; other site 207559006113 nickel binding site [ion binding]; other site 207559006114 HupF/HypC family; Region: HupF_HypC; pfam01455 207559006115 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 207559006116 active site 207559006117 catalytic triad [active] 207559006118 oxyanion hole [active] 207559006119 switch loop; other site 207559006120 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 207559006121 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559006122 active site 207559006123 HIGH motif; other site 207559006124 nucleotide binding site [chemical binding]; other site 207559006125 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559006126 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 207559006127 active site 207559006128 KMSKS motif; other site 207559006129 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 207559006130 tRNA binding surface [nucleotide binding]; other site 207559006131 anticodon binding site; other site 207559006132 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 207559006133 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 207559006134 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 207559006135 Optic atrophy 3 protein (OPA3); Region: OPA3; pfam07047 207559006136 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559006137 NIL domain; Region: NIL; pfam09383 207559006138 4Fe-4S binding domain; Region: Fer4; cl02805 207559006139 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006140 4Fe-4S binding domain; Region: Fer4; pfam00037 207559006141 PilZ domain; Region: PilZ; pfam07238 207559006142 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 207559006143 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 207559006144 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559006145 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559006146 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 207559006147 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 207559006148 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 207559006149 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 207559006150 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 207559006151 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 207559006152 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 207559006153 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 207559006154 TPR motif; other site 207559006155 binding surface 207559006156 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559006157 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 207559006158 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 207559006159 dimerization interface [polypeptide binding]; other site 207559006160 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559006161 dimer interface [polypeptide binding]; other site 207559006162 putative CheW interface [polypeptide binding]; other site 207559006163 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 207559006164 Peptidase family M48; Region: Peptidase_M48; cl12018 207559006165 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 207559006166 putative efflux protein, MATE family; Region: matE; TIGR00797 207559006167 Acylphosphatase; Region: Acylphosphatase; pfam00708 207559006168 ketol-acid reductoisomerase; Provisional; Region: PRK05479 207559006169 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 207559006170 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 207559006171 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559006172 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559006173 putative valine binding site [chemical binding]; other site 207559006174 dimer interface [polypeptide binding]; other site 207559006175 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559006176 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 207559006177 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559006178 PYR/PP interface [polypeptide binding]; other site 207559006179 dimer interface [polypeptide binding]; other site 207559006180 TPP binding site [chemical binding]; other site 207559006181 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559006182 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 207559006183 TPP-binding site [chemical binding]; other site 207559006184 dimer interface [polypeptide binding]; other site 207559006185 isoleucyl-tRNA synthetase; Region: PLN02843 207559006186 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 207559006187 DivIVA domain; Region: DivI1A_domain; TIGR03544 207559006188 DivIVA protein; Region: DivIVA; pfam05103 207559006189 YGGT family; Region: YGGT; pfam02325 207559006190 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559006191 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 207559006192 motif II; other site 207559006193 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 207559006194 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559006195 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 207559006196 active site residue [active] 207559006197 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 207559006198 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 207559006199 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559006200 active site 207559006201 C-terminal domain interface [polypeptide binding]; other site 207559006202 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 207559006203 active site 207559006204 N-terminal domain interface [polypeptide binding]; other site 207559006205 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 207559006206 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 207559006207 NAD binding site [chemical binding]; other site 207559006208 substrate binding site [chemical binding]; other site 207559006209 homodimer interface [polypeptide binding]; other site 207559006210 active site 207559006211 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 207559006212 NADP binding site [chemical binding]; other site 207559006213 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 207559006214 active site 207559006215 putative substrate binding site [chemical binding]; other site 207559006216 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 207559006217 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 207559006218 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 207559006219 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 207559006220 NAD binding site [chemical binding]; other site 207559006221 homodimer interface [polypeptide binding]; other site 207559006222 active site 207559006223 substrate binding site [chemical binding]; other site 207559006224 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 207559006225 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 207559006226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559006227 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559006228 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 207559006229 motif II; other site 207559006230 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 207559006231 S-adenosylmethionine binding site [chemical binding]; other site 207559006232 aspartate aminotransferase; Provisional; Region: PRK05764 207559006233 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 207559006234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559006235 homodimer interface [polypeptide binding]; other site 207559006236 catalytic residue [active] 207559006237 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 207559006238 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 207559006239 active site 207559006240 PHP Thumb interface [polypeptide binding]; other site 207559006241 metal binding site [ion binding]; metal-binding site 207559006242 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 207559006243 generic binding surface I; other site 207559006244 generic binding surface II; other site 207559006245 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 207559006246 active site 207559006247 MarC family integral membrane protein; Region: MarC; cl00919 207559006248 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 207559006249 dimer interface [polypeptide binding]; other site 207559006250 FMN binding site [chemical binding]; other site 207559006251 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 207559006252 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 207559006253 TPP-binding site; other site 207559006254 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 207559006255 PYR/PP interface [polypeptide binding]; other site 207559006256 dimer interface [polypeptide binding]; other site 207559006257 TPP binding site [chemical binding]; other site 207559006258 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559006259 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559006260 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559006261 substrate binding pocket [chemical binding]; other site 207559006262 chain length determination region; other site 207559006263 substrate-Mg2+ binding site; other site 207559006264 catalytic residues [active] 207559006265 aspartate-rich region 1; other site 207559006266 active site lid residues [active] 207559006267 aspartate-rich region 2; other site 207559006268 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14067 207559006269 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559006270 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559006271 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 207559006272 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 207559006273 generic binding surface II; other site 207559006274 generic binding surface I; other site 207559006275 prolyl-tRNA synthetase; Provisional; Region: PRK09194 207559006276 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 207559006277 dimer interface [polypeptide binding]; other site 207559006278 motif 1; other site 207559006279 active site 207559006280 motif 2; other site 207559006281 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 207559006282 putative deacylase active site [active] 207559006283 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 207559006284 active site 207559006285 motif 3; other site 207559006286 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 207559006287 anticodon binding site; other site 207559006288 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 207559006289 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 207559006290 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 207559006291 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 207559006292 intersubunit interface [polypeptide binding]; other site 207559006293 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 207559006294 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 207559006295 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 207559006296 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 207559006297 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 207559006298 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 207559006299 putative PBP binding regions; other site 207559006300 ABC-ATPase subunit interface; other site 207559006301 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559006302 metal binding site 2 [ion binding]; metal-binding site 207559006303 putative DNA binding helix; other site 207559006304 metal binding site 1 [ion binding]; metal-binding site 207559006305 dimer interface [polypeptide binding]; other site 207559006306 structural Zn2+ binding site [ion binding]; other site 207559006307 DctM-like transporters; Region: DctM; pfam06808 207559006308 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 207559006309 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 207559006310 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559006311 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559006312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559006313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559006314 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559006315 Found in ATP-dependent protease La (LON); Region: LON; smart00464 207559006316 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 207559006317 Walker A motif; other site 207559006318 ATP binding site [chemical binding]; other site 207559006319 Walker B motif; other site 207559006320 arginine finger; other site 207559006321 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559006322 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 207559006323 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 207559006324 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 207559006325 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 207559006326 Walker A motif; other site 207559006327 ATP binding site [chemical binding]; other site 207559006328 Walker B motif; other site 207559006329 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 207559006330 Clp protease; Region: CLP_protease; pfam00574 207559006331 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 207559006332 oligomer interface [polypeptide binding]; other site 207559006333 active site residues [active] 207559006334 trigger factor; Region: tig; TIGR00115 207559006335 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 207559006336 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 207559006337 dimerization interface [polypeptide binding]; other site 207559006338 putative ATP binding site [chemical binding]; other site 207559006339 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 207559006340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559006341 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 207559006342 putative dimerization interface [polypeptide binding]; other site 207559006343 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 207559006344 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 207559006345 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 207559006346 alphaNTD - beta interaction site [polypeptide binding]; other site 207559006347 alphaNTD homodimer interface [polypeptide binding]; other site 207559006348 alphaNTD - beta' interaction site [polypeptide binding]; other site 207559006349 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 207559006350 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 207559006351 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 207559006352 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 207559006353 RNA binding surface [nucleotide binding]; other site 207559006354 30S ribosomal protein S11; Validated; Region: PRK05309 207559006355 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 207559006356 30S ribosomal protein S13; Region: bact_S13; TIGR03631 207559006357 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 207559006358 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 207559006359 active site 207559006360 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 207559006361 SecY translocase; Region: SecY; pfam00344 207559006362 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 207559006363 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 207559006364 23S rRNA binding site [nucleotide binding]; other site 207559006365 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 207559006366 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 207559006367 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 207559006368 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 207559006369 5S rRNA interface [nucleotide binding]; other site 207559006370 23S rRNA interface [nucleotide binding]; other site 207559006371 L5 interface [polypeptide binding]; other site 207559006372 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 207559006373 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559006374 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559006375 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 207559006376 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 207559006377 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 207559006378 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 207559006379 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 207559006380 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 207559006381 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 207559006382 RNA binding site [nucleotide binding]; other site 207559006383 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 207559006384 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 207559006385 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 207559006386 23S rRNA interface [nucleotide binding]; other site 207559006387 putative translocon interaction site; other site 207559006388 signal recognition particle (SRP54) interaction site; other site 207559006389 L23 interface [polypeptide binding]; other site 207559006390 trigger factor interaction site; other site 207559006391 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 207559006392 23S rRNA interface [nucleotide binding]; other site 207559006393 5S rRNA interface [nucleotide binding]; other site 207559006394 putative antibiotic binding site [chemical binding]; other site 207559006395 L25 interface [polypeptide binding]; other site 207559006396 L27 interface [polypeptide binding]; other site 207559006397 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 207559006398 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 207559006399 G-X-X-G motif; other site 207559006400 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 207559006401 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 207559006402 putative translocon binding site; other site 207559006403 protein-rRNA interface [nucleotide binding]; other site 207559006404 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 207559006405 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 207559006406 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 207559006407 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 207559006408 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 207559006409 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 207559006410 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 207559006411 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 207559006412 elongation factor G; Reviewed; Region: PRK00007 207559006413 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 207559006414 G1 box; other site 207559006415 putative GEF interaction site [polypeptide binding]; other site 207559006416 GTP/Mg2+ binding site [chemical binding]; other site 207559006417 Switch I region; other site 207559006418 G2 box; other site 207559006419 G3 box; other site 207559006420 Switch II region; other site 207559006421 G4 box; other site 207559006422 G5 box; other site 207559006423 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 207559006424 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 207559006425 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 207559006426 30S ribosomal protein S7; Validated; Region: PRK05302 207559006427 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 207559006428 S17 interaction site [polypeptide binding]; other site 207559006429 S8 interaction site; other site 207559006430 16S rRNA interaction site [nucleotide binding]; other site 207559006431 streptomycin interaction site [chemical binding]; other site 207559006432 23S rRNA interaction site [nucleotide binding]; other site 207559006433 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 207559006434 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 207559006435 ATP-sulfurylase; Region: ATPS; cd00517 207559006436 active site 207559006437 HXXH motif; other site 207559006438 flexible loop; other site 207559006439 Protein of unknown function DUF45; Region: DUF45; pfam01863 207559006440 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559006441 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 207559006442 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559006443 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559006444 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559006445 4Fe-4S binding domain; Region: Fer4_6; pfam12837 207559006446 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 207559006447 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 207559006448 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 207559006449 G1 box; other site 207559006450 GTP/Mg2+ binding site [chemical binding]; other site 207559006451 Switch I region; other site 207559006452 G2 box; other site 207559006453 Switch II region; other site 207559006454 G3 box; other site 207559006455 G4 box; other site 207559006456 G5 box; other site 207559006457 biotin synthase; Provisional; Region: PRK07094 207559006458 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 207559006459 FeS/SAM binding site; other site 207559006460 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 207559006461 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 207559006462 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 207559006463 FeS/SAM binding site; other site 207559006464 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 207559006465 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 207559006466 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 207559006467 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559006468 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559006469 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559006470 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 207559006471 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559006472 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 207559006473 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 207559006474 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559006475 ASRGL1_like domains, a subfamily of the L-Asparaginase type 2-like enzymes. The wider family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. The proenzymes undergo autoproteolytic cleavage before a threonine to generate alpha...; Region: ASRGL1_like; cd04702 207559006476 catalytic nucleophile [active] 207559006477 glycogen branching enzyme; Provisional; Region: PRK12313 207559006478 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 207559006479 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 207559006480 active site 207559006481 catalytic site [active] 207559006482 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 207559006483 glycogen synthase; Provisional; Region: glgA; PRK00654 207559006484 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 207559006485 ADP-binding pocket [chemical binding]; other site 207559006486 homodimer interface [polypeptide binding]; other site 207559006487 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 207559006488 nudix motif; other site 207559006489 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 207559006490 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 207559006491 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 207559006492 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 207559006493 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559006494 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 207559006495 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 207559006496 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 207559006497 active site 207559006498 HIGH motif; other site 207559006499 KMSK motif region; other site 207559006500 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559006501 tRNA binding surface [nucleotide binding]; other site 207559006502 anticodon binding site; other site 207559006503 Sporulation related domain; Region: SPOR; pfam05036 207559006504 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 207559006505 Permease; Region: Permease; pfam02405 207559006506 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 207559006507 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 207559006508 Walker A/P-loop; other site 207559006509 ATP binding site [chemical binding]; other site 207559006510 Q-loop/lid; other site 207559006511 ABC transporter signature motif; other site 207559006512 Walker B; other site 207559006513 D-loop; other site 207559006514 H-loop/switch region; other site 207559006515 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 207559006516 mce related protein; Region: MCE; pfam02470 207559006517 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 207559006518 VacJ like lipoprotein; Region: VacJ; cl01073 207559006519 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 207559006520 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 207559006521 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 207559006522 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559006523 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 207559006524 substrate binding pocket [chemical binding]; other site 207559006525 membrane-bound complex binding site; other site 207559006526 hinge residues; other site 207559006527 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559006528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559006529 dimer interface [polypeptide binding]; other site 207559006530 conserved gate region; other site 207559006531 putative PBP binding loops; other site 207559006532 ABC-ATPase subunit interface; other site 207559006533 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559006534 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559006535 Walker A/P-loop; other site 207559006536 ATP binding site [chemical binding]; other site 207559006537 Q-loop/lid; other site 207559006538 ABC transporter signature motif; other site 207559006539 Walker B; other site 207559006540 D-loop; other site 207559006541 H-loop/switch region; other site 207559006542 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559006543 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 207559006544 metal binding triad; other site 207559006545 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 207559006546 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 207559006547 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 207559006548 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 207559006549 Nitrogen regulatory protein P-II; Region: P-II; smart00938 207559006550 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 207559006551 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 207559006552 dimer interface [polypeptide binding]; other site 207559006553 catalytic triad [active] 207559006554 peroxidatic and resolving cysteines [active] 207559006555 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 207559006556 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 207559006557 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 207559006558 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 207559006559 RNA binding site [nucleotide binding]; other site 207559006560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559006561 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 207559006562 acyl-activating enzyme (AAE) consensus motif; other site 207559006563 AMP binding site [chemical binding]; other site 207559006564 active site 207559006565 CoA binding site [chemical binding]; other site 207559006566 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 207559006567 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 207559006568 non-specific DNA binding site [nucleotide binding]; other site 207559006569 salt bridge; other site 207559006570 sequence-specific DNA binding site [nucleotide binding]; other site 207559006571 Cupin domain; Region: Cupin_2; pfam07883 207559006572 DnaA N-terminal domain; Region: DnaA_N; pfam11638 207559006573 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 207559006574 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 207559006575 Walker A motif; other site 207559006576 ATP binding site [chemical binding]; other site 207559006577 Walker B motif; other site 207559006578 arginine finger; other site 207559006579 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 207559006580 DnaA box-binding interface [nucleotide binding]; other site 207559006581 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 207559006582 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 207559006583 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 207559006584 Walker A motif; other site 207559006585 ATP binding site [chemical binding]; other site 207559006586 Walker B motif; other site 207559006587 arginine finger; other site 207559006588 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 207559006589 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 207559006590 RuvA N terminal domain; Region: RuvA_N; pfam01330 207559006591 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 207559006592 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 207559006593 active site 207559006594 putative DNA-binding cleft [nucleotide binding]; other site 207559006595 dimer interface [polypeptide binding]; other site 207559006596 hypothetical protein; Validated; Region: PRK00110 207559006597 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 207559006598 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 207559006599 S-adenosylmethionine binding site [chemical binding]; other site 207559006600 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559006601 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 207559006602 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 207559006603 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 207559006604 THF binding site; other site 207559006605 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 207559006606 substrate binding site [chemical binding]; other site 207559006607 THF binding site; other site 207559006608 zinc-binding site [ion binding]; other site 207559006609 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 207559006610 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559006611 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 207559006612 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 207559006613 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 207559006614 dimer interface [polypeptide binding]; other site 207559006615 PYR/PP interface [polypeptide binding]; other site 207559006616 TPP binding site [chemical binding]; other site 207559006617 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 207559006618 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 207559006619 TPP-binding site [chemical binding]; other site 207559006620 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 207559006621 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 207559006622 CoA-ligase; Region: Ligase_CoA; pfam00549 207559006623 CoA binding domain; Region: CoA_binding; smart00881 207559006624 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 207559006625 CoA-ligase; Region: Ligase_CoA; pfam00549 207559006626 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 207559006627 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 207559006628 binding surface 207559006629 TPR repeat; Region: TPR_11; pfam13414 207559006630 TPR motif; other site 207559006631 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 207559006632 binding surface 207559006633 TPR motif; other site 207559006634 TPR repeat; Region: TPR_11; pfam13414 207559006635 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 207559006636 binding surface 207559006637 TPR motif; other site 207559006638 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 207559006639 binding surface 207559006640 TPR motif; other site 207559006641 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 207559006642 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 207559006643 active site 207559006644 Zn binding site [ion binding]; other site 207559006645 thymidylate kinase; Validated; Region: tmk; PRK00698 207559006646 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 207559006647 TMP-binding site; other site 207559006648 ATP-binding site [chemical binding]; other site 207559006649 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 207559006650 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is...; Region: YhaM_OBF_like; cd04492 207559006651 generic binding surface II; other site 207559006652 generic binding surface I; other site 207559006653 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006654 Zn2+ binding site [ion binding]; other site 207559006655 Mg2+ binding site [ion binding]; other site 207559006656 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 207559006657 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 207559006658 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 207559006659 intersubunit interface [polypeptide binding]; other site 207559006660 active site 207559006661 zinc binding site [ion binding]; other site 207559006662 Na+ binding site [ion binding]; other site 207559006663 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 207559006664 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559006665 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 207559006666 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559006667 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 207559006668 Domain of unknown function (DUF814); Region: DUF814; pfam05670 207559006669 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 207559006670 Uncharacterized conserved protein [Function unknown]; Region: COG1944 207559006671 YcaO-like family; Region: YcaO; pfam02624 207559006672 TPR repeat; Region: TPR_11; pfam13414 207559006673 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 207559006674 TPR motif; other site 207559006675 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559006676 binding surface 207559006677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559006678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559006679 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 207559006680 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 207559006681 TPR motif; other site 207559006682 binding surface 207559006683 TPR repeat; Region: TPR_11; pfam13414 207559006684 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; cl00399 207559006685 MoaE homodimer interface [polypeptide binding]; other site 207559006686 MoaD interaction [polypeptide binding]; other site 207559006687 active site residues [active] 207559006688 trehalose synthase; Region: treS_nterm; TIGR02456 207559006689 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 207559006690 active site 207559006691 catalytic site [active] 207559006692 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 207559006693 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 207559006694 Catalytic site; other site 207559006695 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559006696 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559006697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006698 active site 207559006699 phosphorylation site [posttranslational modification] 207559006700 intermolecular recognition site; other site 207559006701 dimerization interface [polypeptide binding]; other site 207559006702 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 207559006703 Walker A motif; other site 207559006704 ATP binding site [chemical binding]; other site 207559006705 Walker B motif; other site 207559006706 arginine finger; other site 207559006707 Flp/Fap pilin component; Region: Flp_Fap; cl01585 207559006708 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 207559006709 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 207559006710 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 207559006711 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 207559006712 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 207559006713 BON domain; Region: BON; pfam04972 207559006714 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 207559006715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 207559006716 active site 207559006717 dimerization interface [polypeptide binding]; other site 207559006718 AAA domain; Region: AAA_31; pfam13614 207559006719 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 207559006720 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 207559006721 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 207559006722 ATP binding site [chemical binding]; other site 207559006723 Walker A motif; other site 207559006724 hexamer interface [polypeptide binding]; other site 207559006725 Walker B motif; other site 207559006726 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 207559006727 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 207559006728 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 207559006729 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 207559006730 TPR repeat; Region: TPR_11; pfam13414 207559006731 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 207559006732 binding surface 207559006733 TPR motif; other site 207559006734 TPR repeat; Region: TPR_11; pfam13414 207559006735 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 207559006736 binding surface 207559006737 TPR motif; other site 207559006738 TPR repeat; Region: TPR_11; pfam13414 207559006739 Sporulation related domain; Region: SPOR; pfam05036 207559006740 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 207559006741 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 207559006742 metal ion-dependent adhesion site (MIDAS); other site 207559006743 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 207559006744 TadE-like protein; Region: TadE; pfam07811 207559006745 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559006746 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 207559006747 putative active site [active] 207559006748 heme pocket [chemical binding]; other site 207559006749 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559006750 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 207559006751 putative active site [active] 207559006752 heme pocket [chemical binding]; other site 207559006753 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 207559006754 dimer interface [polypeptide binding]; other site 207559006755 phosphorylation site [posttranslational modification] 207559006756 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559006757 ATP binding site [chemical binding]; other site 207559006758 Mg2+ binding site [ion binding]; other site 207559006759 G-X-G motif; other site 207559006760 Response regulator receiver domain; Region: Response_reg; pfam00072 207559006761 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006762 active site 207559006763 phosphorylation site [posttranslational modification] 207559006764 intermolecular recognition site; other site 207559006765 dimerization interface [polypeptide binding]; other site 207559006766 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 207559006767 Na2 binding site [ion binding]; other site 207559006768 putative substrate binding site 1 [chemical binding]; other site 207559006769 Na binding site 1 [ion binding]; other site 207559006770 putative substrate binding site 2 [chemical binding]; other site 207559006771 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 207559006772 Ligand Binding Site [chemical binding]; other site 207559006773 recombinase A; Provisional; Region: recA; PRK09354 207559006774 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 207559006775 hexamer interface [polypeptide binding]; other site 207559006776 Walker A motif; other site 207559006777 ATP binding site [chemical binding]; other site 207559006778 Walker B motif; other site 207559006779 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 207559006780 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 207559006781 motif 1; other site 207559006782 active site 207559006783 motif 2; other site 207559006784 motif 3; other site 207559006785 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 207559006786 DHHA1 domain; Region: DHHA1; pfam02272 207559006787 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 207559006788 metal-binding site [ion binding] 207559006789 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 207559006790 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559006791 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 207559006792 FeS/SAM binding site; other site 207559006793 Bifunctional nuclease; Region: DNase-RNase; pfam02577 207559006794 hypothetical protein; Provisional; Region: PRK06361 207559006795 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559006796 Protein export membrane protein; Region: SecD_SecF; cl14618 207559006797 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 207559006798 active site 207559006799 phosphorylation site [posttranslational modification] 207559006800 intermolecular recognition site; other site 207559006801 dimerization interface [polypeptide binding]; other site 207559006802 TPR repeat; Region: TPR_11; pfam13414 207559006803 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 207559006804 TPR motif; other site 207559006805 TPR repeat; Region: TPR_11; pfam13414 207559006806 binding surface 207559006807 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 207559006808 PhoU domain; Region: PhoU; pfam01895 207559006809 PhoU domain; Region: PhoU; pfam01895 207559006810 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 207559006811 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 207559006812 Walker A/P-loop; other site 207559006813 ATP binding site [chemical binding]; other site 207559006814 Q-loop/lid; other site 207559006815 ABC transporter signature motif; other site 207559006816 Walker B; other site 207559006817 D-loop; other site 207559006818 H-loop/switch region; other site 207559006819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 207559006820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006821 active site 207559006822 phosphorylation site [posttranslational modification] 207559006823 intermolecular recognition site; other site 207559006824 dimerization interface [polypeptide binding]; other site 207559006825 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 207559006826 DNA binding site [nucleotide binding] 207559006827 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 207559006828 catalytic site [active] 207559006829 putative active site [active] 207559006830 putative substrate binding site [chemical binding]; other site 207559006831 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006832 4Fe-4S binding domain; Region: Fer4; pfam00037 207559006833 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006834 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 207559006835 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 207559006836 trmE is a tRNA modification GTPase; Region: trmE; cd04164 207559006837 G1 box; other site 207559006838 GTP/Mg2+ binding site [chemical binding]; other site 207559006839 Switch I region; other site 207559006840 G2 box; other site 207559006841 Switch II region; other site 207559006842 G3 box; other site 207559006843 G4 box; other site 207559006844 G5 box; other site 207559006845 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 207559006846 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 207559006847 G-X-X-G motif; other site 207559006848 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 207559006849 RxxxH motif; other site 207559006850 membrane protein insertase; Provisional; Region: PRK01318 207559006851 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 207559006852 Haemolytic domain; Region: Haemolytic; pfam01809 207559006853 Ribonuclease P; Region: Ribonuclease_P; pfam00825 207559006854 endonuclease IV; Provisional; Region: PRK01060 207559006855 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; cd00019 207559006856 AP (apurinic/apyrimidinic) site pocket; other site 207559006857 DNA interaction; other site 207559006858 Metal-binding active site; metal-binding site 207559006859 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006860 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 207559006861 YcaO-like family; Region: YcaO; pfam02624 207559006862 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 207559006863 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006864 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006865 Cache domain; Region: Cache_1; pfam02743 207559006866 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 207559006867 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 207559006868 PAS domain; Region: PAS_9; pfam13426 207559006869 putative active site [active] 207559006870 heme pocket [chemical binding]; other site 207559006871 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559006872 dimer interface [polypeptide binding]; other site 207559006873 putative CheW interface [polypeptide binding]; other site 207559006874 phosphodiesterase YaeI; Provisional; Region: PRK11340 207559006875 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559006876 putative active site [active] 207559006877 putative metal binding site [ion binding]; other site 207559006878 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006879 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 207559006880 putative FMN binding site [chemical binding]; other site 207559006881 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 207559006882 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 207559006883 Domain of unknown function DUF77; Region: DUF77; pfam01910 207559006884 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 207559006885 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559006886 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 207559006887 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 207559006888 active site 207559006889 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 207559006890 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559006891 Rhomboid family; Region: Rhomboid; cl11446 207559006892 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 207559006893 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 207559006894 EamA-like transporter family; Region: EamA; pfam00892 207559006895 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 207559006896 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 207559006897 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 207559006898 putative phosphate acyltransferase; Provisional; Region: PRK05331 207559006899 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 207559006900 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 207559006901 dimer interface [polypeptide binding]; other site 207559006902 active site 207559006903 CoA binding pocket [chemical binding]; other site 207559006904 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 207559006905 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 207559006906 NAD(P) binding site [chemical binding]; other site 207559006907 homotetramer interface [polypeptide binding]; other site 207559006908 homodimer interface [polypeptide binding]; other site 207559006909 active site 207559006910 acyl carrier protein; Provisional; Region: acpP; PRK00982 207559006911 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 207559006912 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 207559006913 dimer interface [polypeptide binding]; other site 207559006914 active site 207559006915 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 207559006916 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 207559006917 dimer interface [polypeptide binding]; other site 207559006918 active site 207559006919 glycine-pyridoxal phosphate binding site [chemical binding]; other site 207559006920 folate binding site [chemical binding]; other site 207559006921 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 207559006922 catalytic motif [active] 207559006923 Zn binding site [ion binding]; other site 207559006924 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 207559006925 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 207559006926 catalytic motif [active] 207559006927 Zn binding site [ion binding]; other site 207559006928 RibD C-terminal domain; Region: RibD_C; cl17279 207559006929 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 207559006930 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006931 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006932 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 207559006933 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 207559006934 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 207559006935 dimerization interface [polypeptide binding]; other site 207559006936 active site 207559006937 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 207559006938 homopentamer interface [polypeptide binding]; other site 207559006939 active site 207559006940 transcription antitermination factor NusB; Region: nusB; TIGR01951 207559006941 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 207559006942 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006943 HIGH motif; other site 207559006944 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559006945 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559006946 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006947 active site 207559006948 KMSKS motif; other site 207559006949 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 207559006950 tRNA binding surface [nucleotide binding]; other site 207559006951 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 207559006952 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 207559006953 hypothetical protein; Reviewed; Region: PRK00024 207559006954 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 207559006955 MPN+ (JAMM) motif; other site 207559006956 Zinc-binding site [ion binding]; other site 207559006957 Acylphosphatase; Region: Acylphosphatase; pfam00708 207559006958 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559006959 Found in ATP-dependent protease La (LON); Region: LON; smart00464 207559006960 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 207559006961 Walker A motif; other site 207559006962 ATP binding site [chemical binding]; other site 207559006963 Walker B motif; other site 207559006964 arginine finger; other site 207559006965 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559006966 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 207559006967 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 207559006968 ATP binding site [chemical binding]; other site 207559006969 putative Mg++ binding site [ion binding]; other site 207559006970 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 207559006971 nucleotide binding region [chemical binding]; other site 207559006972 ATP-binding site [chemical binding]; other site 207559006973 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 207559006974 HRDC domain; Region: HRDC; pfam00570 207559006975 GAF domain; Region: GAF; cl17456 207559006976 PAS domain S-box; Region: sensory_box; TIGR00229 207559006977 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 207559006978 putative active site [active] 207559006979 heme pocket [chemical binding]; other site 207559006980 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559006981 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006982 metal binding site [ion binding]; metal-binding site 207559006983 active site 207559006984 I-site; other site 207559006985 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 207559006986 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 207559006987 Domain of unknown function DUF20; Region: UPF0118; pfam01594 207559006988 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 207559006989 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 207559006990 homodimer interface [polypeptide binding]; other site 207559006991 metal binding site [ion binding]; metal-binding site 207559006992 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 207559006993 homodimer interface [polypeptide binding]; other site 207559006994 active site 207559006995 putative chemical substrate binding site [chemical binding]; other site 207559006996 metal binding site [ion binding]; metal-binding site 207559006997 Colicin V production protein; Region: Colicin_V; pfam02674 207559006998 HDOD domain; Region: HDOD; pfam08668 207559006999 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007000 Zn2+ binding site [ion binding]; other site 207559007001 Mg2+ binding site [ion binding]; other site 207559007002 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559007003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007004 active site 207559007005 phosphorylation site [posttranslational modification] 207559007006 intermolecular recognition site; other site 207559007007 dimerization interface [polypeptide binding]; other site 207559007008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007009 Zn2+ binding site [ion binding]; other site 207559007010 Mg2+ binding site [ion binding]; other site 207559007011 Ubiquitin-like proteins; Region: UBQ; cl00155 207559007012 charged pocket; other site 207559007013 hydrophobic patch; other site 207559007014 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 207559007015 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 207559007016 ATP binding site [chemical binding]; other site 207559007017 substrate interface [chemical binding]; other site 207559007018 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 207559007019 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559007020 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559007021 FAD dependent oxidoreductase; Region: DAO; pfam01266 207559007022 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559007023 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 207559007024 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 207559007025 active site 207559007026 motif I; other site 207559007027 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 207559007028 motif II; other site 207559007029 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 207559007030 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 207559007031 ring oligomerisation interface [polypeptide binding]; other site 207559007032 ATP/Mg binding site [chemical binding]; other site 207559007033 stacking interactions; other site 207559007034 hinge regions; other site 207559007035 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 207559007036 oligomerisation interface [polypeptide binding]; other site 207559007037 mobile loop; other site 207559007038 roof hairpin; other site 207559007039 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559007040 ABC transporter ATPase component; Reviewed; Region: PRK11147 207559007041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559007042 Walker A/P-loop; other site 207559007043 ATP binding site [chemical binding]; other site 207559007044 Q-loop/lid; other site 207559007045 ABC transporter signature motif; other site 207559007046 Walker B; other site 207559007047 D-loop; other site 207559007048 H-loop/switch region; other site 207559007049 ABC transporter; Region: ABC_tran_2; pfam12848 207559007050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 207559007051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 207559007052 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 207559007053 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 207559007054 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559007055 ATP binding site [chemical binding]; other site 207559007056 Mg++ binding site [ion binding]; other site 207559007057 motif III; other site 207559007058 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 207559007059 nucleotide binding region [chemical binding]; other site 207559007060 ATP-binding site [chemical binding]; other site 207559007061 Phosphotransferase enzyme family; Region: APH; pfam01636 207559007062 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 207559007063 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 207559007064 LabA_like proteins; Region: LabA_like; cd06167 207559007065 putative metal binding site [ion binding]; other site 207559007066 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 207559007067 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 207559007068 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 207559007069 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 207559007070 Protein of unknown function (DUF554); Region: DUF554; pfam04474 207559007071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559007072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559007073 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 207559007074 putative effector binding pocket; other site 207559007075 dimerization interface [polypeptide binding]; other site 207559007076 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 207559007077 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 207559007078 AAA domain; Region: AAA_14; pfam13173 207559007079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 207559007080 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 207559007081 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 207559007082 ATP binding site [chemical binding]; other site 207559007083 putative Mg++ binding site [ion binding]; other site 207559007084 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 207559007085 nucleotide binding region [chemical binding]; other site 207559007086 ATP-binding site [chemical binding]; other site 207559007087 Fic family protein [Function unknown]; Region: COG3177 207559007088 Fic/DOC family; Region: Fic; pfam02661 207559007089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559007090 AAA domain; Region: AAA_21; pfam13304 207559007091 Walker A/P-loop; other site 207559007092 ATP binding site [chemical binding]; other site 207559007093 AAA domain; Region: AAA_21; pfam13304 207559007094 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007095 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007096 Virulence protein [General function prediction only]; Region: COG3943 207559007097 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 207559007098 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559007099 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559007100 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 207559007101 Methyltransferase domain; Region: Methyltransf_26; pfam13659 207559007102 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559007103 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559007104 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 207559007105 ATP binding site [chemical binding]; other site 207559007106 putative Mg++ binding site [ion binding]; other site 207559007107 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 207559007108 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 207559007109 non-specific DNA binding site [nucleotide binding]; other site 207559007110 salt bridge; other site 207559007111 sequence-specific DNA binding site [nucleotide binding]; other site 207559007112 hypothetical protein; Provisional; Region: PRK04164 207559007113 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 207559007114 putative transporter; Provisional; Region: PRK11660 207559007115 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 207559007116 Sulfate transporter family; Region: Sulfate_transp; pfam00916 207559007117 Sulfate transporter family; Region: Sulfate_transp; pfam00916 207559007118 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 207559007119 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 207559007120 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 207559007121 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 207559007122 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559007123 Winged helix-turn helix; Region: HTH_29; pfam13551 207559007124 Homeodomain-like domain; Region: HTH_32; pfam13565 207559007125 Integrase core domain; Region: rve; pfam00665 207559007126 Protein of unknown function (DUF401); Region: DUF401; cl00830 207559007127 Transglycosylase; Region: Transgly; pfam00912 207559007128 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 207559007129 PAS fold; Region: PAS_3; pfam08447 207559007130 putative active site [active] 207559007131 heme pocket [chemical binding]; other site 207559007132 PAS domain S-box; Region: sensory_box; TIGR00229 207559007133 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 207559007134 putative active site [active] 207559007135 heme pocket [chemical binding]; other site 207559007136 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559007137 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007138 metal binding site [ion binding]; metal-binding site 207559007139 active site 207559007140 I-site; other site 207559007141 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 207559007142 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559007143 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 207559007144 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 207559007145 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 207559007146 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 207559007147 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 207559007148 putative substrate binding site [chemical binding]; other site 207559007149 putative ATP binding site [chemical binding]; other site 207559007150 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 207559007151 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 207559007152 motif II; other site 207559007153 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 207559007154 dimer interface [polypeptide binding]; other site 207559007155 FMN binding site [chemical binding]; other site 207559007156 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 207559007157 FAD binding site [chemical binding]; other site 207559007158 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 207559007159 argininosuccinate lyase; Provisional; Region: PRK00855 207559007160 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 207559007161 active sites [active] 207559007162 tetramer interface [polypeptide binding]; other site 207559007163 argininosuccinate synthase; Provisional; Region: PRK13820 207559007164 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 207559007165 ANP binding site [chemical binding]; other site 207559007166 Substrate Binding Site II [chemical binding]; other site 207559007167 Substrate Binding Site I [chemical binding]; other site 207559007168 ornithine carbamoyltransferase; Provisional; Region: PRK00779 207559007169 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559007170 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 207559007171 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007173 active site 207559007174 phosphorylation site [posttranslational modification] 207559007175 intermolecular recognition site; other site 207559007176 dimerization interface [polypeptide binding]; other site 207559007177 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559007178 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 207559007179 active site 207559007180 hypothetical protein; Provisional; Region: PRK04334 207559007181 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559007182 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559007183 DNA binding residues [nucleotide binding] 207559007184 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559007185 hypothetical protein; Region: PHA01733 207559007186 hypothetical protein; Region: PHA00661 207559007187 hypothetical protein; Region: PHA00662 207559007188 putative protease; Region: PHA00666 207559007189 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 207559007190 hypothetical protein; Region: PHA00670 207559007191 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 207559007192 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 207559007193 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559007194 catalytic residue [active] 207559007195 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 207559007196 CHASE4 domain; Region: CHASE4; pfam05228 207559007197 PAS domain; Region: PAS; smart00091 207559007198 PAS domain; Region: PAS_9; pfam13426 207559007199 putative active site [active] 207559007200 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559007201 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007202 metal binding site [ion binding]; metal-binding site 207559007203 active site 207559007204 I-site; other site 207559007205 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 207559007206 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 207559007207 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 207559007208 peroxiredoxin; Provisional; Region: PRK13189 207559007209 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 207559007210 dimer interface [polypeptide binding]; other site 207559007211 decamer (pentamer of dimers) interface [polypeptide binding]; other site 207559007212 catalytic triad [active] 207559007213 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 207559007214 active site residue [active] 207559007215 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559007216 diiron binding motif [ion binding]; other site 207559007217 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 207559007218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559007219 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007220 Zn2+ binding site [ion binding]; other site 207559007221 Mg2+ binding site [ion binding]; other site 207559007222 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007223 Zn2+ binding site [ion binding]; other site 207559007224 Mg2+ binding site [ion binding]; other site 207559007225 mechanosensitive channel MscS; Provisional; Region: PRK10334 207559007226 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559007227 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 207559007228 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 207559007229 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 207559007230 FeS/SAM binding site; other site 207559007231 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 207559007232 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 207559007233 dimer interface [polypeptide binding]; other site 207559007234 active site 207559007235 Schiff base residues; other site 207559007236 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 207559007237 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 207559007238 FeS/SAM binding site; other site 207559007239 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 207559007240 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 207559007241 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 207559007242 Transcriptional regulators [Transcription]; Region: GntR; COG1802 207559007243 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559007244 DNA-binding site [nucleotide binding]; DNA binding site 207559007245 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 207559007246 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559007247 D-cysteine desulfhydrase; Validated; Region: PRK03910 207559007248 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 207559007249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007250 catalytic residue [active] 207559007251 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 207559007252 homotrimer interaction site [polypeptide binding]; other site 207559007253 putative active site [active] 207559007254 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 207559007255 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007256 substrate binding pocket [chemical binding]; other site 207559007257 membrane-bound complex binding site; other site 207559007258 hinge residues; other site 207559007259 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 207559007260 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007261 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007262 dimer interface [polypeptide binding]; other site 207559007263 putative CheW interface [polypeptide binding]; other site 207559007264 Putative exonuclease, RdgC; Region: RdgC; cl01122 207559007265 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559007266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559007267 dimer interface [polypeptide binding]; other site 207559007268 conserved gate region; other site 207559007269 putative PBP binding loops; other site 207559007270 ABC-ATPase subunit interface; other site 207559007271 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 207559007272 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559007273 dimer interface [polypeptide binding]; other site 207559007274 conserved gate region; other site 207559007275 putative PBP binding loops; other site 207559007276 ABC-ATPase subunit interface; other site 207559007277 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 207559007278 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 207559007279 Walker A/P-loop; other site 207559007280 ATP binding site [chemical binding]; other site 207559007281 Q-loop/lid; other site 207559007282 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 207559007283 ABC transporter signature motif; other site 207559007284 Walker B; other site 207559007285 D-loop; other site 207559007286 H-loop/switch region; other site 207559007287 ribonuclease R; Region: RNase_R; TIGR02063 207559007288 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 207559007289 RNB domain; Region: RNB; pfam00773 207559007290 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 207559007291 RNA binding site [nucleotide binding]; other site 207559007292 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 207559007293 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 207559007294 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 207559007295 DsrE/DsrF-like family; Region: DrsE; cl00672 207559007296 N-terminal putative catalytic domain of mainly uncharacterized prokaryotic proteins similar to archaeal thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU_like_1; cd10797 207559007297 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 207559007298 active site 207559007299 catalytic site [active] 207559007300 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 207559007301 FOG: CBS domain [General function prediction only]; Region: COG0517 207559007302 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 207559007303 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 207559007304 HD domain; Region: HD_3; pfam13023 207559007305 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 207559007306 23S rRNA interface [nucleotide binding]; other site 207559007307 L3 interface [polypeptide binding]; other site 207559007308 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 207559007309 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559007310 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 207559007311 ADP binding site [chemical binding]; other site 207559007312 magnesium binding site [ion binding]; other site 207559007313 putative shikimate binding site; other site 207559007314 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559007315 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 207559007316 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 207559007317 GatB domain; Region: GatB_Yqey; smart00845 207559007318 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 207559007319 Protein of unknown function DUF89; Region: DUF89; cl15397 207559007320 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 207559007321 ATP-NAD kinase; Region: NAD_kinase; pfam01513 207559007322 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 207559007323 dimer interface [polypeptide binding]; other site 207559007324 active site 207559007325 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 207559007326 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 207559007327 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 207559007328 domain interfaces; other site 207559007329 active site 207559007330 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 207559007331 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 207559007332 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 207559007333 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 207559007334 Probable Catalytic site; other site 207559007335 AAA domain; Region: AAA_32; pfam13654 207559007336 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 207559007337 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 207559007338 Phosphoglycerate kinase; Region: PGK; pfam00162 207559007339 substrate binding site [chemical binding]; other site 207559007340 hinge regions; other site 207559007341 ADP binding site [chemical binding]; other site 207559007342 catalytic site [active] 207559007343 transketolase; Reviewed; Region: PRK12753 207559007344 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 207559007345 TPP-binding site [chemical binding]; other site 207559007346 dimer interface [polypeptide binding]; other site 207559007347 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 207559007348 PYR/PP interface [polypeptide binding]; other site 207559007349 dimer interface [polypeptide binding]; other site 207559007350 TPP binding site [chemical binding]; other site 207559007351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559007352 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 207559007353 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 207559007354 substrate binding site [chemical binding]; other site 207559007355 hexamer interface [polypeptide binding]; other site 207559007356 metal binding site [ion binding]; metal-binding site 207559007357 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 207559007358 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559007359 DNA binding residues [nucleotide binding] 207559007360 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 207559007361 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 207559007362 putative tRNA-binding site [nucleotide binding]; other site 207559007363 B3/4 domain; Region: B3_4; pfam03483 207559007364 tRNA synthetase B5 domain; Region: B5; pfam03484 207559007365 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 207559007366 dimer interface [polypeptide binding]; other site 207559007367 motif 1; other site 207559007368 motif 3; other site 207559007369 motif 2; other site 207559007370 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 207559007371 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 207559007372 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 207559007373 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 207559007374 dimer interface [polypeptide binding]; other site 207559007375 motif 1; other site 207559007376 active site 207559007377 motif 2; other site 207559007378 motif 3; other site 207559007379 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 207559007380 23S rRNA binding site [nucleotide binding]; other site 207559007381 L21 binding site [polypeptide binding]; other site 207559007382 L13 binding site [polypeptide binding]; other site 207559007383 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 207559007384 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 207559007385 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 207559007386 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 207559007387 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 207559007388 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 207559007389 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 207559007390 active site 207559007391 dimer interface [polypeptide binding]; other site 207559007392 motif 1; other site 207559007393 motif 2; other site 207559007394 motif 3; other site 207559007395 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 207559007396 anticodon binding site; other site 207559007397 hybrid cluster protein; Provisional; Region: PRK05290 207559007398 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 207559007399 ACS interaction site; other site 207559007400 CODH interaction site; other site 207559007401 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 207559007402 hybrid metal cluster; other site 207559007403 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559007404 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 207559007405 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 207559007406 Ligand Binding Site [chemical binding]; other site 207559007407 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559007408 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 207559007409 ligand binding site [chemical binding]; other site 207559007410 flexible hinge region; other site 207559007411 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 207559007412 putative switch regulator; other site 207559007413 non-specific DNA interactions [nucleotide binding]; other site 207559007414 DNA binding site [nucleotide binding] 207559007415 sequence specific DNA binding site [nucleotide binding]; other site 207559007416 putative cAMP binding site [chemical binding]; other site 207559007417 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559007418 homodimer interaction site [polypeptide binding]; other site 207559007419 cofactor binding site; other site 207559007420 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 207559007421 CoenzymeA binding site [chemical binding]; other site 207559007422 subunit interaction site [polypeptide binding]; other site 207559007423 PHB binding site; other site 207559007424 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 207559007425 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559007426 HIGH motif; other site 207559007427 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559007428 active site 207559007429 KMSKS motif; other site 207559007430 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 207559007431 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559007432 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 207559007433 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 207559007434 putative DNA binding site [nucleotide binding]; other site 207559007435 putative Zn2+ binding site [ion binding]; other site 207559007436 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 207559007437 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 207559007438 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 207559007439 biotin synthase; Region: bioB; TIGR00433 207559007440 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 207559007441 FeS/SAM binding site; other site 207559007442 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 207559007443 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 207559007444 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 207559007445 inhibitor-cofactor binding pocket; inhibition site 207559007446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559007447 catalytic residue [active] 207559007448 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 207559007449 active site 2 [active] 207559007450 active site 1 [active] 207559007451 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007452 active site 207559007453 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559007454 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 207559007455 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 207559007456 dimer interface [polypeptide binding]; other site 207559007457 active site 207559007458 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 207559007459 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 207559007460 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007461 catalytic residue [active] 207559007462 AAA domain; Region: AAA_26; pfam13500 207559007463 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 207559007464 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559007465 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559007466 active site 207559007467 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559007468 substrate binding site [chemical binding]; other site 207559007469 catalytic residues [active] 207559007470 dimer interface [polypeptide binding]; other site 207559007471 Predicted transcriptional regulators [Transcription]; Region: COG1378 207559007472 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 207559007473 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 207559007474 C-terminal domain interface [polypeptide binding]; other site 207559007475 sugar binding site [chemical binding]; other site 207559007476 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559007477 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 207559007478 metal binding site [ion binding]; metal-binding site 207559007479 dimer interface [polypeptide binding]; other site 207559007480 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 207559007481 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 207559007482 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559007483 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 207559007484 G1 box; other site 207559007485 GTP/Mg2+ binding site [chemical binding]; other site 207559007486 Switch I region; other site 207559007487 G2 box; other site 207559007488 G3 box; other site 207559007489 Switch II region; other site 207559007490 G4 box; other site 207559007491 G5 box; other site 207559007492 Nucleoside recognition; Region: Gate; pfam07670 207559007493 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559007494 Nucleoside recognition; Region: Gate; pfam07670 207559007495 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 207559007496 FeoA domain; Region: FeoA; pfam04023 207559007497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559007498 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007499 active site 207559007500 phosphorylation site [posttranslational modification] 207559007501 intermolecular recognition site; other site 207559007502 dimerization interface [polypeptide binding]; other site 207559007503 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 207559007504 DNA binding residues [nucleotide binding] 207559007505 dimerization interface [polypeptide binding]; other site 207559007506 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559007507 metal binding site 2 [ion binding]; metal-binding site 207559007508 putative DNA binding helix; other site 207559007509 metal binding site 1 [ion binding]; metal-binding site 207559007510 dimer interface [polypeptide binding]; other site 207559007511 structural Zn2+ binding site [ion binding]; other site 207559007512 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 207559007513 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559007514 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559007515 Peptidase M16C associated; Region: M16C_assoc; pfam08367 207559007516 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559007517 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007518 metal binding site [ion binding]; metal-binding site 207559007519 active site 207559007520 I-site; other site 207559007521 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 207559007522 DNA binding domain, excisionase family; Region: excise; TIGR01764 207559007523 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 207559007524 PAS domain; Region: PAS_9; pfam13426 207559007525 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559007526 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007527 ATP binding site [chemical binding]; other site 207559007528 Mg2+ binding site [ion binding]; other site 207559007529 G-X-G motif; other site 207559007530 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 207559007531 dimer interface [polypeptide binding]; other site 207559007532 substrate binding site [chemical binding]; other site 207559007533 ATP binding site [chemical binding]; other site 207559007534 gamma-glutamyl kinase; Provisional; Region: PRK05429 207559007535 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 207559007536 nucleotide binding site [chemical binding]; other site 207559007537 homotetrameric interface [polypeptide binding]; other site 207559007538 putative phosphate binding site [ion binding]; other site 207559007539 putative allosteric binding site; other site 207559007540 PUA domain; Region: PUA; pfam01472 207559007541 GTPase CgtA; Reviewed; Region: obgE; PRK12299 207559007542 GTP1/OBG; Region: GTP1_OBG; pfam01018 207559007543 Obg GTPase; Region: Obg; cd01898 207559007544 G1 box; other site 207559007545 GTP/Mg2+ binding site [chemical binding]; other site 207559007546 Switch I region; other site 207559007547 G2 box; other site 207559007548 G3 box; other site 207559007549 Switch II region; other site 207559007550 G4 box; other site 207559007551 G5 box; other site 207559007552 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 207559007553 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 207559007554 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 207559007555 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 207559007556 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 207559007557 substrate binding site; other site 207559007558 tetramer interface; other site 207559007559 TRAM domain; Region: TRAM; pfam01938 207559007560 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 207559007561 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 207559007562 S-adenosylmethionine binding site [chemical binding]; other site 207559007563 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 207559007564 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 207559007565 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 207559007566 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 207559007567 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 207559007568 CoA binding domain; Region: CoA_binding; pfam02629 207559007569 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 207559007570 cobalamin synthase; Reviewed; Region: cobS; PRK00235 207559007571 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 207559007572 Uncharacterized conserved protein [Function unknown]; Region: COG3334 207559007573 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 207559007574 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 207559007575 dimerization interface 3.5A [polypeptide binding]; other site 207559007576 active site 207559007577 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 207559007578 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 207559007579 catalytic loop [active] 207559007580 iron binding site [ion binding]; other site 207559007581 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 207559007582 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 207559007583 Alpha-helical domain of GINS complex proteins; Sld5, Psf1, Psf2 and Psf3; Region: GINS_A; cl17012 207559007584 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559007585 lipoyl synthase; Provisional; Region: PRK05481 207559007586 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 207559007587 FeS/SAM binding site; other site 207559007588 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 207559007589 DHH family; Region: DHH; pfam01368 207559007590 DHHA1 domain; Region: DHHA1; pfam02272 207559007591 HDOD domain; Region: HDOD; pfam08668 207559007592 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559007593 Zn2+ binding site [ion binding]; other site 207559007594 Mg2+ binding site [ion binding]; other site 207559007595 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559007596 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 207559007597 binding surface 207559007598 TPR motif; other site 207559007599 TPR repeat; Region: TPR_11; pfam13414 207559007600 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 207559007601 active site 207559007602 dimer interface [polypeptide binding]; other site 207559007603 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 207559007604 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 207559007605 catalytic site [active] 207559007606 G-X2-G-X-G-K; other site 207559007607 hypothetical protein; Provisional; Region: PRK04323 207559007608 hypothetical protein; Provisional; Region: PRK11820 207559007609 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 207559007610 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 207559007611 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559007612 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 207559007613 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 207559007614 FeS/SAM binding site; other site 207559007615 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 207559007616 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 207559007617 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 207559007618 NlpC/P60 family; Region: NLPC_P60; cl17555 207559007619 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 207559007620 AAA domain; Region: AAA_30; pfam13604 207559007621 Family description; Region: UvrD_C_2; pfam13538 207559007622 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 207559007623 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 207559007624 Tetramer interface [polypeptide binding]; other site 207559007625 active site 207559007626 FMN-binding site [chemical binding]; other site 207559007627 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 207559007628 Ligand Binding Site [chemical binding]; other site 207559007629 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559007630 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 207559007631 ADP binding site [chemical binding]; other site 207559007632 magnesium binding site [ion binding]; other site 207559007633 putative shikimate binding site; other site 207559007634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007635 putative substrate translocation pore; other site 207559007636 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 207559007637 aminotransferase; Validated; Region: PRK08175 207559007638 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 207559007639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559007640 homodimer interface [polypeptide binding]; other site 207559007641 catalytic residue [active] 207559007642 homoserine dehydrogenase; Provisional; Region: PRK06349 207559007643 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 207559007644 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 207559007645 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 207559007646 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 207559007647 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 207559007648 MltA specific insert domain; Region: MltA; smart00925 207559007649 3D domain; Region: 3D; pfam06725 207559007650 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 207559007651 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 207559007652 HAMP domain; Region: HAMP; pfam00672 207559007653 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007654 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007655 dimer interface [polypeptide binding]; other site 207559007656 putative CheW interface [polypeptide binding]; other site 207559007657 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 207559007658 active site 207559007659 Amidohydrolase; Region: Amidohydro_2; pfam04909 207559007660 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 207559007661 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 207559007662 catalytic residues [active] 207559007663 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 207559007664 elongation factor G; Reviewed; Region: PRK12740 207559007665 G1 box; other site 207559007666 putative GEF interaction site [polypeptide binding]; other site 207559007667 GTP/Mg2+ binding site [chemical binding]; other site 207559007668 Switch I region; other site 207559007669 G2 box; other site 207559007670 G3 box; other site 207559007671 Switch II region; other site 207559007672 G4 box; other site 207559007673 G5 box; other site 207559007674 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 207559007675 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 207559007676 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 207559007677 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 207559007678 dimer interface [polypeptide binding]; other site 207559007679 pyridoxal binding site [chemical binding]; other site 207559007680 ATP binding site [chemical binding]; other site 207559007681 glutamate racemase; Provisional; Region: PRK00865 207559007682 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 207559007683 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007684 catalytic residue [active] 207559007685 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 207559007686 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 207559007687 Rubredoxin; Region: Rubredoxin; pfam00301 207559007688 iron binding site [ion binding]; other site 207559007689 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 207559007690 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 207559007691 MOFRL family; Region: MOFRL; pfam05161 207559007692 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 207559007693 IHF dimer interface [polypeptide binding]; other site 207559007694 IHF - DNA interface [nucleotide binding]; other site 207559007695 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 207559007696 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 207559007697 TPR repeat; Region: TPR_11; pfam13414 207559007698 binding surface 207559007699 TPR motif; other site 207559007700 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 207559007701 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 207559007702 PilZ domain; Region: PilZ; pfam07238 207559007703 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 207559007704 TPR repeat; Region: TPR_11; pfam13414 207559007705 TPR motif; other site 207559007706 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007707 ATP binding site [chemical binding]; other site 207559007708 Mg2+ binding site [ion binding]; other site 207559007709 G-X-G motif; other site 207559007710 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559007711 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559007712 Walker A/P-loop; other site 207559007713 ATP binding site [chemical binding]; other site 207559007714 Q-loop/lid; other site 207559007715 ABC transporter signature motif; other site 207559007716 Walker B; other site 207559007717 D-loop; other site 207559007718 H-loop/switch region; other site 207559007719 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007720 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 207559007721 substrate binding pocket [chemical binding]; other site 207559007722 membrane-bound complex binding site; other site 207559007723 hinge residues; other site 207559007724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559007725 dimer interface [polypeptide binding]; other site 207559007726 conserved gate region; other site 207559007727 putative PBP binding loops; other site 207559007728 ABC-ATPase subunit interface; other site 207559007729 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559007730 dimer interface [polypeptide binding]; other site 207559007731 conserved gate region; other site 207559007732 putative PBP binding loops; other site 207559007733 ABC-ATPase subunit interface; other site 207559007734 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007735 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 207559007736 putative ADP-binding pocket [chemical binding]; other site 207559007737 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 207559007738 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559007739 ATP-grasp domain; Region: ATP-grasp; pfam02222 207559007740 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559007741 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007742 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 207559007743 dimerization interface [polypeptide binding]; other site 207559007744 PAS domain S-box; Region: sensory_box; TIGR00229 207559007745 PAS domain; Region: PAS_8; pfam13188 207559007746 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 207559007747 dimer interface [polypeptide binding]; other site 207559007748 phosphorylation site [posttranslational modification] 207559007749 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007750 ATP binding site [chemical binding]; other site 207559007751 Mg2+ binding site [ion binding]; other site 207559007752 G-X-G motif; other site 207559007753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007754 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007755 active site 207559007756 phosphorylation site [posttranslational modification] 207559007757 intermolecular recognition site; other site 207559007758 dimerization interface [polypeptide binding]; other site 207559007759 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 207559007760 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 207559007761 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 207559007762 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 207559007763 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 207559007764 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559007765 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 207559007766 catalytic residues [active] 207559007767 catalytic nucleophile [active] 207559007768 Recombinase; Region: Recombinase; pfam07508 207559007769 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559007770 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 207559007771 putative DNA binding site [nucleotide binding]; other site 207559007772 dimerization interface [polypeptide binding]; other site 207559007773 putative Zn2+ binding site [ion binding]; other site 207559007774 Predicted permeases [General function prediction only]; Region: COG0701 207559007775 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 207559007776 DGC domain; Region: DGC; cl01742 207559007777 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 207559007778 catalytic residues [active] 207559007779 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 207559007780 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559007781 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 207559007782 active site residue [active] 207559007783 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 207559007784 active site residue [active] 207559007785 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559007786 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559007787 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 207559007788 dimerization interface [polypeptide binding]; other site 207559007789 putative DNA binding site [nucleotide binding]; other site 207559007790 putative Zn2+ binding site [ion binding]; other site 207559007791 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 207559007792 arsenical-resistance protein; Region: acr3; TIGR00832 207559007793 Low molecular weight phosphatase family; Region: LMWPc; cl00105 207559007794 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007795 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 207559007796 active site 207559007797 Prophage antirepressor [Transcription]; Region: COG3617 207559007798 BRO family, N-terminal domain; Region: Bro-N; smart01040 207559007799 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559007800 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559007801 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559007802 putative dimer interface [polypeptide binding]; other site 207559007803 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 207559007804 Restriction endonuclease; Region: Mrr_cat; pfam04471 207559007805 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559007806 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 207559007807 catalytic residues [active] 207559007808 catalytic nucleophile [active] 207559007809 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559007810 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559007811 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559007812 Synaptic Site I dimer interface [polypeptide binding]; other site 207559007813 DNA binding site [nucleotide binding] 207559007814 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559007815 DNA-binding interface [nucleotide binding]; DNA binding site 207559007816 BRO family, N-terminal domain; Region: Bro-N; smart01040 207559007817 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 207559007818 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559007819 Catalytic site; other site 207559007820 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 207559007821 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 207559007822 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559007823 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 207559007824 HAMP domain; Region: HAMP; pfam00672 207559007825 dimerization interface [polypeptide binding]; other site 207559007826 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007827 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007828 dimer interface [polypeptide binding]; other site 207559007829 putative CheW interface [polypeptide binding]; other site 207559007830 Hemerythrin; Region: Hemerythrin; cd12107 207559007831 Fe binding site [ion binding]; other site 207559007832 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 207559007833 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 207559007834 Catalytic site [active] 207559007835 GTP-binding protein LepA; Provisional; Region: PRK05433 207559007836 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 207559007837 G1 box; other site 207559007838 putative GEF interaction site [polypeptide binding]; other site 207559007839 GTP/Mg2+ binding site [chemical binding]; other site 207559007840 Switch I region; other site 207559007841 G2 box; other site 207559007842 G3 box; other site 207559007843 Switch II region; other site 207559007844 G4 box; other site 207559007845 G5 box; other site 207559007846 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 207559007847 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 207559007848 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 207559007849 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559007850 dimer interface [polypeptide binding]; other site 207559007851 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 207559007852 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007853 active site 207559007854 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 207559007855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007856 active site 207559007857 phosphorylation site [posttranslational modification] 207559007858 intermolecular recognition site; other site 207559007859 dimerization interface [polypeptide binding]; other site 207559007860 LytTr DNA-binding domain; Region: LytTR; smart00850 207559007861 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559007862 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 207559007863 active site 207559007864 CoA binding site [chemical binding]; other site 207559007865 acyl-activating enzyme (AAE) consensus motif; other site 207559007866 AMP binding site [chemical binding]; other site 207559007867 acetate binding site [chemical binding]; other site 207559007868 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007870 active site 207559007871 phosphorylation site [posttranslational modification] 207559007872 intermolecular recognition site; other site 207559007873 dimerization interface [polypeptide binding]; other site 207559007874 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 207559007875 PAS domain; Region: PAS_9; pfam13426 207559007876 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559007877 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 207559007878 Walker A motif; other site 207559007879 ATP binding site [chemical binding]; other site 207559007880 Walker B motif; other site 207559007881 arginine finger; other site 207559007882 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559007883 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 207559007884 PAS fold; Region: PAS_4; pfam08448 207559007885 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 207559007886 PAS domain; Region: PAS_9; pfam13426 207559007887 putative active site [active] 207559007888 heme pocket [chemical binding]; other site 207559007889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559007890 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 207559007891 dimer interface [polypeptide binding]; other site 207559007892 phosphorylation site [posttranslational modification] 207559007893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007894 ATP binding site [chemical binding]; other site 207559007895 Mg2+ binding site [ion binding]; other site 207559007896 G-X-G motif; other site 207559007897 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 207559007898 Ligand Binding Site [chemical binding]; other site 207559007899 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 207559007900 Ligand Binding Site [chemical binding]; other site 207559007901 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007902 putative substrate translocation pore; other site 207559007903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559007904 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 207559007905 AMMECR1; Region: AMMECR1; pfam01871 207559007906 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559007907 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 207559007908 ligand binding site [chemical binding]; other site 207559007909 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007910 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007911 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 207559007912 dimer interface [polypeptide binding]; other site 207559007913 phosphorylation site [posttranslational modification] 207559007914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007915 ATP binding site [chemical binding]; other site 207559007916 Mg2+ binding site [ion binding]; other site 207559007917 G-X-G motif; other site 207559007918 LysE type translocator; Region: LysE; cl00565 207559007919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559007920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559007921 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 207559007922 substrate binding pocket [chemical binding]; other site 207559007923 dimerization interface [polypeptide binding]; other site 207559007924 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 207559007925 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 207559007926 active site 207559007927 substrate binding site [chemical binding]; other site 207559007928 cosubstrate binding site; other site 207559007929 catalytic site [active] 207559007930 MOSC domain; Region: MOSC; pfam03473 207559007931 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 207559007932 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 207559007933 active site 207559007934 SAM binding site [chemical binding]; other site 207559007935 homodimer interface [polypeptide binding]; other site 207559007936 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 207559007937 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 207559007938 active site 207559007939 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 207559007940 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007941 HIGH motif; other site 207559007942 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559007943 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007944 active site 207559007945 KMSKS motif; other site 207559007946 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 207559007947 tRNA binding surface [nucleotide binding]; other site 207559007948 anticodon binding site; other site 207559007949 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 207559007950 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 207559007951 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 207559007952 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 207559007953 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 207559007954 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 207559007955 putative active site [active] 207559007956 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007957 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 207559007958 catalytic residues [active] 207559007959 Transposase domain (DUF772); Region: DUF772; pfam05598 207559007960 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007961 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 207559007962 amino acid carrier protein; Region: agcS; TIGR00835 207559007963 EamA-like transporter family; Region: EamA; pfam00892 207559007964 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559007965 EamA-like transporter family; Region: EamA; pfam00892 207559007966 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 207559007967 dimerization interface [polypeptide binding]; other site 207559007968 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 207559007969 PAS domain; Region: PAS_9; pfam13426 207559007970 putative active site [active] 207559007971 heme pocket [chemical binding]; other site 207559007972 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007973 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007974 dimer interface [polypeptide binding]; other site 207559007975 putative CheW interface [polypeptide binding]; other site 207559007976 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 207559007977 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559007978 Winged helix-turn helix; Region: HTH_29; pfam13551 207559007979 Homeodomain-like domain; Region: HTH_32; pfam13565 207559007980 Integrase core domain; Region: rve; pfam00665 207559007981 Domain of unknown function (DUF697); Region: DUF697; cl12064 207559007982 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 207559007983 active site 207559007984 catalytic residues [active] 207559007985 DNA binding site [nucleotide binding] 207559007986 Int/Topo IB signature motif; other site 207559007987 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 207559007988 Fic/DOC family; Region: Fic; cl00960 207559007989 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559007990 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559007991 Methyltransferase domain; Region: Methyltransf_26; pfam13659 207559007992 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559007993 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007994 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559007995 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007996 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559007997 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559007998 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 207559007999 ATP binding site [chemical binding]; other site 207559008000 putative Mg++ binding site [ion binding]; other site 207559008001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 207559008002 Transposase; Region: DDE_Tnp_ISL3; pfam01610 207559008003 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559008004 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 207559008005 active site 207559008006 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 207559008007 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 207559008008 GDP-Fucose binding site [chemical binding]; other site 207559008009 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 207559008010 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 207559008011 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559008012 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 207559008013 active site 207559008014 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 207559008015 S-adenosylmethionine binding site [chemical binding]; other site 207559008016 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559008017 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 207559008018 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 207559008019 trimer interface [polypeptide binding]; other site 207559008020 active site 207559008021 substrate binding site [chemical binding]; other site 207559008022 CoA binding site [chemical binding]; other site 207559008023 Methyltransferase domain; Region: Methyltransf_11; pfam08241 207559008024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559008025 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 207559008026 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 207559008027 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559008028 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 207559008029 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559008030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008031 NAD(P) binding site [chemical binding]; other site 207559008032 active site 207559008033 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559008034 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 207559008035 active site 207559008036 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 207559008037 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559008038 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 207559008039 putative ADP-binding pocket [chemical binding]; other site 207559008040 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559008041 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 207559008042 active site 207559008043 dimer interface [polypeptide binding]; other site 207559008044 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 207559008045 Ligand Binding Site [chemical binding]; other site 207559008046 Molecular Tunnel; other site 207559008047 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 207559008048 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559008049 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 207559008050 S-adenosylmethionine binding site [chemical binding]; other site 207559008051 Methyltransferase domain; Region: Methyltransf_24; pfam13578 207559008052 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 207559008053 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559008054 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 207559008055 Walker A/P-loop; other site 207559008056 ATP binding site [chemical binding]; other site 207559008057 Q-loop/lid; other site 207559008058 ABC transporter signature motif; other site 207559008059 Walker B; other site 207559008060 D-loop; other site 207559008061 H-loop/switch region; other site 207559008062 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 207559008063 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 207559008064 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559008065 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559008066 NADP binding site [chemical binding]; other site 207559008067 active site 207559008068 putative substrate binding site [chemical binding]; other site 207559008069 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 207559008070 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559008071 NADP-binding site; other site 207559008072 homotetramer interface [polypeptide binding]; other site 207559008073 substrate binding site [chemical binding]; other site 207559008074 homodimer interface [polypeptide binding]; other site 207559008075 active site 207559008076 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 207559008077 Predicted transcriptional regulator [Transcription]; Region: COG3905 207559008078 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559008079 DNA-binding interface [nucleotide binding]; DNA binding site 207559008080 Winged helix-turn helix; Region: HTH_29; pfam13551 207559008081 transposase/IS protein; Provisional; Region: PRK09183 207559008082 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 207559008083 Walker A motif; other site 207559008084 ATP binding site [chemical binding]; other site 207559008085 Walker B motif; other site 207559008086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559008087 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559008088 DNA-binding interface [nucleotide binding]; DNA binding site 207559008089 Integrase core domain; Region: rve; pfam00665 207559008090 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 207559008091 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 207559008092 Fic family protein [Function unknown]; Region: COG3177 207559008093 Fic/DOC family; Region: Fic; pfam02661 207559008094 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559008095 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559008096 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 207559008097 metal ion-dependent adhesion site (MIDAS); other site 207559008098 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559008099 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559008100 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 207559008101 Walker A motif; other site 207559008102 ATP binding site [chemical binding]; other site 207559008103 Walker B motif; other site 207559008104 arginine finger; other site 207559008105 ERF superfamily; Region: ERF; pfam04404 207559008106 putative selenate reductase, YgfK subunit; Region: Se_ygfK; TIGR03315 207559008107 Domain of unknown function (DUF927); Region: DUF927; cl12098 207559008108 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559008109 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 207559008110 dimer interface [polypeptide binding]; other site 207559008111 phosphorylation site [posttranslational modification] 207559008112 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008113 ATP binding site [chemical binding]; other site 207559008114 Mg2+ binding site [ion binding]; other site 207559008115 G-X-G motif; other site 207559008116 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008118 active site 207559008119 phosphorylation site [posttranslational modification] 207559008120 intermolecular recognition site; other site 207559008121 dimerization interface [polypeptide binding]; other site 207559008122 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 207559008123 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 207559008124 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 207559008125 Substrate binding site; other site 207559008126 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 207559008127 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559008128 heme-binding residues [chemical binding]; other site 207559008129 The MopB_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding (MopB) proteins. This CD is of the PHLH region homologous to the catalytic molybdopterin-binding subunit of MopB homologs; Region: MopB_PHLH; cd02764 207559008130 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559008131 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 207559008132 putative molybdopterin cofactor binding site; other site 207559008133 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559008134 4Fe-4S binding domain; Region: Fer4; cl02805 207559008135 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 207559008136 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 207559008137 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 207559008138 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559008139 Flagellar protein YcgR; Region: YcgR_2; pfam12945 207559008140 PilZ domain; Region: PilZ; pfam07238 207559008141 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 207559008142 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559008143 active site 207559008144 Repair protein; Region: Repair_PSII; pfam04536 207559008145 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559008146 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 207559008147 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559008148 4Fe-4S binding domain; Region: Fer4; pfam00037 207559008149 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 207559008150 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 207559008151 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 207559008152 active site 207559008153 substrate binding site [chemical binding]; other site 207559008154 metal binding site [ion binding]; metal-binding site 207559008155 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 207559008156 HflK protein; Region: hflK; TIGR01933 207559008157 HflC protein; Region: hflC; TIGR01932 207559008158 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 207559008159 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 207559008160 sequence-specific DNA binding site [nucleotide binding]; other site 207559008161 Predicted transcriptional regulator [Transcription]; Region: COG2932 207559008162 salt bridge; other site 207559008163 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 207559008164 Catalytic site [active] 207559008165 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008166 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 207559008167 substrate binding pocket [chemical binding]; other site 207559008168 membrane-bound complex binding site; other site 207559008169 hinge residues; other site 207559008170 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 207559008171 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008172 putative active site [active] 207559008173 heme pocket [chemical binding]; other site 207559008174 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 207559008175 dimer interface [polypeptide binding]; other site 207559008176 phosphorylation site [posttranslational modification] 207559008177 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008178 ATP binding site [chemical binding]; other site 207559008179 Mg2+ binding site [ion binding]; other site 207559008180 G-X-G motif; other site 207559008181 PAS domain; Region: PAS_9; pfam13426 207559008182 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008183 PAS domain; Region: PAS; smart00091 207559008184 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 207559008185 dimer interface [polypeptide binding]; other site 207559008186 phosphorylation site [posttranslational modification] 207559008187 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008188 ATP binding site [chemical binding]; other site 207559008189 Mg2+ binding site [ion binding]; other site 207559008190 G-X-G motif; other site 207559008191 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008192 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008193 active site 207559008194 phosphorylation site [posttranslational modification] 207559008195 intermolecular recognition site; other site 207559008196 dimerization interface [polypeptide binding]; other site 207559008197 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 207559008198 Walker A motif; other site 207559008199 ATP binding site [chemical binding]; other site 207559008200 Walker B motif; other site 207559008201 arginine finger; other site 207559008202 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559008203 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559008204 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 207559008205 Walker A/P-loop; other site 207559008206 ATP binding site [chemical binding]; other site 207559008207 Q-loop/lid; other site 207559008208 ABC transporter signature motif; other site 207559008209 Walker B; other site 207559008210 D-loop; other site 207559008211 H-loop/switch region; other site 207559008212 BioY family; Region: BioY; pfam02632 207559008213 Predicted methyltransferase [General function prediction only]; Region: COG3897 207559008214 nickel responsive regulator; Provisional; Region: PRK04460 207559008215 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 207559008216 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 207559008217 putative GTP cyclohydrolase; Provisional; Region: PRK13674 207559008218 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559008219 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 207559008220 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559008221 Walker A motif; other site 207559008222 ATP binding site [chemical binding]; other site 207559008223 Walker B motif; other site 207559008224 arginine finger; other site 207559008225 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 207559008226 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559008227 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 207559008228 binding surface 207559008229 TPR motif; other site 207559008230 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 207559008231 binding surface 207559008232 TPR motif; other site 207559008233 TPR repeat; Region: TPR_11; pfam13414 207559008234 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 207559008235 putative ligand binding pocket/active site [active] 207559008236 putative metal binding site [ion binding]; other site 207559008237 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 207559008238 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 207559008239 active site 207559008240 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 207559008241 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559008242 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 207559008243 dihydroorotase; Validated; Region: pyrC; PRK09357 207559008244 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 207559008245 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 207559008246 active site 207559008247 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559008248 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 207559008249 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 207559008250 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 207559008251 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 207559008252 FeS/SAM binding site; other site 207559008253 Cache domain; Region: Cache_1; pfam02743 207559008254 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 207559008255 dimerization interface [polypeptide binding]; other site 207559008256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008258 dimer interface [polypeptide binding]; other site 207559008259 putative CheW interface [polypeptide binding]; other site 207559008260 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 207559008261 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 207559008262 active site 207559008263 DNA binding site [nucleotide binding] 207559008264 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 207559008265 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 207559008266 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 207559008267 Catalytic site [active] 207559008268 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559008269 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 207559008270 MarR family; Region: MarR; pfam01047 207559008271 MarR family; Region: MarR_2; cl17246 207559008272 Predicted membrane protein [Function unknown]; Region: COG1971 207559008273 Domain of unknown function DUF; Region: DUF204; pfam02659 207559008274 Domain of unknown function DUF; Region: DUF204; pfam02659 207559008275 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; cl00391 207559008276 active site clefts [active] 207559008277 zinc binding site [ion binding]; other site 207559008278 dimer interface [polypeptide binding]; other site 207559008279 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 207559008280 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 207559008281 RNA binding surface [nucleotide binding]; other site 207559008282 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 207559008283 S-adenosylmethionine binding site [chemical binding]; other site 207559008284 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 207559008285 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 207559008286 peptide chain release factor 1; Validated; Region: prfA; PRK00591 207559008287 This domain is found in peptide chain release factors; Region: PCRF; smart00937 207559008288 RF-1 domain; Region: RF-1; pfam00472 207559008289 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 207559008290 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 207559008291 S-adenosylmethionine binding site [chemical binding]; other site 207559008292 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 207559008293 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 207559008294 putative transposase OrfB; Reviewed; Region: PHA02517 207559008295 Integrase core domain; Region: rve; pfam00665 207559008296 Integrase core domain; Region: rve_3; pfam13683 207559008297 elongation factor Tu; Reviewed; Region: PRK00049 207559008298 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 207559008299 G1 box; other site 207559008300 GEF interaction site [polypeptide binding]; other site 207559008301 GTP/Mg2+ binding site [chemical binding]; other site 207559008302 Switch I region; other site 207559008303 G2 box; other site 207559008304 G3 box; other site 207559008305 Switch II region; other site 207559008306 G4 box; other site 207559008307 G5 box; other site 207559008308 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 207559008309 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 207559008310 Antibiotic Binding Site [chemical binding]; other site 207559008311 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 207559008312 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 207559008313 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 207559008314 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 207559008315 putative homodimer interface [polypeptide binding]; other site 207559008316 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 207559008317 heterodimer interface [polypeptide binding]; other site 207559008318 homodimer interface [polypeptide binding]; other site 207559008319 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 207559008320 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 207559008321 23S rRNA interface [nucleotide binding]; other site 207559008322 L7/L12 interface [polypeptide binding]; other site 207559008323 putative thiostrepton binding site; other site 207559008324 L25 interface [polypeptide binding]; other site 207559008325 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 207559008326 mRNA/rRNA interface [nucleotide binding]; other site 207559008327 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 207559008328 23S rRNA interface [nucleotide binding]; other site 207559008329 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 207559008330 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 207559008331 core dimer interface [polypeptide binding]; other site 207559008332 peripheral dimer interface [polypeptide binding]; other site 207559008333 L10 interface [polypeptide binding]; other site 207559008334 L11 interface [polypeptide binding]; other site 207559008335 putative EF-Tu interaction site [polypeptide binding]; other site 207559008336 putative EF-G interaction site [polypeptide binding]; other site 207559008337 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 207559008338 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 207559008339 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 207559008340 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 207559008341 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 207559008342 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 207559008343 RPB3 interaction site [polypeptide binding]; other site 207559008344 RPB1 interaction site [polypeptide binding]; other site 207559008345 RPB11 interaction site [polypeptide binding]; other site 207559008346 RPB10 interaction site [polypeptide binding]; other site 207559008347 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 207559008348 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 207559008349 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 207559008350 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 207559008351 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 207559008352 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 207559008353 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559008354 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 207559008355 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559008356 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 207559008357 DNA binding site [nucleotide binding] 207559008358 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 207559008359 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 207559008360 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 207559008361 dimerization interface [polypeptide binding]; other site 207559008362 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008363 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 207559008364 putative active site [active] 207559008365 heme pocket [chemical binding]; other site 207559008366 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 207559008367 dimer interface [polypeptide binding]; other site 207559008368 phosphorylation site [posttranslational modification] 207559008369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008370 ATP binding site [chemical binding]; other site 207559008371 Mg2+ binding site [ion binding]; other site 207559008372 G-X-G motif; other site 207559008373 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 207559008374 TIGR01777 family protein; Region: yfcH 207559008375 putative NAD(P) binding site [chemical binding]; other site 207559008376 putative active site [active] 207559008377 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008378 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008379 active site 207559008380 phosphorylation site [posttranslational modification] 207559008381 intermolecular recognition site; other site 207559008382 dimerization interface [polypeptide binding]; other site 207559008383 PAS domain S-box; Region: sensory_box; TIGR00229 207559008384 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 207559008385 putative active site [active] 207559008386 heme pocket [chemical binding]; other site 207559008387 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559008388 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008389 Zn2+ binding site [ion binding]; other site 207559008390 Mg2+ binding site [ion binding]; other site 207559008391 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008392 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008393 active site 207559008394 phosphorylation site [posttranslational modification] 207559008395 intermolecular recognition site; other site 207559008396 dimerization interface [polypeptide binding]; other site 207559008397 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 207559008398 Walker A motif; other site 207559008399 ATP binding site [chemical binding]; other site 207559008400 Walker B motif; other site 207559008401 arginine finger; other site 207559008402 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559008403 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 207559008404 catalytic core [active] 207559008405 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 207559008406 Ion transport protein; Region: Ion_trans; pfam00520 207559008407 Ion channel; Region: Ion_trans_2; pfam07885 207559008408 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008410 active site 207559008411 phosphorylation site [posttranslational modification] 207559008412 intermolecular recognition site; other site 207559008413 dimerization interface [polypeptide binding]; other site 207559008414 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 207559008415 TPR motif; other site 207559008416 binding surface 207559008417 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559008418 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 207559008419 TPR motif; other site 207559008420 TPR repeat; Region: TPR_11; pfam13414 207559008421 binding surface 207559008422 Domain of unknown function DUF39; Region: DUF39; pfam01837 207559008423 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 207559008424 Ligand Binding Site [chemical binding]; other site 207559008425 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 207559008426 adenylosuccinate lyase; Provisional; Region: PRK07492 207559008427 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 207559008428 tetramer interface [polypeptide binding]; other site 207559008429 active site 207559008430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559008431 active site 207559008432 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 207559008433 SnoaL-like domain; Region: SnoaL_3; pfam13474 207559008434 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559008435 ATP cone domain; Region: ATP-cone; pfam03477 207559008436 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559008437 effector binding site; other site 207559008438 active site 207559008439 Zn binding site [ion binding]; other site 207559008440 glycine loop; other site 207559008441 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559008442 EamA-like transporter family; Region: EamA; pfam00892 207559008443 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559008444 EamA-like transporter family; Region: EamA; pfam00892 207559008445 Cache domain; Region: Cache_1; pfam02743 207559008446 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008447 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008448 dimer interface [polypeptide binding]; other site 207559008449 putative CheW interface [polypeptide binding]; other site 207559008450 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559008451 Ferredoxin [Energy production and conversion]; Region: COG1146 207559008452 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 207559008453 putative FMN binding site [chemical binding]; other site 207559008454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559008455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008456 metal binding site [ion binding]; metal-binding site 207559008457 active site 207559008458 I-site; other site 207559008459 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 207559008460 4Fe-4S binding domain; Region: Fer4; pfam00037 207559008461 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559008462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559008463 Coenzyme A binding pocket [chemical binding]; other site 207559008464 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559008465 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 207559008466 ligand binding site [chemical binding]; other site 207559008467 flexible hinge region; other site 207559008468 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 207559008469 putative switch regulator; other site 207559008470 non-specific DNA interactions [nucleotide binding]; other site 207559008471 DNA binding site [nucleotide binding] 207559008472 sequence specific DNA binding site [nucleotide binding]; other site 207559008473 putative cAMP binding site [chemical binding]; other site 207559008474 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 207559008475 ACS interaction site; other site 207559008476 CODH interaction site; other site 207559008477 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 207559008478 cubane metal cluster (B-cluster) [ion binding]; other site 207559008479 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 207559008480 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 207559008481 P-loop; other site 207559008482 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 207559008483 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 207559008484 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559008485 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 207559008486 metal binding site [ion binding]; metal-binding site 207559008487 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559008488 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559008489 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 207559008490 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 207559008491 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559008492 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 207559008493 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 207559008494 Transporter associated domain; Region: CorC_HlyC; smart01091 207559008495 PAS domain; Region: PAS; smart00091 207559008496 PAS domain; Region: PAS_9; pfam13426 207559008497 PAS domain S-box; Region: sensory_box; TIGR00229 207559008498 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 207559008499 putative active site [active] 207559008500 heme pocket [chemical binding]; other site 207559008501 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008502 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 207559008503 putative active site [active] 207559008504 heme pocket [chemical binding]; other site 207559008505 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 207559008506 dimer interface [polypeptide binding]; other site 207559008507 phosphorylation site [posttranslational modification] 207559008508 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008509 ATP binding site [chemical binding]; other site 207559008510 Mg2+ binding site [ion binding]; other site 207559008511 G-X-G motif; other site 207559008512 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 207559008513 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559008514 dimer interface [polypeptide binding]; other site 207559008515 active site 207559008516 glycine loop; other site 207559008517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008518 active site 207559008519 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008520 phosphorylation site [posttranslational modification] 207559008521 intermolecular recognition site; other site 207559008522 dimerization interface [polypeptide binding]; other site 207559008523 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 207559008524 Walker A motif; other site 207559008525 ATP binding site [chemical binding]; other site 207559008526 Walker B motif; other site 207559008527 arginine finger; other site 207559008528 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 207559008529 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 207559008530 FeS/SAM binding site; other site 207559008531 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559008532 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 207559008533 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559008534 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 207559008535 ATP-grasp domain; Region: ATP-grasp_4; cl17255 207559008536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559008537 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559008538 Coenzyme A binding pocket [chemical binding]; other site 207559008539 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 207559008540 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 207559008541 PAS domain S-box; Region: sensory_box; TIGR00229 207559008542 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 207559008543 putative active site [active] 207559008544 heme pocket [chemical binding]; other site 207559008545 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559008546 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008547 metal binding site [ion binding]; metal-binding site 207559008548 active site 207559008549 I-site; other site 207559008550 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559008551 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 207559008552 Walker A motif; other site 207559008553 ATP binding site [chemical binding]; other site 207559008554 Walker B motif; other site 207559008555 arginine finger; other site 207559008556 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559008557 D-galactonate transporter; Region: 2A0114; TIGR00893 207559008558 putative substrate translocation pore; other site 207559008559 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559008560 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 207559008561 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 207559008562 FeS/SAM binding site; other site 207559008563 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559008564 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 207559008565 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 207559008566 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559008567 selenocysteine synthase; Provisional; Region: PRK04311 207559008568 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 207559008569 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 207559008570 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559008571 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 207559008572 NAD binding site [chemical binding]; other site 207559008573 putative substrate binding site 2 [chemical binding]; other site 207559008574 putative substrate binding site 1 [chemical binding]; other site 207559008575 active site 207559008576 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 207559008577 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 207559008578 oligomer interface [polypeptide binding]; other site 207559008579 putative active site [active] 207559008580 metal binding site [ion binding]; metal-binding site 207559008581 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559008582 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 207559008583 putative active site [active] 207559008584 metal binding site [ion binding]; metal-binding site 207559008585 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008586 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 207559008587 murein hydrolase B; Provisional; Region: PRK10760; cl17906 207559008588 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 207559008589 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559008590 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559008591 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 207559008592 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008593 active site 207559008594 phosphorylation site [posttranslational modification] 207559008595 intermolecular recognition site; other site 207559008596 dimerization interface [polypeptide binding]; other site 207559008597 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559008598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559008599 dimer interface [polypeptide binding]; other site 207559008600 conserved gate region; other site 207559008601 putative PBP binding loops; other site 207559008602 ABC-ATPase subunit interface; other site 207559008603 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 207559008604 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008605 substrate binding pocket [chemical binding]; other site 207559008606 membrane-bound complex binding site; other site 207559008607 hinge residues; other site 207559008608 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559008609 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559008610 dimer interface [polypeptide binding]; other site 207559008611 conserved gate region; other site 207559008612 putative PBP binding loops; other site 207559008613 ABC-ATPase subunit interface; other site 207559008614 Uncharacterized conserved protein [Function unknown]; Region: COG0432 207559008615 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 207559008616 PAS domain; Region: PAS_9; pfam13426 207559008617 putative active site [active] 207559008618 heme pocket [chemical binding]; other site 207559008619 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008621 dimer interface [polypeptide binding]; other site 207559008622 putative CheW interface [polypeptide binding]; other site 207559008623 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008624 Zn2+ binding site [ion binding]; other site 207559008625 Mg2+ binding site [ion binding]; other site 207559008626 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008627 Zn2+ binding site [ion binding]; other site 207559008628 Mg2+ binding site [ion binding]; other site 207559008629 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559008630 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 207559008631 trimerization site [polypeptide binding]; other site 207559008632 active site 207559008633 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 207559008634 NifU-like domain; Region: NifU; pfam01106 207559008635 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 207559008636 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 207559008637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559008638 catalytic residue [active] 207559008639 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 207559008640 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 207559008641 dimer interface [polypeptide binding]; other site 207559008642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008643 catalytic residue [active] 207559008644 serine O-acetyltransferase; Region: cysE; TIGR01172 207559008645 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 207559008646 trimer interface [polypeptide binding]; other site 207559008647 active site 207559008648 substrate binding site [chemical binding]; other site 207559008649 CoA binding site [chemical binding]; other site 207559008650 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 207559008651 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 207559008652 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559008653 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 207559008654 B12 binding domain; Region: B12-binding_2; pfam02607 207559008655 B12 binding domain; Region: B12-binding; pfam02310 207559008656 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559008657 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008658 metal binding site [ion binding]; metal-binding site 207559008659 active site 207559008660 I-site; other site 207559008661 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 207559008662 homodimer interface [polypeptide binding]; other site 207559008663 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 207559008664 active site pocket [active] 207559008665 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 207559008666 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 207559008667 FMN binding site [chemical binding]; other site 207559008668 active site 207559008669 catalytic residues [active] 207559008670 substrate binding site [chemical binding]; other site 207559008671 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 207559008672 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559008673 active site 207559008674 metal binding site [ion binding]; metal-binding site 207559008675 homotetramer interface [polypeptide binding]; other site 207559008676 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559008677 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559008678 putative dimer interface [polypeptide binding]; other site 207559008679 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559008680 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559008681 putative dimer interface [polypeptide binding]; other site 207559008682 Trm112p-like protein; Region: Trm112p; cl01066 207559008683 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 207559008684 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 207559008685 active site 207559008686 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 207559008687 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 207559008688 Peptidase family U32; Region: Peptidase_U32; pfam01136 207559008689 PAS domain S-box; Region: sensory_box; TIGR00229 207559008690 PAS domain; Region: PAS; smart00091 207559008691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008693 active site 207559008694 phosphorylation site [posttranslational modification] 207559008695 intermolecular recognition site; other site 207559008696 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008698 active site 207559008699 phosphorylation site [posttranslational modification] 207559008700 intermolecular recognition site; other site 207559008701 dimerization interface [polypeptide binding]; other site 207559008702 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 207559008703 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559008704 Walker A motif; other site 207559008705 ATP binding site [chemical binding]; other site 207559008706 Walker B motif; other site 207559008707 arginine finger; other site 207559008708 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 207559008709 DNA binding site [nucleotide binding] 207559008710 active site 207559008711 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 207559008712 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008713 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008714 active site 207559008715 phosphorylation site [posttranslational modification] 207559008716 intermolecular recognition site; other site 207559008717 dimerization interface [polypeptide binding]; other site 207559008718 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559008719 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559008720 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559008721 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 207559008722 active site 207559008723 C-terminal domain interface [polypeptide binding]; other site 207559008724 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 207559008725 active site 207559008726 N-terminal domain interface [polypeptide binding]; other site 207559008727 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 207559008728 dimer interface [polypeptide binding]; other site 207559008729 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 207559008730 putative PBP binding regions; other site 207559008731 ABC-ATPase subunit interface; other site 207559008732 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559008733 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 207559008734 Walker A/P-loop; other site 207559008735 ATP binding site [chemical binding]; other site 207559008736 Q-loop/lid; other site 207559008737 ABC transporter signature motif; other site 207559008738 Walker B; other site 207559008739 D-loop; other site 207559008740 H-loop/switch region; other site 207559008741 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 207559008742 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 207559008743 putative ligand binding residues [chemical binding]; other site 207559008744 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 207559008745 active site 207559008746 SAM binding site [chemical binding]; other site 207559008747 homodimer interface [polypeptide binding]; other site 207559008748 hypothetical protein; Provisional; Region: PRK10281 207559008749 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 207559008750 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559008751 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559008752 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 207559008753 Transcriptional regulator; Region: Rrf2; cl17282 207559008754 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559008755 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 207559008756 PAS domain S-box; Region: sensory_box; TIGR00229 207559008757 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 207559008758 putative active site [active] 207559008759 heme pocket [chemical binding]; other site 207559008760 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 207559008761 PAS fold; Region: PAS_3; pfam08447 207559008762 putative active site [active] 207559008763 heme pocket [chemical binding]; other site 207559008764 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559008765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008766 ATP binding site [chemical binding]; other site 207559008767 Mg2+ binding site [ion binding]; other site 207559008768 G-X-G motif; other site 207559008769 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008771 active site 207559008772 phosphorylation site [posttranslational modification] 207559008773 intermolecular recognition site; other site 207559008774 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 207559008775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008776 Zn2+ binding site [ion binding]; other site 207559008777 Mg2+ binding site [ion binding]; other site 207559008778 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 207559008779 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559008780 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559008781 GTP binding site; other site 207559008782 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 207559008783 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 207559008784 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 207559008785 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 207559008786 NAD(P) binding site [chemical binding]; other site 207559008787 catalytic residues [active] 207559008788 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559008789 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 207559008790 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 207559008791 Transglycosylase; Region: Transgly; pfam00912 207559008792 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 207559008793 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 207559008794 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 207559008795 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 207559008796 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559008797 active site 207559008798 NAD binding site [chemical binding]; other site 207559008799 metal binding site [ion binding]; metal-binding site 207559008800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559008801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 207559008802 butyrate kinase; Provisional; Region: PRK03011 207559008803 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 207559008804 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559008805 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559008806 putative valine binding site [chemical binding]; other site 207559008807 dimer interface [polypeptide binding]; other site 207559008808 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559008809 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 207559008810 active site residue [active] 207559008811 Adenosylhomocysteinase; Provisional; Region: PTZ00075 207559008812 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 207559008813 homotetramer interface [polypeptide binding]; other site 207559008814 ligand binding site [chemical binding]; other site 207559008815 catalytic site [active] 207559008816 NAD binding site [chemical binding]; other site 207559008817 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 207559008818 dimerization interface [polypeptide binding]; other site 207559008819 putative DNA binding site [nucleotide binding]; other site 207559008820 putative Zn2+ binding site [ion binding]; other site 207559008821 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 207559008822 S-adenosylmethionine binding site [chemical binding]; other site 207559008823 Protein of unknown function (DUF721); Region: DUF721; pfam05258 207559008824 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 207559008825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559008826 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 207559008827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559008828 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 207559008829 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 207559008830 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 207559008831 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 207559008832 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559008833 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 207559008834 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 207559008835 Uncharacterized conserved protein [Function unknown]; Region: COG4925 207559008836 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008837 flagellar assembly protein FliW; Provisional; Region: PRK13285 207559008838 Global regulator protein family; Region: CsrA; pfam02599 207559008839 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 207559008840 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559008841 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559008842 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 207559008843 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559008844 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 207559008845 FlgN protein; Region: FlgN; pfam05130 207559008846 Rod binding protein; Region: Rod-binding; pfam10135 207559008847 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 207559008848 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559008849 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 207559008850 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 207559008851 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 207559008852 Flagellar L-ring protein; Region: FlgH; pfam02107 207559008853 SAF-like; Region: SAF_2; pfam13144 207559008854 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 207559008855 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 207559008856 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 207559008857 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 207559008858 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 207559008859 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 207559008860 ribosome maturation protein RimP; Reviewed; Region: PRK00092 207559008861 Sm and related proteins; Region: Sm_like; cl00259 207559008862 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 207559008863 putative oligomer interface [polypeptide binding]; other site 207559008864 putative RNA binding site [nucleotide binding]; other site 207559008865 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 207559008866 NusA N-terminal domain; Region: NusA_N; pfam08529 207559008867 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 207559008868 RNA binding site [nucleotide binding]; other site 207559008869 homodimer interface [polypeptide binding]; other site 207559008870 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 207559008871 G-X-X-G motif; other site 207559008872 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 207559008873 G-X-X-G motif; other site 207559008874 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 207559008875 putative RNA binding cleft [nucleotide binding]; other site 207559008876 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008877 translation initiation factor IF-2; Region: IF-2; TIGR00487 207559008878 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008879 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 207559008880 G1 box; other site 207559008881 putative GEF interaction site [polypeptide binding]; other site 207559008882 GTP/Mg2+ binding site [chemical binding]; other site 207559008883 Switch I region; other site 207559008884 G2 box; other site 207559008885 G3 box; other site 207559008886 Switch II region; other site 207559008887 G4 box; other site 207559008888 G5 box; other site 207559008889 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 207559008890 Translation-initiation factor 2; Region: IF-2; pfam11987 207559008891 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 207559008892 Protein of unknown function (DUF503); Region: DUF503; pfam04456 207559008893 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559008894 DHH family; Region: DHH; pfam01368 207559008895 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 207559008896 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 207559008897 RNA binding site [nucleotide binding]; other site 207559008898 active site 207559008899 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 207559008900 16S/18S rRNA binding site [nucleotide binding]; other site 207559008901 S13e-L30e interaction site [polypeptide binding]; other site 207559008902 25S rRNA binding site [nucleotide binding]; other site 207559008903 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 207559008904 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 207559008905 RNase E interface [polypeptide binding]; other site 207559008906 trimer interface [polypeptide binding]; other site 207559008907 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 207559008908 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 207559008909 RNase E interface [polypeptide binding]; other site 207559008910 trimer interface [polypeptide binding]; other site 207559008911 active site 207559008912 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 207559008913 putative nucleic acid binding region [nucleotide binding]; other site 207559008914 G-X-X-G motif; other site 207559008915 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 207559008916 RNA binding site [nucleotide binding]; other site 207559008917 domain interface; other site 207559008918 GTPase RsgA; Reviewed; Region: PRK01889 207559008919 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 207559008920 GTPase/Zn-binding domain interface [polypeptide binding]; other site 207559008921 GTP/Mg2+ binding site [chemical binding]; other site 207559008922 G4 box; other site 207559008923 G5 box; other site 207559008924 G1 box; other site 207559008925 Switch I region; other site 207559008926 G2 box; other site 207559008927 G3 box; other site 207559008928 Switch II region; other site 207559008929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559008930 Coenzyme A binding pocket [chemical binding]; other site 207559008931 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 207559008932 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 207559008933 G1 box; other site 207559008934 putative GEF interaction site [polypeptide binding]; other site 207559008935 GTP/Mg2+ binding site [chemical binding]; other site 207559008936 Switch I region; other site 207559008937 G2 box; other site 207559008938 G3 box; other site 207559008939 Switch II region; other site 207559008940 G4 box; other site 207559008941 G5 box; other site 207559008942 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 207559008943 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 207559008944 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 207559008945 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 207559008946 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 207559008947 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559008948 peptide binding site [polypeptide binding]; other site 207559008949 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 207559008950 AzlC protein; Region: AzlC; cl00570 207559008951 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 207559008952 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 207559008953 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 207559008954 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 207559008955 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 207559008956 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 207559008957 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 207559008958 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 207559008959 inhibitor-cofactor binding pocket; inhibition site 207559008960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008961 catalytic residue [active] 207559008962 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 207559008963 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 207559008964 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 207559008965 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 207559008966 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 207559008967 active site 207559008968 SAM binding site [chemical binding]; other site 207559008969 homodimer interface [polypeptide binding]; other site 207559008970 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559008971 heme-binding residues [chemical binding]; other site 207559008972 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 207559008973 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 207559008974 S-adenosylmethionine binding site [chemical binding]; other site 207559008975 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 207559008976 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 207559008977 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559008978 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 207559008979 futalosine nucleosidase; Region: fut_nucase; TIGR03664 207559008980 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559008981 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559008982 substrate binding pocket [chemical binding]; other site 207559008983 chain length determination region; other site 207559008984 substrate-Mg2+ binding site; other site 207559008985 catalytic residues [active] 207559008986 aspartate-rich region 1; other site 207559008987 active site lid residues [active] 207559008988 aspartate-rich region 2; other site 207559008989 HDOD domain; Region: HDOD; pfam08668 207559008990 PAS fold; Region: PAS_4; pfam08448 207559008991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559008992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008993 metal binding site [ion binding]; metal-binding site 207559008994 active site 207559008995 I-site; other site 207559008996 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 207559008997 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 207559008998 dimerization interface [polypeptide binding]; other site 207559008999 ATP binding site [chemical binding]; other site 207559009000 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 207559009001 dimerization interface [polypeptide binding]; other site 207559009002 ATP binding site [chemical binding]; other site 207559009003 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 207559009004 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 207559009005 non-heme iron binding site [ion binding]; other site 207559009006 dimer interface [polypeptide binding]; other site 207559009007 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 207559009008 non-heme iron binding site [ion binding]; other site 207559009009 dimer interface [polypeptide binding]; other site 207559009010 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 207559009011 Rubredoxin; Region: Rubredoxin; pfam00301 207559009012 iron binding site [ion binding]; other site 207559009013 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 207559009014 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 207559009015 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 207559009016 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 207559009017 PAS domain; Region: PAS_9; pfam13426 207559009018 putative active site [active] 207559009019 heme pocket [chemical binding]; other site 207559009020 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559009021 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 207559009022 Walker A motif; other site 207559009023 ATP binding site [chemical binding]; other site 207559009024 Walker B motif; other site 207559009025 arginine finger; other site 207559009026 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559009027 Dinitrogenase iron-molybdenum cofactor; Region: Nitro_FeMo-Co; pfam02579 207559009028 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559009029 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 207559009030 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 207559009031 P loop nucleotide binding; other site 207559009032 switch II; other site 207559009033 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 207559009034 Ferredoxin [Energy production and conversion]; Region: COG1146 207559009035 switch II; other site 207559009036 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 207559009037 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 207559009038 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 207559009039 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 207559009040 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 207559009041 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 207559009042 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559009043 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 207559009044 putative active site [active] 207559009045 heme pocket [chemical binding]; other site 207559009046 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 207559009047 dimer interface [polypeptide binding]; other site 207559009048 phosphorylation site [posttranslational modification] 207559009049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009050 ATP binding site [chemical binding]; other site 207559009051 Mg2+ binding site [ion binding]; other site 207559009052 G-X-G motif; other site 207559009053 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559009054 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 207559009055 active site 207559009056 CoA binding site [chemical binding]; other site 207559009057 acyl-activating enzyme (AAE) consensus motif; other site 207559009058 AMP binding site [chemical binding]; other site 207559009059 acetate binding site [chemical binding]; other site 207559009060 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 207559009061 CoA binding domain; Region: CoA_binding_2; pfam13380 207559009062 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 207559009063 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 207559009064 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 207559009065 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559009066 Coenzyme A binding pocket [chemical binding]; other site 207559009067 DsrE/DsrF-like family; Region: DrsE; cl00672 207559009068 CheD chemotactic sensory transduction; Region: CheD; pfam03975 207559009069 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 207559009070 IHF dimer interface [polypeptide binding]; other site 207559009071 IHF - DNA interface [nucleotide binding]; other site 207559009072 Protein of unknown function (DUF523); Region: DUF523; pfam04463 207559009073 Uncharacterized conserved protein [Function unknown]; Region: COG3272 207559009074 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 207559009075 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 207559009076 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 207559009077 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 207559009078 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 207559009079 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 207559009080 2-isopropylmalate synthase; Validated; Region: PRK00915 207559009081 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 207559009082 active site 207559009083 catalytic residues [active] 207559009084 metal binding site [ion binding]; metal-binding site 207559009085 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 207559009086 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 207559009087 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 207559009088 substrate binding site [chemical binding]; other site 207559009089 ligand binding site [chemical binding]; other site 207559009090 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 207559009091 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 207559009092 substrate binding site [chemical binding]; other site 207559009093 Protein of unknown function DUF89; Region: DUF89; pfam01937 207559009094 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 207559009095 tartrate dehydrogenase; Region: TTC; TIGR02089 207559009096 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009097 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 207559009098 substrate binding pocket [chemical binding]; other site 207559009099 membrane-bound complex binding site; other site 207559009100 hinge residues; other site 207559009101 phage shock protein C; Region: phageshock_pspC; TIGR02978 207559009102 PspC domain; Region: PspC; pfam04024 207559009103 phage shock protein B; Region: phageshock_pspB; TIGR02976 207559009104 phage shock protein A; Region: phageshock_pspA; TIGR02977 207559009105 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559009106 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 207559009107 Walker A motif; other site 207559009108 ATP binding site [chemical binding]; other site 207559009109 Walker B motif; other site 207559009110 arginine finger; other site 207559009111 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559009112 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 207559009113 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 207559009114 dimer interface [polypeptide binding]; other site 207559009115 putative functional site; other site 207559009116 putative MPT binding site; other site 207559009117 PBP superfamily domain; Region: PBP_like; pfam12727 207559009118 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 207559009119 substrate binding site [chemical binding]; other site 207559009120 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 207559009121 HDOD domain; Region: HDOD; pfam08668 207559009122 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559009123 Zn2+ binding site [ion binding]; other site 207559009124 Mg2+ binding site [ion binding]; other site 207559009125 PAS domain; Region: PAS; smart00091 207559009126 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559009127 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 207559009128 putative active site [active] 207559009129 heme pocket [chemical binding]; other site 207559009130 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559009131 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 207559009132 putative active site [active] 207559009133 heme pocket [chemical binding]; other site 207559009134 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 207559009135 dimer interface [polypeptide binding]; other site 207559009136 phosphorylation site [posttranslational modification] 207559009137 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009138 ATP binding site [chemical binding]; other site 207559009139 Mg2+ binding site [ion binding]; other site 207559009140 G-X-G motif; other site 207559009141 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009143 active site 207559009144 phosphorylation site [posttranslational modification] 207559009145 intermolecular recognition site; other site 207559009146 dimerization interface [polypeptide binding]; other site 207559009147 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559009148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009149 active site 207559009150 phosphorylation site [posttranslational modification] 207559009151 intermolecular recognition site; other site 207559009152 dimerization interface [polypeptide binding]; other site 207559009153 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 207559009154 Walker A motif; other site 207559009155 ATP binding site [chemical binding]; other site 207559009156 Walker B motif; other site 207559009157 arginine finger; other site 207559009158 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 207559009159 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 207559009160 dimer interface [polypeptide binding]; other site 207559009161 PYR/PP interface [polypeptide binding]; other site 207559009162 TPP binding site [chemical binding]; other site 207559009163 substrate binding site [chemical binding]; other site 207559009164 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559009165 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 207559009166 Domain of unknown function; Region: EKR; smart00890 207559009167 4Fe-4S binding domain; Region: Fer4_6; pfam12837 207559009168 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 207559009169 TPP-binding site [chemical binding]; other site 207559009170 dimer interface [polypeptide binding]; other site 207559009171 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 207559009172 L-lactate permease; Region: Lactate_perm; cl00701 207559009173 FAD binding domain; Region: FAD_binding_4; pfam01565 207559009174 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559009175 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009176 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 207559009177 Cysteine-rich domain; Region: CCG; pfam02754 207559009178 Cysteine-rich domain; Region: CCG; pfam02754 207559009179 phosphate acetyltransferase; Reviewed; Region: PRK05632 207559009180 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 207559009181 DRTGG domain; Region: DRTGG; pfam07085 207559009182 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 207559009183 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 207559009184 propionate/acetate kinase; Provisional; Region: PRK12379 207559009185 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559009186 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 207559009187 DRTGG domain; Region: DRTGG; pfam07085 207559009188 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 207559009189 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559009190 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 207559009191 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009192 Cysteine-rich domain; Region: CCG; pfam02754 207559009193 Cysteine-rich domain; Region: CCG; pfam02754 207559009194 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 207559009195 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 207559009196 dimerization interface [polypeptide binding]; other site 207559009197 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009198 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009199 dimer interface [polypeptide binding]; other site 207559009200 putative CheW interface [polypeptide binding]; other site 207559009201 Uncharacterized conserved protein [Function unknown]; Region: COG2006 207559009202 Domain of unknown function (DUF362); Region: DUF362; pfam04015 207559009203 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 207559009204 active site residue [active] 207559009205 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559009206 diiron binding motif [ion binding]; other site 207559009207 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559009208 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 207559009209 trimer interface [polypeptide binding]; other site 207559009210 active site 207559009211 substrate binding site [chemical binding]; other site 207559009212 CoA binding site [chemical binding]; other site 207559009213 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 207559009214 Putative catalytic NodB homology domain of uncharacterized prokaryotic polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u2_5s; cd10971 207559009215 putative active site [active] 207559009216 putative metal binding site [ion binding]; other site 207559009217 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 207559009218 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 207559009219 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 207559009220 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 207559009221 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 207559009222 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 207559009223 FeS/SAM binding site; other site 207559009224 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 207559009225 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 207559009226 S-adenosylmethionine binding site [chemical binding]; other site 207559009227 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 207559009228 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 207559009229 active site 207559009230 homodimer interface [polypeptide binding]; other site 207559009231 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559009232 NeuB family; Region: NeuB; pfam03102 207559009233 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 207559009234 NeuB binding interface [polypeptide binding]; other site 207559009235 putative substrate binding site [chemical binding]; other site 207559009236 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559009237 ligand binding site; other site 207559009238 tetramer interface; other site 207559009239 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 207559009240 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 207559009241 dimerization interface [polypeptide binding]; other site 207559009242 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009244 dimer interface [polypeptide binding]; other site 207559009245 putative CheW interface [polypeptide binding]; other site 207559009246 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 207559009247 G1 box; other site 207559009248 GTP/Mg2+ binding site [chemical binding]; other site 207559009249 Switch I region; other site 207559009250 G3 box; other site 207559009251 Switch II region; other site 207559009252 G4 box; other site 207559009253 G5 box; other site 207559009254 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 207559009255 putative hexamer interface [polypeptide binding]; other site 207559009256 putative hexagonal pore; other site 207559009257 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 207559009258 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559009259 putative hexamer interface [polypeptide binding]; other site 207559009260 putative hexagonal pore; other site 207559009261 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559009262 putative hexamer interface [polypeptide binding]; other site 207559009263 putative hexagonal pore; other site 207559009264 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 207559009265 SLBB domain; Region: SLBB; pfam10531 207559009266 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559009267 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 207559009268 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559009269 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559009270 active site 207559009271 NAD binding site [chemical binding]; other site 207559009272 metal binding site [ion binding]; metal-binding site 207559009273 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 207559009274 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559009275 Hexamer interface [polypeptide binding]; other site 207559009276 Putative hexagonal pore residue; other site 207559009277 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 207559009278 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559009279 putative hexamer interface [polypeptide binding]; other site 207559009280 putative hexagonal pore; other site 207559009281 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559009282 putative hexamer interface [polypeptide binding]; other site 207559009283 putative hexagonal pore; other site 207559009284 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 207559009285 Hexamer/Pentamer interface [polypeptide binding]; other site 207559009286 central pore; other site 207559009287 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 207559009288 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 207559009289 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 207559009290 nucleotide binding site [chemical binding]; other site 207559009291 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 207559009292 nucleotide binding site [chemical binding]; other site 207559009293 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 207559009294 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559009295 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559009296 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 207559009297 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559009298 Hexamer interface [polypeptide binding]; other site 207559009299 Putative hexagonal pore residue; other site 207559009300 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559009301 putative catalytic cysteine [active] 207559009302 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 207559009303 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559009304 Hexamer interface [polypeptide binding]; other site 207559009305 Hexagonal pore residue; other site 207559009306 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559009307 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 207559009308 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559009309 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 207559009310 dimer interface [polypeptide binding]; other site 207559009311 active site 207559009312 glycine loop; other site 207559009313 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559009314 putative catalytic cysteine [active] 207559009315 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 207559009316 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559009317 Hexamer interface [polypeptide binding]; other site 207559009318 Hexagonal pore residue; other site 207559009319 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 207559009320 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559009321 Hexamer interface [polypeptide binding]; other site 207559009322 Hexagonal pore residue; other site 207559009323 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 207559009324 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 207559009325 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559009326 DNA binding residues [nucleotide binding] 207559009327 drug binding residues [chemical binding]; other site 207559009328 dimer interface [polypeptide binding]; other site 207559009329 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 207559009330 Cache domain; Region: Cache_1; pfam02743 207559009331 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 207559009332 dimerization interface [polypeptide binding]; other site 207559009333 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009335 dimer interface [polypeptide binding]; other site 207559009336 putative CheW interface [polypeptide binding]; other site 207559009337 Cache domain; Region: Cache_1; pfam02743 207559009338 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 207559009339 dimerization interface [polypeptide binding]; other site 207559009340 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009342 dimer interface [polypeptide binding]; other site 207559009343 putative CheW interface [polypeptide binding]; other site 207559009344 YceI-like domain; Region: YceI; smart00867 207559009345 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 207559009346 aromatic amino acid transport protein; Region: araaP; TIGR00837 207559009347 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559009348 Methyltransferase domain; Region: Methyltransf_12; pfam08242 207559009349 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559009350 BCCT family transporter; Region: BCCT; pfam02028 207559009351 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 207559009352 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559009353 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 207559009354 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559009355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559009356 metal binding site [ion binding]; metal-binding site 207559009357 active site 207559009358 I-site; other site 207559009359 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 207559009360 PBP superfamily domain; Region: PBP_like_2; pfam12849 207559009361 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 207559009362 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 207559009363 ligand binding site [chemical binding]; other site 207559009364 subunit interaction site [polypeptide binding]; other site 207559009365 calcium binding site [ion binding]; other site 207559009366 DsrE/DsrF-like family; Region: DrsE; pfam02635 207559009367 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 207559009368 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559009369 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 207559009370 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559009371 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 207559009372 active site 207559009373 dimer interface [polypeptide binding]; other site 207559009374 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 207559009375 Ligand Binding Site [chemical binding]; other site 207559009376 Molecular Tunnel; other site 207559009377 Methyltransferase domain; Region: Methyltransf_23; pfam13489 207559009378 Methyltransferase domain; Region: Methyltransf_12; pfam08242 207559009379 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 207559009380 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 207559009381 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 207559009382 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 207559009383 Ligand binding site; other site 207559009384 Putative Catalytic site; other site 207559009385 DXD motif; other site 207559009386 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 207559009387 Na binding site [ion binding]; other site 207559009388 Protein of unknown function (DUF997); Region: DUF997; pfam06196 207559009389 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 207559009390 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 207559009391 Walker A/P-loop; other site 207559009392 ATP binding site [chemical binding]; other site 207559009393 Q-loop/lid; other site 207559009394 ABC transporter signature motif; other site 207559009395 Walker B; other site 207559009396 D-loop; other site 207559009397 H-loop/switch region; other site 207559009398 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 207559009399 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559009400 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559009401 dimer interface [polypeptide binding]; other site 207559009402 conserved gate region; other site 207559009403 putative PBP binding loops; other site 207559009404 ABC-ATPase subunit interface; other site 207559009405 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 207559009406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559009407 DNA-binding site [nucleotide binding]; DNA binding site 207559009408 UTRA domain; Region: UTRA; pfam07702 207559009409 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 207559009410 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 207559009411 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 207559009412 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 207559009413 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 207559009414 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559009415 Walker A/P-loop; other site 207559009416 ATP binding site [chemical binding]; other site 207559009417 Q-loop/lid; other site 207559009418 ABC transporter signature motif; other site 207559009419 Walker B; other site 207559009420 D-loop; other site 207559009421 H-loop/switch region; other site 207559009422 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559009423 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 207559009424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559009425 Walker A/P-loop; other site 207559009426 ATP binding site [chemical binding]; other site 207559009427 Q-loop/lid; other site 207559009428 ABC transporter signature motif; other site 207559009429 Walker B; other site 207559009430 D-loop; other site 207559009431 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 207559009432 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 207559009433 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 207559009434 active site 207559009435 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 207559009436 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 207559009437 active site 207559009438 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559009439 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559009440 binuclear metal center [ion binding]; other site 207559009441 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 207559009442 iron binding site [ion binding]; other site 207559009443 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 207559009444 Transposase; Region: HTH_Tnp_1; pfam01527 207559009445 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559009446 HTH-like domain; Region: HTH_21; pfam13276 207559009447 Integrase core domain; Region: rve; pfam00665 207559009448 Integrase core domain; Region: rve_3; pfam13683 207559009449 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 207559009450 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 207559009451 non-specific DNA binding site [nucleotide binding]; other site 207559009452 salt bridge; other site 207559009453 sequence-specific DNA binding site [nucleotide binding]; other site 207559009454 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 207559009455 Integrase core domain; Region: rve; pfam00665 207559009456 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 207559009457 AAA domain; Region: AAA_22; pfam13401 207559009458 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 207559009459 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 207559009460 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 207559009461 IHF dimer interface [polypeptide binding]; other site 207559009462 IHF - DNA interface [nucleotide binding]; other site 207559009463 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 207559009464 Helix-turn-helix domain; Region: HTH_17; pfam12728 207559009465 HTH-like domain; Region: HTH_21; pfam13276 207559009466 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559009467 Integrase core domain; Region: rve; pfam00665 207559009468 Integrase core domain; Region: rve_3; pfam13683 207559009469 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559009470 Transposase; Region: HTH_Tnp_1; pfam01527 207559009471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 207559009472 Transposase; Region: HTH_Tnp_1; pfam01527 207559009473 Integrase core domain; Region: rve; pfam00665 207559009474 Integrase core domain; Region: rve_3; pfam13683 207559009475 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559009476 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 207559009477 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 207559009478 Protein of unknown function (DUF935); Region: DUF935; pfam06074 207559009479 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 207559009480 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 207559009481 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 207559009482 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 207559009483 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 207559009484 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 207559009485 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 207559009486 Baseplate J-like protein; Region: Baseplate_J; pfam04865 207559009487 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 207559009488 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 207559009489 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559009490 ABC transporter signature motif; other site 207559009491 Walker B; other site 207559009492 D-loop; other site 207559009493 H-loop/switch region; other site 207559009494 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 207559009495 Coenzyme A binding pocket [chemical binding]; other site 207559009496 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559009497 putative active site [active] 207559009498 putative substrate binding site [chemical binding]; other site 207559009499 putative cosubstrate binding site; other site 207559009500 catalytic site [active] 207559009501 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 207559009502 active site 207559009503 DNA binding site [nucleotide binding] 207559009504 Int/Topo IB signature motif; other site 207559009505 pyruvate decarboxylase; Region: PLN02573 207559009506 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 207559009507 transposase/IS protein; Provisional; Region: PRK09183 207559009508 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 207559009509 Walker A motif; other site 207559009510 ATP binding site [chemical binding]; other site 207559009511 Walker B motif; other site 207559009512 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559009513 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 207559009514 DNA-binding interface [nucleotide binding]; DNA binding site 207559009515 Integrase core domain; Region: rve; pfam00665 207559009516 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 207559009517 Helix-turn-helix domain; Region: HTH_17; pfam12728 207559009518 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559009519 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 207559009520 putative dimer interface [polypeptide binding]; other site 207559009521 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 207559009522 Clp amino terminal domain; Region: Clp_N; pfam02861 207559009523 Clp amino terminal domain; Region: Clp_N; pfam02861 207559009524 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 207559009525 Walker A motif; other site 207559009526 ATP binding site [chemical binding]; other site 207559009527 Walker B motif; other site 207559009528 arginine finger; other site 207559009529 CHD5-like protein; Region: CHD5; pfam04420 207559009530 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 207559009531 Walker A motif; other site 207559009532 ATP binding site [chemical binding]; other site 207559009533 Walker B motif; other site 207559009534 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 207559009535 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559009536 putative active site [active] 207559009537 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559009538 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559009539 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 207559009540 Walker A motif; other site 207559009541 ATP binding site [chemical binding]; other site 207559009542 Walker B motif; other site 207559009543 arginine finger; other site 207559009544 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559009545 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 207559009546 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 207559009547 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 207559009548 catalytic residues [active] 207559009549 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 207559009550 PAS fold; Region: PAS_3; pfam08447 207559009551 putative active site [active] 207559009552 heme pocket [chemical binding]; other site 207559009553 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 207559009554 PAS fold; Region: PAS_3; pfam08447 207559009555 putative active site [active] 207559009556 heme pocket [chemical binding]; other site 207559009557 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 207559009558 PAS domain; Region: PAS_9; pfam13426 207559009559 putative active site [active] 207559009560 heme pocket [chemical binding]; other site 207559009561 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559009562 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559009563 metal binding site [ion binding]; metal-binding site 207559009564 active site 207559009565 I-site; other site 207559009566 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 207559009567 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 207559009568 Peptidase family M48; Region: Peptidase_M48; cl12018 207559009569 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 207559009570 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 207559009571 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 207559009572 protein binding site [polypeptide binding]; other site 207559009573 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 207559009574 catalytic residues [active] 207559009575 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 207559009576 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 207559009577 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 207559009578 ATP binding site [chemical binding]; other site 207559009579 putative Mg++ binding site [ion binding]; other site 207559009580 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 207559009581 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559009582 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559009583 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559009584 Divergent AAA domain; Region: AAA_4; pfam04326 207559009585 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559009586 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559009587 Methyltransferase domain; Region: Methyltransf_26; pfam13659 207559009588 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559009589 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559009590 Methyltransferase domain; Region: Methyltransf_26; pfam13659 207559009591 DNA binding domain, excisionase family; Region: excise; TIGR01764 207559009592 ERF superfamily; Region: ERF; pfam04404 207559009593 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559009594 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 207559009595 Walker A motif; other site 207559009596 ATP binding site [chemical binding]; other site 207559009597 Walker B motif; other site 207559009598 arginine finger; other site 207559009599 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559009600 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559009601 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 207559009602 metal ion-dependent adhesion site (MIDAS); other site 207559009603 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559009604 Fic family protein [Function unknown]; Region: COG3177 207559009605 Fic/DOC family; Region: Fic; pfam02661 207559009606 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 207559009607 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559009608 DNA polymerase I; Provisional; Region: PRK05755 207559009609 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 207559009610 active site 207559009611 metal binding site 1 [ion binding]; metal-binding site 207559009612 putative 5' ssDNA interaction site; other site 207559009613 metal binding site 3; metal-binding site 207559009614 metal binding site 2 [ion binding]; metal-binding site 207559009615 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 207559009616 putative DNA binding site [nucleotide binding]; other site 207559009617 putative metal binding site [ion binding]; other site 207559009618 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559009619 active site 207559009620 substrate binding site [chemical binding]; other site 207559009621 catalytic site [active] 207559009622 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 207559009623 active site 207559009624 DNA binding site [nucleotide binding] 207559009625 catalytic site [active] 207559009626 PUA domain; Region: PUA; cl00607 207559009627 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 207559009628 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 207559009629 putative RNA binding site [nucleotide binding]; other site 207559009630 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 207559009631 S-adenosylmethionine binding site [chemical binding]; other site 207559009632 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 207559009633 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559009634 catalytic residue [active] 207559009635 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 207559009636 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 207559009637 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 207559009638 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 207559009639 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559009640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559009641 Zn2+ binding site [ion binding]; other site 207559009642 Mg2+ binding site [ion binding]; other site 207559009643 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559009644 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559009645 acyl-activating enzyme (AAE) consensus motif; other site 207559009646 AMP binding site [chemical binding]; other site 207559009647 active site 207559009648 CoA binding site [chemical binding]; other site 207559009649 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 207559009650 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559009651 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 207559009652 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 207559009653 AIR carboxylase; Region: AIRC; pfam00731 207559009654 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 207559009655 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 207559009656 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009657 ATP binding site [chemical binding]; other site 207559009658 Mg2+ binding site [ion binding]; other site 207559009659 G-X-G motif; other site 207559009660 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 207559009661 ATP binding site [chemical binding]; other site 207559009662 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 207559009663 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009664 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009665 active site 207559009666 phosphorylation site [posttranslational modification] 207559009667 intermolecular recognition site; other site 207559009668 dimerization interface [polypeptide binding]; other site 207559009669 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 207559009670 PAS fold; Region: PAS_3; pfam08447 207559009671 putative active site [active] 207559009672 heme pocket [chemical binding]; other site 207559009673 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 207559009674 dimer interface [polypeptide binding]; other site 207559009675 phosphorylation site [posttranslational modification] 207559009676 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009677 ATP binding site [chemical binding]; other site 207559009678 Mg2+ binding site [ion binding]; other site 207559009679 G-X-G motif; other site 207559009680 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 207559009681 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 207559009682 NADP binding site [chemical binding]; other site 207559009683 homopentamer interface [polypeptide binding]; other site 207559009684 substrate binding site [chemical binding]; other site 207559009685 active site 207559009686 Flagellin N-methylase; Region: FliB; pfam03692 207559009687 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 207559009688 Catalytic domain of Protein Kinases; Region: PKc; cd00180 207559009689 active site 207559009690 ATP binding site [chemical binding]; other site 207559009691 substrate binding site [chemical binding]; other site 207559009692 activation loop (A-loop); other site 207559009693 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559009694 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559009695 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 207559009696 active site 207559009697 metal binding site [ion binding]; metal-binding site 207559009698 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 207559009699 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 207559009700 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 207559009701 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 207559009702 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 207559009703 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 207559009704 MarR family; Region: MarR_2; pfam12802 207559009705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 207559009706 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 207559009707 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 207559009708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 207559009709 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 207559009710 putative dimerization interface [polypeptide binding]; other site 207559009711 Lysine efflux permease [General function prediction only]; Region: COG1279 207559009712 isocitrate dehydrogenase; Validated; Region: PRK06451 207559009713 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 207559009714 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 207559009715 substrate binding site [chemical binding]; other site 207559009716 active site 207559009717 catalytic residues [active] 207559009718 heterodimer interface [polypeptide binding]; other site 207559009719 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 207559009720 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 207559009721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009722 catalytic residue [active] 207559009723 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 207559009724 active site 207559009725 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 207559009726 active site 207559009727 ribulose/triose binding site [chemical binding]; other site 207559009728 phosphate binding site [ion binding]; other site 207559009729 substrate (anthranilate) binding pocket [chemical binding]; other site 207559009730 product (indole) binding pocket [chemical binding]; other site 207559009731 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 207559009732 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 207559009733 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 207559009734 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559009735 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559009736 glutamine binding [chemical binding]; other site 207559009737 catalytic triad [active] 207559009738 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 207559009739 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 207559009740 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 207559009741 prephenate dehydrogenase; Provisional; Region: PRK06444 207559009742 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 207559009743 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 207559009744 hinge; other site 207559009745 active site 207559009746 Chorismate mutase type II; Region: CM_2; pfam01817 207559009747 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 207559009748 Prephenate dehydratase; Region: PDT; pfam00800 207559009749 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 207559009750 putative L-Phe binding site [chemical binding]; other site 207559009751 3-dehydroquinate synthase; Provisional; Region: PRK02290 207559009752 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 207559009753 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009754 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009755 putative active site; other site 207559009756 catalytic residue [active] 207559009757 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009758 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009759 putative active site; other site 207559009760 catalytic residue [active] 207559009761 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 207559009762 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 207559009763 Nitrogen regulatory protein P-II; Region: P-II; smart00938 207559009764 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559009765 DHH family; Region: DHH; pfam01368 207559009766 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 207559009767 homotrimer interface [polypeptide binding]; other site 207559009768 Walker A motif; other site 207559009769 GTP binding site [chemical binding]; other site 207559009770 Walker B motif; other site 207559009771 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559009772 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 207559009773 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559009774 Part of AAA domain; Region: AAA_19; pfam13245 207559009775 Family description; Region: UvrD_C_2; pfam13538 207559009776 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 207559009777 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 207559009778 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009779 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009780 putative active site; other site 207559009781 catalytic residue [active] 207559009782 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 207559009783 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 207559009784 Cl- selectivity filter; other site 207559009785 Cl- binding residues [ion binding]; other site 207559009786 pore gating glutamate residue; other site 207559009787 dimer interface [polypeptide binding]; other site 207559009788 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 207559009789 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 207559009790 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 207559009791 active site 207559009792 Riboflavin kinase; Region: Flavokinase; pfam01687 207559009793 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 207559009794 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 207559009795 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009796 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009797 dimer interface [polypeptide binding]; other site 207559009798 putative CheW interface [polypeptide binding]; other site 207559009799 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 207559009800 Peptidase family M48; Region: Peptidase_M48; cl12018 207559009801 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 207559009802 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 207559009803 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 207559009804 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 207559009805 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 207559009806 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 207559009807 molybdopterin cofactor binding site; other site 207559009808 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559009809 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559009810 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 207559009811 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 207559009812 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 207559009813 active site 207559009814 catalytic residues [active] 207559009815 DNA binding site [nucleotide binding] 207559009816 Int/Topo IB signature motif; other site 207559009817 TOBE domain; Region: TOBE; cl01440 207559009818 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559009819 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 207559009820 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 207559009821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559009822 dimer interface [polypeptide binding]; other site 207559009823 conserved gate region; other site 207559009824 putative PBP binding loops; other site 207559009825 ABC-ATPase subunit interface; other site 207559009826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559009827 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 207559009828 Walker A/P-loop; other site 207559009829 ATP binding site [chemical binding]; other site 207559009830 Q-loop/lid; other site 207559009831 ABC transporter signature motif; other site 207559009832 Walker B; other site 207559009833 D-loop; other site 207559009834 H-loop/switch region; other site 207559009835 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 207559009836 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 207559009837 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559009838 dimer interface [polypeptide binding]; other site 207559009839 active site 207559009840 metal binding site [ion binding]; metal-binding site 207559009841 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 207559009842 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559009843 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559009844 Cysteine-rich domain; Region: CCG; pfam02754 207559009845 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559009846 4Fe-4S binding domain; Region: Fer4; pfam00037 207559009847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559009848 4Fe-4S binding domain; Region: Fer4; pfam00037 207559009849 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 207559009850 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559009851 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 207559009852 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 207559009853 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 207559009854 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559009855 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 207559009856 FAD binding pocket [chemical binding]; other site 207559009857 FAD binding motif [chemical binding]; other site 207559009858 phosphate binding motif [ion binding]; other site 207559009859 beta-alpha-beta structure motif; other site 207559009860 NAD binding pocket [chemical binding]; other site 207559009861 Iron coordination center [ion binding]; other site 207559009862 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559009863 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559009864 active site 207559009865 NAD binding site [chemical binding]; other site 207559009866 metal binding site [ion binding]; metal-binding site 207559009867 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559009868 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 207559009869 dimer interface [polypeptide binding]; other site 207559009870 phosphorylation site [posttranslational modification] 207559009871 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009872 ATP binding site [chemical binding]; other site 207559009873 Mg2+ binding site [ion binding]; other site 207559009874 G-X-G motif; other site 207559009875 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559009876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009877 active site 207559009878 phosphorylation site [posttranslational modification] 207559009879 intermolecular recognition site; other site 207559009880 dimerization interface [polypeptide binding]; other site 207559009881 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 207559009882 Walker A motif; other site 207559009883 ATP binding site [chemical binding]; other site 207559009884 Walker B motif; other site 207559009885 arginine finger; other site 207559009886 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 207559009887 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 207559009888 putative MPT binding site; other site 207559009889 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 207559009890 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 207559009891 catalytic loop [active] 207559009892 iron binding site [ion binding]; other site 207559009893 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 207559009894 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 207559009895 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 207559009896 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559009897 Cysteine-rich domain; Region: CCG; pfam02754 207559009898 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 207559009899 Methyltransferase domain; Region: Methyltransf_31; pfam13847 207559009900 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 207559009901 S-adenosylmethionine binding site [chemical binding]; other site 207559009902 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 207559009903 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 207559009904 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559009905 FeS/SAM binding site; other site 207559009906 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559009907 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 207559009908 acyl-activating enzyme (AAE) consensus motif; other site 207559009909 active site 207559009910 AMP binding site [chemical binding]; other site 207559009911 CoA binding site [chemical binding]; other site 207559009912 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 207559009913 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 207559009914 XdhC Rossmann domain; Region: XdhC_C; pfam13478 207559009915 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559009916 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 207559009917 Ligand binding site; other site 207559009918 metal-binding site 207559009919 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 207559009920 Transposase domain (DUF772); Region: DUF772; pfam05598 207559009921 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559009922 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559009923 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 207559009924 catalytic core [active] 207559009925 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 207559009926 aspartate ammonia-lyase; Provisional; Region: PRK13353 207559009927 Aspartase; Region: Aspartase; cd01357 207559009928 active sites [active] 207559009929 tetramer interface [polypeptide binding]; other site 207559009930 zinc transporter ZupT; Provisional; Region: PRK04201 207559009931 ZIP Zinc transporter; Region: Zip; pfam02535 207559009932 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559009933 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 207559009934 dimerization interface [polypeptide binding]; other site 207559009935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009937 dimer interface [polypeptide binding]; other site 207559009938 putative CheW interface [polypeptide binding]; other site 207559009939 Domain of unknown function DUF302; Region: DUF302; pfam03625 207559009940 NlpE N-terminal domain; Region: NlpE; pfam04170 207559009941 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 207559009942 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 207559009943 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559009944 NAD(P) binding site [chemical binding]; other site 207559009945 shikimate binding site; other site 207559009946 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 207559009947 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 207559009948 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 207559009949 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 207559009950 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559009951 homodimer interaction site [polypeptide binding]; other site 207559009952 cofactor binding site; other site 207559009953 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 207559009954 intersubunit interface [polypeptide binding]; other site 207559009955 active site 207559009956 Zn2+ binding site [ion binding]; other site 207559009957 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 207559009958 thiamine monophosphate kinase; Provisional; Region: PRK05731 207559009959 ATP binding site [chemical binding]; other site 207559009960 dimerization interface [polypeptide binding]; other site 207559009961 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559009962 Part of AAA domain; Region: AAA_19; pfam13245 207559009963 Family description; Region: UvrD_C_2; pfam13538 207559009964 Uncharacterized conserved protein [Function unknown]; Region: COG3379 207559009965 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 207559009966 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 207559009967 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 207559009968 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559009969 catalytic residue [active] 207559009970 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 207559009971 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009972 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 207559009973 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009974 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 207559009975 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 207559009976 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 207559009977 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 207559009978 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 207559009979 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 207559009980 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 207559009981 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 207559009982 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 207559009983 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009984 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009985 ligand binding site [chemical binding]; other site 207559009986 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009987 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009988 ligand binding site [chemical binding]; other site 207559009989 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559009990 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 207559009991 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 207559009992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559009993 catalytic residue [active] 207559009994 GTPase Era; Reviewed; Region: era; PRK00089 207559009995 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 207559009996 G1 box; other site 207559009997 GTP/Mg2+ binding site [chemical binding]; other site 207559009998 Switch I region; other site 207559009999 G2 box; other site 207559010000 Switch II region; other site 207559010001 G3 box; other site 207559010002 G4 box; other site 207559010003 G5 box; other site 207559010004 KH domain; Region: KH_2; pfam07650 207559010005 G-X-X-G motif; other site 207559010006 Helix-turn-helix domain; Region: HTH_28; pfam13518 207559010007 Winged helix-turn helix; Region: HTH_29; pfam13551 207559010008 Homeodomain-like domain; Region: HTH_32; pfam13565 207559010009 Integrase core domain; Region: rve; pfam00665 207559010010 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 207559010011 aspartate aminotransferase; Provisional; Region: PRK05764 207559010012 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 207559010013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559010014 homodimer interface [polypeptide binding]; other site 207559010015 catalytic residue [active] 207559010016 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 207559010017 active site 207559010018 dimer interface [polypeptide binding]; other site 207559010019 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 207559010020 dimer interface [polypeptide binding]; other site 207559010021 active site 207559010022 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 207559010023 dimer interface [polypeptide binding]; other site 207559010024 phosphorylation site [posttranslational modification] 207559010025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010026 ATP binding site [chemical binding]; other site 207559010027 Mg2+ binding site [ion binding]; other site 207559010028 G-X-G motif; other site 207559010029 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559010030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010031 active site 207559010032 phosphorylation site [posttranslational modification] 207559010033 intermolecular recognition site; other site 207559010034 dimerization interface [polypeptide binding]; other site 207559010035 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 207559010036 Walker A motif; other site 207559010037 ATP binding site [chemical binding]; other site 207559010038 Walker B motif; other site 207559010039 arginine finger; other site 207559010040 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 207559010041 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 207559010042 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 207559010043 phosphate binding site [ion binding]; other site 207559010044 putative substrate binding pocket [chemical binding]; other site 207559010045 dimer interface [polypeptide binding]; other site 207559010046 amphi-Trp domain; Region: amphi-Trp; TIGR04354 207559010047 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559010048 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 207559010049 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 207559010050 ATP binding site [chemical binding]; other site 207559010051 putative Mg++ binding site [ion binding]; other site 207559010052 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 207559010053 nucleotide binding region [chemical binding]; other site 207559010054 ATP-binding site [chemical binding]; other site 207559010055 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 207559010056 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559010057 active site 207559010058 substrate binding site [chemical binding]; other site 207559010059 catalytic site [active] 207559010060 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 207559010061 FAD binding domain; Region: FAD_binding_4; pfam01565 207559010062 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559010063 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 207559010064 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 207559010065 active site 207559010066 nucleotide binding site [chemical binding]; other site 207559010067 HIGH motif; other site 207559010068 KMSKS motif; other site 207559010069 Flagellin N-methylase; Region: FliB; pfam03692 207559010070 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 207559010071 active site 207559010072 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 207559010073 HIGH motif; other site 207559010074 dimer interface [polypeptide binding]; other site 207559010075 KMSKS motif; other site 207559010076 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 207559010077 Peptidase family M50; Region: Peptidase_M50; pfam02163 207559010078 active site 207559010079 putative substrate binding region [chemical binding]; other site 207559010080 Response regulator receiver domain; Region: Response_reg; pfam00072 207559010081 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010082 active site 207559010083 phosphorylation site [posttranslational modification] 207559010084 intermolecular recognition site; other site 207559010085 dimerization interface [polypeptide binding]; other site 207559010086 Ubiquitin-like proteins; Region: UBQ; cl00155 207559010087 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 207559010088 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 207559010089 Ligand Binding Site [chemical binding]; other site 207559010090 TIGR00269 family protein; Region: TIGR00269 207559010091 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559010092 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 207559010093 active site 207559010094 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 207559010095 active site 207559010096 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 207559010097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559010098 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 207559010099 rRNA binding site [nucleotide binding]; other site 207559010100 predicted 30S ribosome binding site; other site 207559010101 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559010102 active site 207559010103 metal binding site [ion binding]; metal-binding site 207559010104 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 207559010105 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 207559010106 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 207559010107 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 207559010108 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559010109 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559010110 glutamine binding [chemical binding]; other site 207559010111 catalytic triad [active] 207559010112 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 207559010113 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 207559010114 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 207559010115 homodimer interface [polypeptide binding]; other site 207559010116 substrate-cofactor binding pocket; other site 207559010117 Aminotransferase class IV; Region: Aminotran_4; pfam01063 207559010118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559010119 catalytic residue [active] 207559010120 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 207559010121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559010122 substrate binding pocket [chemical binding]; other site 207559010123 membrane-bound complex binding site; other site 207559010124 hinge residues; other site 207559010125 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 207559010126 active site 207559010127 DNA polymerase IV; Validated; Region: PRK02406 207559010128 DNA binding site [nucleotide binding] 207559010129 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 207559010130 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559010131 active site 207559010132 metal binding site [ion binding]; metal-binding site 207559010133 DNA binding site [nucleotide binding] 207559010134 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559010135 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559010136 Predicted GTPase [General function prediction only]; Region: COG2403 207559010137 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 207559010138 Outer membrane efflux protein; Region: OEP; pfam02321 207559010139 Outer membrane efflux protein; Region: OEP; pfam02321 207559010140 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559010141 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 207559010142 HlyD family secretion protein; Region: HlyD_3; pfam13437 207559010143 TolQ protein; Region: tolQ; TIGR02796 207559010144 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 207559010145 TolR protein; Region: tolR; TIGR02801 207559010146 TolA protein; Region: tolA_full; TIGR02794 207559010147 TonB C terminal; Region: TonB_2; pfam13103 207559010148 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 207559010149 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559010150 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559010151 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559010152 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559010153 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559010154 ligand binding site [chemical binding]; other site 207559010155 putative oxidoreductase; Provisional; Region: PRK12831 207559010156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 207559010157 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559010158 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 207559010159 FAD binding pocket [chemical binding]; other site 207559010160 FAD binding motif [chemical binding]; other site 207559010161 phosphate binding motif [ion binding]; other site 207559010162 beta-alpha-beta structure motif; other site 207559010163 NAD binding pocket [chemical binding]; other site 207559010164 Iron coordination center [ion binding]; other site 207559010165 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559010166 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559010167 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559010168 putative NAD(P) binding site [chemical binding]; other site 207559010169 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559010170 fumarate hydratase; Provisional; Region: PRK06246 207559010171 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 207559010172 putative trimer interface [polypeptide binding]; other site 207559010173 putative CoA binding site [chemical binding]; other site 207559010174 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 207559010175 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 207559010176 Sulfate transporter family; Region: Sulfate_transp; pfam00916 207559010177 Sulfate transporter family; Region: Sulfate_transp; pfam00916 207559010178 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 207559010179 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 207559010180 TPR repeat; Region: TPR_11; pfam13414 207559010181 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 207559010182 binding surface 207559010183 TPR motif; other site 207559010184 TPR repeat; Region: TPR_11; pfam13414 207559010185 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 207559010186 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 207559010187 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 207559010188 catalytic site [active] 207559010189 subunit interface [polypeptide binding]; other site 207559010190 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 207559010191 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559010192 Ligand binding site; other site 207559010193 oligomer interface; other site 207559010194 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 207559010195 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 207559010196 G1 box; other site 207559010197 putative GEF interaction site [polypeptide binding]; other site 207559010198 GTP/Mg2+ binding site [chemical binding]; other site 207559010199 Switch I region; other site 207559010200 G2 box; other site 207559010201 G3 box; other site 207559010202 Switch II region; other site 207559010203 G4 box; other site 207559010204 G5 box; other site 207559010205 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 207559010206 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 207559010207 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 207559010208 dimer interface [polypeptide binding]; other site 207559010209 active site 207559010210 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 207559010211 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 207559010212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 207559010213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 207559010214 DNA binding site [nucleotide binding] 207559010215 domain linker motif; other site 207559010216 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 207559010217 dimerization interface [polypeptide binding]; other site 207559010218 ligand binding site [chemical binding]; other site 207559010219 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 207559010220 active site 207559010221 catalytic residues [active] 207559010222 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 207559010223 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 207559010224 Walker A/P-loop; other site 207559010225 ATP binding site [chemical binding]; other site 207559010226 Q-loop/lid; other site 207559010227 ABC transporter signature motif; other site 207559010228 Walker B; other site 207559010229 D-loop; other site 207559010230 H-loop/switch region; other site 207559010231 TOBE domain; Region: TOBE_2; pfam08402 207559010232 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 207559010233 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 207559010234 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 207559010235 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 207559010236 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 207559010237 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010238 dimer interface [polypeptide binding]; other site 207559010239 conserved gate region; other site 207559010240 putative PBP binding loops; other site 207559010241 ABC-ATPase subunit interface; other site 207559010242 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559010243 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 207559010244 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 207559010245 putative acyl-acceptor binding pocket; other site 207559010246 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 207559010247 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 207559010248 Protein of unknown function (DUF523); Region: DUF523; pfam04463 207559010249 flavodoxin, short chain; Region: flav_short; TIGR01753 207559010250 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 207559010251 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 207559010252 Walker A/P-loop; other site 207559010253 ATP binding site [chemical binding]; other site 207559010254 Q-loop/lid; other site 207559010255 ABC transporter signature motif; other site 207559010256 Walker B; other site 207559010257 D-loop; other site 207559010258 H-loop/switch region; other site 207559010259 TOBE domain; Region: TOBE_2; pfam08402 207559010260 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 207559010261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010262 dimer interface [polypeptide binding]; other site 207559010263 conserved gate region; other site 207559010264 putative PBP binding loops; other site 207559010265 ABC-ATPase subunit interface; other site 207559010266 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559010267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010268 dimer interface [polypeptide binding]; other site 207559010269 ABC-ATPase subunit interface; other site 207559010270 putative PBP binding loops; other site 207559010271 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 207559010272 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 207559010273 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559010274 metal binding site 2 [ion binding]; metal-binding site 207559010275 putative DNA binding helix; other site 207559010276 metal binding site 1 [ion binding]; metal-binding site 207559010277 dimer interface [polypeptide binding]; other site 207559010278 structural Zn2+ binding site [ion binding]; other site 207559010279 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 207559010280 substrate binding site [chemical binding]; other site 207559010281 nucleotide binding site [chemical binding]; other site 207559010282 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 207559010283 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559010284 trimer interface [polypeptide binding]; other site 207559010285 active site 207559010286 substrate binding site [chemical binding]; other site 207559010287 CoA binding site [chemical binding]; other site 207559010288 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 207559010289 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 207559010290 active site 207559010291 dimer interface [polypeptide binding]; other site 207559010292 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 207559010293 Ligand Binding Site [chemical binding]; other site 207559010294 Molecular Tunnel; other site 207559010295 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 207559010296 active site 207559010297 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559010298 ligand binding site; other site 207559010299 tetramer interface; other site 207559010300 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 207559010301 active site 207559010302 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 207559010303 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559010304 trimer interface [polypeptide binding]; other site 207559010305 active site 207559010306 substrate binding site [chemical binding]; other site 207559010307 CoA binding site [chemical binding]; other site 207559010308 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559010309 NeuB family; Region: NeuB; pfam03102 207559010310 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 207559010311 NeuB binding interface [polypeptide binding]; other site 207559010312 putative substrate binding site [chemical binding]; other site 207559010313 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 207559010314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559010315 Walker A/P-loop; other site 207559010316 ATP binding site [chemical binding]; other site 207559010317 Q-loop/lid; other site 207559010318 ABC transporter signature motif; other site 207559010319 Walker B; other site 207559010320 D-loop; other site 207559010321 H-loop/switch region; other site 207559010322 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 207559010323 dimerization interface [polypeptide binding]; other site 207559010324 putative DNA binding site [nucleotide binding]; other site 207559010325 putative Zn2+ binding site [ion binding]; other site 207559010326 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 207559010327 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559010328 extended (e) SDRs; Region: SDR_e; cd08946 207559010329 NAD(P) binding site [chemical binding]; other site 207559010330 active site 207559010331 substrate binding site [chemical binding]; other site 207559010332 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 207559010333 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559010334 Ligand binding site; other site 207559010335 oligomer interface; other site 207559010336 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 207559010337 trimer interface [polypeptide binding]; other site 207559010338 active site 207559010339 substrate binding site [chemical binding]; other site 207559010340 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 207559010341 CoA binding site [chemical binding]; other site 207559010342 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 207559010343 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 207559010344 putative ligand binding site [chemical binding]; other site 207559010345 putative NAD binding site [chemical binding]; other site 207559010346 catalytic site [active] 207559010347 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 207559010348 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 207559010349 motif II; other site 207559010350 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559010351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559010352 NAD(P) binding site [chemical binding]; other site 207559010353 active site 207559010354 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 207559010355 trimer interface [polypeptide binding]; other site 207559010356 active site 207559010357 substrate binding site [chemical binding]; other site 207559010358 CoA binding site [chemical binding]; other site 207559010359 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 207559010360 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 207559010361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559010362 catalytic residue [active] 207559010363 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 207559010364 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 207559010365 substrate binding site; other site 207559010366 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 207559010367 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 207559010368 NAD binding site [chemical binding]; other site 207559010369 homotetramer interface [polypeptide binding]; other site 207559010370 homodimer interface [polypeptide binding]; other site 207559010371 substrate binding site [chemical binding]; other site 207559010372 active site 207559010373 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 207559010374 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559010375 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 207559010376 inhibitor-cofactor binding pocket; inhibition site 207559010377 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559010378 catalytic residue [active] 207559010379 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559010380 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 207559010381 active site 207559010382 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 207559010383 oligosaccharyl transferase, archaeosortase A system-associated; Region: archaeo_STT3; TIGR04154 207559010384 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 207559010385 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 207559010386 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559010387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559010388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559010389 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 207559010390 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559010391 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 207559010392 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559010393 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 207559010394 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 207559010395 dimer interface [polypeptide binding]; other site 207559010396 putative tRNA-binding site [nucleotide binding]; other site 207559010397 translocation protein TolB; Provisional; Region: tolB; PRK05137 207559010398 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559010399 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559010400 Cysteine-rich domain; Region: CCG; pfam02754 207559010401 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559010402 heme-binding residues [chemical binding]; other site 207559010403 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 207559010404 Ligand Binding Site [chemical binding]; other site 207559010405 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 207559010406 Ligand Binding Site [chemical binding]; other site 207559010407 Response regulator receiver domain; Region: Response_reg; pfam00072 207559010408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010409 active site 207559010410 phosphorylation site [posttranslational modification] 207559010411 intermolecular recognition site; other site 207559010412 dimerization interface [polypeptide binding]; other site 207559010413 Response regulator receiver domain; Region: Response_reg; pfam00072 207559010414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010415 active site 207559010416 phosphorylation site [posttranslational modification] 207559010417 intermolecular recognition site; other site 207559010418 dimerization interface [polypeptide binding]; other site 207559010419 Response regulator receiver domain; Region: Response_reg; pfam00072 207559010420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010421 active site 207559010422 phosphorylation site [posttranslational modification] 207559010423 intermolecular recognition site; other site 207559010424 dimerization interface [polypeptide binding]; other site 207559010425 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 207559010426 PAS domain; Region: PAS_9; pfam13426 207559010427 putative active site [active] 207559010428 heme pocket [chemical binding]; other site 207559010429 PAS domain; Region: PAS_9; pfam13426 207559010430 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559010431 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010432 ATP binding site [chemical binding]; other site 207559010433 Mg2+ binding site [ion binding]; other site 207559010434 G-X-G motif; other site 207559010435 Response regulator receiver domain; Region: Response_reg; pfam00072 207559010436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559010437 active site 207559010438 phosphorylation site [posttranslational modification] 207559010439 intermolecular recognition site; other site 207559010440 dimerization interface [polypeptide binding]; other site 207559010441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559010442 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010443 ATP binding site [chemical binding]; other site 207559010444 Mg2+ binding site [ion binding]; other site 207559010445 G-X-G motif; other site 207559010446 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 207559010447 dimerization interface [polypeptide binding]; other site 207559010448 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559010449 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559010450 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 207559010451 putative active site [active] 207559010452 heme pocket [chemical binding]; other site 207559010453 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 207559010454 dimer interface [polypeptide binding]; other site 207559010455 phosphorylation site [posttranslational modification] 207559010456 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010457 ATP binding site [chemical binding]; other site 207559010458 Mg2+ binding site [ion binding]; other site 207559010459 G-X-G motif; other site 207559010460 Predicted transcriptional regulator [Transcription]; Region: COG1959 207559010461 Transcriptional regulator; Region: Rrf2; cl17282 207559010462 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 207559010463 dimerization interface [polypeptide binding]; other site 207559010464 putative DNA binding site [nucleotide binding]; other site 207559010465 putative Zn2+ binding site [ion binding]; other site 207559010466 Predicted permeases [General function prediction only]; Region: COG0701 207559010467 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559010468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010469 dimer interface [polypeptide binding]; other site 207559010470 conserved gate region; other site 207559010471 ABC-ATPase subunit interface; other site 207559010472 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559010473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010474 dimer interface [polypeptide binding]; other site 207559010475 conserved gate region; other site 207559010476 ABC-ATPase subunit interface; other site 207559010477 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559010478 ABC transporter signature motif; other site 207559010479 Walker B; other site 207559010480 D-loop; other site 207559010481 H-loop/switch region; other site 207559010482 Transposase domain (DUF772); Region: DUF772; pfam05598 207559010483 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559010484 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559010485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 207559010486 Walker A/P-loop; other site 207559010487 ATP binding site [chemical binding]; other site 207559010488 Q-loop/lid; other site 207559010489 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559010490 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 207559010491 substrate binding pocket [chemical binding]; other site 207559010492 membrane-bound complex binding site; other site 207559010493 hinge residues; other site 207559010494 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 207559010495 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 207559010496 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 207559010497 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 207559010498 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 207559010499 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 207559010500 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 207559010501 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 207559010502 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 207559010503 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 207559010504 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559010505 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 207559010506 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559010507 GAF domain; Region: GAF; pfam01590 207559010508 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 207559010509 PAS domain S-box; Region: sensory_box; TIGR00229 207559010510 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559010511 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 207559010512 DNA binding residues [nucleotide binding] 207559010513 dimerization interface [polypeptide binding]; other site 207559010514 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559010515 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 207559010516 substrate binding pocket [chemical binding]; other site 207559010517 membrane-bound complex binding site; other site 207559010518 hinge residues; other site 207559010519 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559010520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 207559010521 dimer interface [polypeptide binding]; other site 207559010522 conserved gate region; other site 207559010523 putative PBP binding loops; other site 207559010524 ABC-ATPase subunit interface; other site 207559010525 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559010526 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 207559010527 Walker A/P-loop; other site 207559010528 ATP binding site [chemical binding]; other site 207559010529 Q-loop/lid; other site 207559010530 ABC transporter signature motif; other site 207559010531 Walker B; other site 207559010532 D-loop; other site 207559010533 H-loop/switch region; other site 207559010534 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559010535 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 207559010536 P-loop; other site 207559010537 Magnesium ion binding site [ion binding]; other site 207559010538 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 207559010539 Magnesium ion binding site [ion binding]; other site 207559010540 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 207559010541 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559010542 metal binding site [ion binding]; metal-binding site 207559010543 active site 207559010544 I-site; other site 207559010545 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559010546 heme-binding residues [chemical binding]; other site 207559010547 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559010548 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 207559010549 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 207559010550 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 207559010551 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 207559010552 Methyltransferase domain; Region: Methyltransf_24; pfam13578 207559010553 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 207559010554 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559010555 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 207559010556 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 207559010557 rRNA binding site [nucleotide binding]; other site 207559010558 predicted 30S ribosome binding site; other site 207559010559 TPR repeat; Region: TPR_11; pfam13414 207559010560 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 207559010561 binding surface 207559010562 TPR motif; other site 207559010563 TPR repeat; Region: TPR_11; pfam13414 207559010564 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 207559010565 TPR repeat; Region: TPR_11; pfam13414 207559010566 binding surface 207559010567 TPR motif; other site 207559010568 TPR repeat; Region: TPR_11; pfam13414 207559010569 NIMA-related protein kinase; Provisional; Region: PTZ00267 207559010570 Flagellin N-methylase; Region: FliB; cl00497 207559010571 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559010572 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559010573 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 207559010574 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 207559010575 protein binding site [polypeptide binding]; other site 207559010576 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 207559010577 protein binding site [polypeptide binding]; other site 207559010578 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 207559010579 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 207559010580 putative dimer interface [polypeptide binding]; other site 207559010581 active site pocket [active] 207559010582 putative cataytic base [active] 207559010583 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559010584 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 207559010585 Walker A/P-loop; other site 207559010586 ATP binding site [chemical binding]; other site 207559010587 Q-loop/lid; other site 207559010588 ABC transporter signature motif; other site 207559010589 Walker B; other site 207559010590 D-loop; other site 207559010591 H-loop/switch region; other site 207559010592 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559010593 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559010594 Helix-turn-helix domain; Region: HTH_17; pfam12728 207559010595 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 207559010596 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 207559010597 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 207559010598 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 207559010599 dimerization interface [polypeptide binding]; other site 207559010600 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559010601 PAS domain; Region: PAS; smart00091 207559010602 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 207559010603 dimer interface [polypeptide binding]; other site 207559010604 phosphorylation site [posttranslational modification] 207559010605 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010606 ATP binding site [chemical binding]; other site 207559010607 Mg2+ binding site [ion binding]; other site 207559010608 G-X-G motif; other site 207559010609 putative peptidase; Provisional; Region: PRK11649 207559010610 Peptidase family M23; Region: Peptidase_M23; pfam01551