-- dump date 20120504_143413 -- 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 in DNA...; 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 ATP-dependent...; 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 the...; 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 the...; 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; cl00800 207559000073 Protein of unknown function DUF116; Region: DUF116; cl00800 207559000074 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 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; cl08096 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 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; 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; cl00510 207559000092 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 207559000093 anti sigma factor interaction site; other site 207559000094 regulatory phosphorylation site [posttranslational modification]; other site 207559000095 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 207559000096 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 207559000097 putative ribose interaction site [chemical binding]; other site 207559000098 putative ADP binding site [chemical binding]; other site 207559000099 ParB-like partition proteins; Region: parB_part; TIGR00180 207559000100 ParB-like nuclease domain; Region: ParBc; cl02129 207559000101 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559000102 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 207559000103 P-loop; other site 207559000104 Magnesium ion binding site [ion binding]; other site 207559000105 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 207559000106 Magnesium ion binding site [ion binding]; other site 207559000107 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559000108 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 207559000109 putative NAD(P) binding site [chemical binding]; other site 207559000110 active site 207559000111 putative substrate binding site [chemical binding]; other site 207559000112 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 207559000113 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 207559000114 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 207559000115 dimer interface [polypeptide binding]; other site 207559000116 active site residues [active] 207559000117 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 207559000118 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 207559000119 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 207559000120 Flavoprotein; Region: Flavoprotein; cl08021 207559000121 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 207559000122 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 207559000123 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 207559000124 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559000125 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559000126 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 207559000127 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 207559000128 dimer interface [polypeptide binding]; other site 207559000129 PYR/PP interface [polypeptide binding]; other site 207559000130 TPP binding site [chemical binding]; other site 207559000131 substrate binding site [chemical binding]; other site 207559000132 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559000133 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 207559000134 TPP-binding site [chemical binding]; other site 207559000135 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559000136 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559000137 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 207559000138 FeS/SAM binding site; other site 207559000139 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 207559000140 Ligand Binding Site [chemical binding]; other site 207559000141 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 207559000142 Ligand Binding Site [chemical binding]; other site 207559000143 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 207559000144 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 207559000145 dimer interface [polypeptide binding]; other site 207559000146 active site 207559000147 metal binding site [ion binding]; metal-binding site 207559000148 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 207559000149 Proline dehydrogenase; Region: Pro_dh; cl03282 207559000150 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 207559000151 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 207559000152 Glutamate binding site [chemical binding]; other site 207559000153 homodimer interface [polypeptide binding]; other site 207559000154 NAD binding site [chemical binding]; other site 207559000155 catalytic residues [active] 207559000156 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 207559000157 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 207559000158 heterodimer interface [polypeptide binding]; other site 207559000159 active site 207559000160 FMN binding site [chemical binding]; other site 207559000161 homodimer interface [polypeptide binding]; other site 207559000162 substrate binding site [chemical binding]; other site 207559000163 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 207559000164 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 207559000165 FAD binding pocket [chemical binding]; other site 207559000166 FAD binding motif [chemical binding]; other site 207559000167 phosphate binding motif [ion binding]; other site 207559000168 beta-alpha-beta structure motif; other site 207559000169 NAD binding pocket [chemical binding]; other site 207559000170 Iron coordination center [ion binding]; other site 207559000171 Peptidase family U32; Region: Peptidase_U32; cl03113 207559000172 Peptidase family U32; Region: Peptidase_U32; cl03113 207559000173 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 207559000174 GTP-binding protein Der; Reviewed; Region: PRK00093 207559000175 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 207559000176 G1 box; other site 207559000177 GTP/Mg2+ binding site [chemical binding]; other site 207559000178 Switch I region; other site 207559000179 G2 box; other site 207559000180 Switch II region; other site 207559000181 G3 box; other site 207559000182 G4 box; other site 207559000183 G5 box; other site 207559000184 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 207559000185 G1 box; other site 207559000186 GTP/Mg2+ binding site [chemical binding]; other site 207559000187 Switch I region; other site 207559000188 G2 box; other site 207559000189 G3 box; other site 207559000190 Switch II region; other site 207559000191 G4 box; other site 207559000192 G5 box; other site 207559000193 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 207559000194 active site 207559000195 Zn binding site [ion binding]; other site 207559000196 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 207559000197 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 207559000198 homodimer interface [polypeptide binding]; other site 207559000199 substrate-cofactor binding pocket; other site 207559000200 catalytic residue [active] 207559000201 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 207559000202 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 207559000203 Walker A motif; other site 207559000204 ATP binding site [chemical binding]; other site 207559000205 Walker B motif; other site 207559000206 arginine finger; other site 207559000207 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 207559000208 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 207559000209 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 207559000210 recombination protein RecR; Reviewed; Region: recR; PRK00076 207559000211 RecR protein; Region: RecR; pfam02132 207559000212 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 207559000213 putative active site [active] 207559000214 putative metal-binding site [ion binding]; other site 207559000215 tetramer interface [polypeptide binding]; other site 207559000216 Peptidase family M48; Region: Peptidase_M48; cl12018 207559000217 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000219 active site 207559000220 phosphorylation site [posttranslational modification] 207559000221 intermolecular recognition site; other site 207559000222 dimerization interface [polypeptide binding]; other site 207559000223 Domain of unknown function (DUF309); Region: DUF309; cl00667 207559000224 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 207559000225 active site 207559000226 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 207559000227 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 207559000228 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 207559000229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000230 metal binding site [ion binding]; metal-binding site 207559000231 active site 207559000232 I-site; other site 207559000233 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 207559000234 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 207559000235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000236 catalytic residue [active] 207559000237 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559000238 4Fe-4S binding domain; Region: Fer4; cl02805 207559000239 4Fe-4S binding domain; Region: Fer4; cl02805 207559000240 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559000241 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559000242 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 207559000243 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000244 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559000245 OpgC protein; Region: OpgC_C; cl00792 207559000246 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 207559000247 dimer interface [polypeptide binding]; other site 207559000248 FMN binding site [chemical binding]; other site 207559000249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559000250 Helix-turn-helix domains; Region: HTH; cl00088 207559000251 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000252 dimerization interface [polypeptide binding]; other site 207559000253 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559000254 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 207559000255 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 207559000256 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559000257 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 207559000258 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; cl16911 207559000259 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; cl16911 207559000260 Fusaric acid resistance protein family; Region: FUSC; pfam04632 207559000261 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 207559000262 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 207559000263 Ligand Binding Site [chemical binding]; other site 207559000264 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 207559000265 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 207559000266 putative dimer interface [polypeptide binding]; other site 207559000267 putative anticodon binding site; other site 207559000268 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 207559000269 homodimer interface [polypeptide binding]; other site 207559000270 motif 1; other site 207559000271 motif 2; other site 207559000272 active site 207559000273 motif 3; other site 207559000274 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 207559000275 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 207559000276 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000277 glutamine synthetase, type I; Region: GlnA; TIGR00653 207559000278 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 207559000279 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 207559000280 DNA topoisomerase I; Validated; Region: PRK06599 207559000281 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 207559000282 active site 207559000283 interdomain interaction site; other site 207559000284 putative metal-binding site [ion binding]; other site 207559000285 nucleotide binding site [chemical binding]; other site 207559000286 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 207559000287 domain I; other site 207559000288 DNA binding groove [nucleotide binding] 207559000289 phosphate binding site [ion binding]; other site 207559000290 domain II; other site 207559000291 domain III; other site 207559000292 nucleotide binding site [chemical binding]; other site 207559000293 catalytic site [active] 207559000294 domain IV; other site 207559000295 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000296 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000297 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 207559000298 DNA topoisomerase I; Validated; Region: PRK06599 207559000299 Peptidase family M48; Region: Peptidase_M48; cl12018 207559000300 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 207559000301 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000302 active site 207559000303 phosphorylation site [posttranslational modification] 207559000304 intermolecular recognition site; other site 207559000305 dimerization interface [polypeptide binding]; other site 207559000306 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 207559000307 Walker A motif; other site 207559000308 ATP binding site [chemical binding]; other site 207559000309 Walker B motif; other site 207559000310 arginine finger; other site 207559000311 Helix-turn-helix domains; Region: HTH; cl00088 207559000312 sensor protein ZraS; Provisional; Region: PRK10364 207559000313 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559000314 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 207559000315 dimer interface [polypeptide binding]; other site 207559000316 phosphorylation site [posttranslational modification] 207559000317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000318 ATP binding site [chemical binding]; other site 207559000319 Mg2+ binding site [ion binding]; other site 207559000320 G-X-G motif; other site 207559000321 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559000322 dimer interface [polypeptide binding]; other site 207559000323 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 207559000324 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 207559000325 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 207559000326 active site 207559000327 dimer interface [polypeptide binding]; other site 207559000328 effector binding site; other site 207559000329 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559000330 TSCPD domain; Region: TSCPD; cl14834 207559000331 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 207559000332 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559000333 Walker A/P-loop; other site 207559000334 ATP binding site [chemical binding]; other site 207559000335 Q-loop/lid; other site 207559000336 ABC transporter signature motif; other site 207559000337 Walker B; other site 207559000338 D-loop; other site 207559000339 H-loop/switch region; other site 207559000340 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 207559000341 FtsX-like permease family; Region: FtsX; cl15850 207559000342 Dehydratase family; Region: ILVD_EDD; cl00340 207559000343 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559000344 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000345 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559000346 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 207559000347 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559000348 active site 207559000349 Family description; Region: VCBS; pfam13517 207559000350 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; cl16911 207559000351 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 cysteine...; Region: CysQ; cd01638 207559000352 active site 207559000353 NlpC/P60 family; Region: NLPC_P60; cl11438 207559000354 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 207559000355 IHF - DNA interface [nucleotide binding]; other site 207559000356 IHF dimer interface [polypeptide binding]; other site 207559000357 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559000358 DNA binding residues [nucleotide binding] 207559000359 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 207559000360 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559000361 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 207559000362 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 207559000363 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 207559000364 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 207559000365 Helix-turn-helix domains; Region: HTH; cl00088 207559000366 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 207559000367 Predicted permeases [General function prediction only]; Region: COG0701 207559000368 Predicted permease; Region: DUF318; pfam03773 207559000369 Predicted permease; Region: DUF318; pfam03773 207559000370 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 207559000371 Ferritin-like domain; Region: Ferritin; pfam00210 207559000372 heme binding site [chemical binding]; other site 207559000373 ferroxidase pore; other site 207559000374 ferroxidase diiron center [ion binding]; other site 207559000375 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 207559000376 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 207559000377 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 207559000378 active site 207559000379 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 207559000380 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 207559000381 TM-ABC transporter signature motif; other site 207559000382 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 207559000383 TM-ABC transporter signature motif; other site 207559000384 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559000385 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 207559000386 Walker A/P-loop; other site 207559000387 ATP binding site [chemical binding]; other site 207559000388 Q-loop/lid; other site 207559000389 ABC transporter signature motif; other site 207559000390 Walker B; other site 207559000391 D-loop; other site 207559000392 H-loop/switch region; other site 207559000393 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 207559000394 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 207559000395 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 207559000396 putative ligand binding site [chemical binding]; other site 207559000397 NMT1-like family; Region: NMT1_2; cl15260 207559000398 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000399 NMT1-like family; Region: NMT1_2; cl15260 207559000400 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 207559000401 PEP-CTERM motif; Region: VPEP; cl15443 207559000402 aromatic acid decarboxylase; Validated; Region: PRK05920 207559000403 Flavoprotein; Region: Flavoprotein; cl08021 207559000404 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559000405 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 207559000406 GIY-YIG motif/motif A; other site 207559000407 putative active site [active] 207559000408 putative metal binding site [ion binding]; other site 207559000409 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 207559000410 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 207559000411 ATP binding site [chemical binding]; other site 207559000412 Mg++ binding site [ion binding]; other site 207559000413 motif III; other site 207559000414 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 207559000415 nucleotide binding region [chemical binding]; other site 207559000416 ATP-binding site [chemical binding]; other site 207559000417 DbpA RNA binding domain; Region: DbpA; pfam03880 207559000418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000419 dimer interface [polypeptide binding]; other site 207559000420 conserved gate region; other site 207559000421 putative PBP binding loops; other site 207559000422 ABC-ATPase subunit interface; other site 207559000423 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559000424 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000425 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 207559000426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559000427 DNA-binding site [nucleotide binding]; DNA binding site 207559000428 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 207559000429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000430 homodimer interface [polypeptide binding]; other site 207559000431 catalytic residue [active] 207559000432 AzlC protein; Region: AzlC; cl00570 207559000433 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 207559000434 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 207559000435 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 207559000436 Histidine kinase; Region: His_kinase; pfam06580 207559000437 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000438 ATP binding site [chemical binding]; other site 207559000439 Mg2+ binding site [ion binding]; other site 207559000440 G-X-G motif; other site 207559000441 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 207559000442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000443 active site 207559000444 phosphorylation site [posttranslational modification] 207559000445 intermolecular recognition site; other site 207559000446 dimerization interface [polypeptide binding]; other site 207559000447 LytTr DNA-binding domain; Region: LytTR; cl04498 207559000448 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000449 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 207559000450 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000451 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559000452 Walker A/P-loop; other site 207559000453 ATP binding site [chemical binding]; other site 207559000454 Q-loop/lid; other site 207559000455 ABC transporter signature motif; other site 207559000456 Walker B; other site 207559000457 D-loop; other site 207559000458 H-loop/switch region; other site 207559000459 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000460 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000461 dimer interface [polypeptide binding]; other site 207559000462 conserved gate region; other site 207559000463 putative PBP binding loops; other site 207559000464 ABC-ATPase subunit interface; other site 207559000465 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 207559000466 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 207559000467 substrate binding pocket [chemical binding]; other site 207559000468 membrane-bound complex binding site; other site 207559000469 hinge residues; other site 207559000470 threonine synthase; Validated; Region: PRK06260 207559000471 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 207559000472 homodimer interface [polypeptide binding]; other site 207559000473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000474 catalytic residue [active] 207559000475 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 207559000476 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 207559000477 RNB domain; Region: RNB; pfam00773 207559000478 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 207559000479 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 207559000480 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 catalyze...; Region: LT_GEWL; cd00254 207559000481 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559000482 catalytic residue [active] 207559000483 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 207559000484 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 207559000485 GDP-binding site [chemical binding]; other site 207559000486 ACT binding site; other site 207559000487 IMP binding site; other site 207559000488 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 207559000489 DNA polymerase III subunit delta'; Validated; Region: PRK07471 207559000490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559000491 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000493 active site 207559000494 phosphorylation site [posttranslational modification] 207559000495 intermolecular recognition site; other site 207559000496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000497 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000498 active site 207559000499 phosphorylation site [posttranslational modification] 207559000500 intermolecular recognition site; other site 207559000501 dimerization interface [polypeptide binding]; other site 207559000502 photolyase PhrII; Region: phr2; TIGR00591 207559000503 DNA photolyase; Region: DNA_photolyase; pfam00875 207559000504 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 207559000505 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559000506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559000507 active site 207559000508 phosphorylation site [posttranslational modification] 207559000509 intermolecular recognition site; other site 207559000510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000511 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000512 active site 207559000513 phosphorylation site [posttranslational modification] 207559000514 intermolecular recognition site; other site 207559000515 dimerization interface [polypeptide binding]; other site 207559000516 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000517 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559000518 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000520 dimer interface [polypeptide binding]; other site 207559000521 conserved gate region; other site 207559000522 putative PBP binding loops; other site 207559000523 ABC-ATPase subunit interface; other site 207559000524 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559000525 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559000526 Walker A/P-loop; other site 207559000527 ATP binding site [chemical binding]; other site 207559000528 Q-loop/lid; other site 207559000529 ABC transporter signature motif; other site 207559000530 Walker B; other site 207559000531 D-loop; other site 207559000532 H-loop/switch region; other site 207559000533 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559000534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000535 dimer interface [polypeptide binding]; other site 207559000536 conserved gate region; other site 207559000537 putative PBP binding loops; other site 207559000538 ABC-ATPase subunit interface; other site 207559000539 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559000540 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 207559000541 substrate binding pocket [chemical binding]; other site 207559000542 membrane-bound complex binding site; other site 207559000543 hinge residues; other site 207559000544 Flavin Reductases; Region: FlaRed; cl00801 207559000545 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 207559000546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000547 Coenzyme A binding pocket [chemical binding]; other site 207559000548 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 207559000549 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 207559000550 FeS/SAM binding site; other site 207559000551 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559000552 Adenosine specific kinase; Region: Adenosine_kin; cl00796 207559000553 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 207559000554 AMP-binding enzyme; Region: AMP-binding; cl15778 207559000555 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 207559000556 seryl-tRNA synthetase; Provisional; Region: PRK05431 207559000557 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 207559000558 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 bound...; Region: SerRS_core; cd00770 207559000559 dimer interface [polypeptide binding]; other site 207559000560 active site 207559000561 motif 1; other site 207559000562 motif 2; other site 207559000563 motif 3; other site 207559000564 RF-1 domain; Region: RF-1; cl02875 207559000565 PilZ domain; Region: PilZ; cl01260 207559000566 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 207559000567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 207559000568 SEC-C motif; Region: SEC-C; pfam02810 207559000569 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559000570 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 207559000571 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 207559000572 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 207559000573 substrate binding site [chemical binding]; other site 207559000574 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559000575 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 207559000576 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 207559000577 catalytic residues [active] 207559000578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559000579 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559000580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559000581 hypothetical protein; Provisional; Region: PRK13560 207559000582 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 207559000583 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 207559000584 putative active site [active] 207559000585 heme pocket [chemical binding]; other site 207559000586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559000587 metal binding site [ion binding]; metal-binding site 207559000588 active site 207559000589 I-site; other site 207559000590 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 207559000591 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559000592 minor groove reading motif; other site 207559000593 helix-hairpin-helix signature motif; other site 207559000594 substrate binding pocket [chemical binding]; other site 207559000595 active site 207559000596 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 207559000597 active site 207559000598 8-oxo-dGMP binding site [chemical binding]; other site 207559000599 nudix motif; other site 207559000600 metal binding site [ion binding]; metal-binding site 207559000601 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 207559000602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559000603 Walker A/P-loop; other site 207559000604 ATP binding site [chemical binding]; other site 207559000605 Q-loop/lid; other site 207559000606 ABC transporter signature motif; other site 207559000607 Walker B; other site 207559000608 D-loop; other site 207559000609 H-loop/switch region; other site 207559000610 TOBE domain; Region: TOBE_2; cl01440 207559000611 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 207559000612 Phosphotransferase enzyme family; Region: APH; pfam01636 207559000613 active site 207559000614 ATP binding site [chemical binding]; other site 207559000615 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 207559000616 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 207559000617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559000618 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559000619 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559000620 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 207559000621 active site 207559000622 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559000623 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559000624 dimer interface [polypeptide binding]; other site 207559000625 putative CheW interface [polypeptide binding]; other site 207559000626 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 207559000627 Sel1 repeat; Region: Sel1; cl02723 207559000628 Sel1 repeat; Region: Sel1; cl02723 207559000629 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000630 active site 207559000631 phosphorylation site [posttranslational modification] 207559000632 intermolecular recognition site; other site 207559000633 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 207559000634 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 207559000635 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000636 Helix-turn-helix domains; Region: HTH; cl00088 207559000637 TIGR02099 family protein; Region: TIGR02099 207559000638 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000639 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000640 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000641 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 207559000642 Carbon starvation protein CstA; Region: CstA; pfam02554 207559000643 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 207559000644 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 207559000645 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 207559000646 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 207559000647 active site 207559000648 HIGH motif; other site 207559000649 dimer interface [polypeptide binding]; other site 207559000650 KMSKS motif; other site 207559000651 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 207559000652 RNA binding surface [nucleotide binding]; other site 207559000653 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 207559000654 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559000655 putative active site [active] 207559000656 metal binding site [ion binding]; metal-binding site 207559000657 homodimer binding site [polypeptide binding]; other site 207559000658 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 207559000659 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 207559000660 dimer interface [polypeptide binding]; other site 207559000661 putative functional site; other site 207559000662 putative MPT binding site; other site 207559000663 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559000664 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559000665 Walker A/P-loop; other site 207559000666 ATP binding site [chemical binding]; other site 207559000667 Q-loop/lid; other site 207559000668 ABC transporter signature motif; other site 207559000669 Walker B; other site 207559000670 D-loop; other site 207559000671 H-loop/switch region; other site 207559000672 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000673 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559000674 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559000675 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559000676 Helix-turn-helix domains; Region: HTH; cl00088 207559000677 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 207559000678 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 207559000679 putative NAD(P) binding site [chemical binding]; other site 207559000680 putative active site [active] 207559000681 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 207559000682 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 207559000683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000684 active site 207559000685 phosphorylation site [posttranslational modification] 207559000686 intermolecular recognition site; other site 207559000687 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 207559000688 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559000689 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 207559000690 dimer interface [polypeptide binding]; other site 207559000691 phosphorylation site [posttranslational modification] 207559000692 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000693 ATP binding site [chemical binding]; other site 207559000694 Mg2+ binding site [ion binding]; other site 207559000695 G-X-G motif; other site 207559000696 fumarate hydratase; Reviewed; Region: fumC; PRK00485 207559000697 Class II fumarases; Region: Fumarase_classII; cd01362 207559000698 active site 207559000699 tetramer interface [polypeptide binding]; other site 207559000700 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559000701 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 207559000702 substrate binding pocket [chemical binding]; other site 207559000703 membrane-bound complex binding site; other site 207559000704 hinge residues; other site 207559000705 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559000706 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 207559000707 Ligand Binding Site [chemical binding]; other site 207559000708 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 207559000709 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 207559000710 chaperone protein DnaJ; Provisional; Region: PRK14301 207559000711 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 207559000712 HSP70 interaction site [polypeptide binding]; other site 207559000713 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 207559000714 substrate binding site [polypeptide binding]; other site 207559000715 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 207559000716 Zn binding sites [ion binding]; other site 207559000717 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 207559000718 dimer interface [polypeptide binding]; other site 207559000719 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 207559000720 trimer interface [polypeptide binding]; other site 207559000721 dimer interface [polypeptide binding]; other site 207559000722 putative active site [active] 207559000723 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 207559000724 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559000725 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559000726 ABC transporter; Region: ABC_tran_2; pfam12848 207559000727 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559000728 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 207559000729 active site 207559000730 8-oxo-dGMP binding site [chemical binding]; other site 207559000731 nudix motif; other site 207559000732 metal binding site [ion binding]; metal-binding site 207559000733 Protein of unknown function, DUF606; Region: DUF606; cl01273 207559000734 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 207559000735 octamerization interface [polypeptide binding]; other site 207559000736 diferric-oxygen binding site [ion binding]; other site 207559000737 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 207559000738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559000739 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 207559000740 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 207559000741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000742 catalytic residue [active] 207559000743 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559000744 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 207559000745 hypothetical protein; Provisional; Region: PRK13560 207559000746 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559000747 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 207559000748 dimer interface [polypeptide binding]; other site 207559000749 phosphorylation site [posttranslational modification] 207559000750 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000751 ATP binding site [chemical binding]; other site 207559000752 Mg2+ binding site [ion binding]; other site 207559000753 G-X-G motif; other site 207559000754 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000755 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000756 active site 207559000757 phosphorylation site [posttranslational modification] 207559000758 intermolecular recognition site; other site 207559000759 dimerization interface [polypeptide binding]; other site 207559000760 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 207559000761 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 207559000762 dimerization interface [polypeptide binding]; other site 207559000763 ligand binding site [chemical binding]; other site 207559000764 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 207559000765 TM-ABC transporter signature motif; other site 207559000766 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 207559000767 TM-ABC transporter signature motif; other site 207559000768 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 207559000769 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 207559000770 Walker A/P-loop; other site 207559000771 ATP binding site [chemical binding]; other site 207559000772 Q-loop/lid; other site 207559000773 ABC transporter signature motif; other site 207559000774 Walker B; other site 207559000775 D-loop; other site 207559000776 H-loop/switch region; other site 207559000777 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559000778 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 207559000779 Walker A/P-loop; other site 207559000780 ATP binding site [chemical binding]; other site 207559000781 Q-loop/lid; other site 207559000782 ABC transporter signature motif; other site 207559000783 Walker B; other site 207559000784 D-loop; other site 207559000785 H-loop/switch region; other site 207559000786 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559000787 Zn2+ binding site [ion binding]; other site 207559000788 Mg2+ binding site [ion binding]; other site 207559000789 4Fe-4S binding domain; Region: Fer4; cl02805 207559000790 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 207559000791 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 207559000792 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559000793 Coenzyme A binding pocket [chemical binding]; other site 207559000794 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000795 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 207559000796 Transglycosylase; Region: Transgly; cl07896 207559000797 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 207559000798 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 207559000799 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 207559000800 MG2 domain; Region: A2M_N; pfam01835 207559000801 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 207559000802 Alpha-2-macroglobulin family; Region: A2M; pfam00207 207559000803 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 207559000804 surface patch; other site 207559000805 thioester region; other site 207559000806 specificity defining residues; other site 207559000807 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559000808 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 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 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559000817 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559000818 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559000819 Walker A/P-loop; other site 207559000820 ATP binding site [chemical binding]; other site 207559000821 Q-loop/lid; other site 207559000822 ABC transporter signature motif; other site 207559000823 Walker B; other site 207559000824 D-loop; other site 207559000825 H-loop/switch region; other site 207559000826 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559000827 dipeptide transporter; Provisional; Region: PRK10913 207559000828 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000829 dimer interface [polypeptide binding]; other site 207559000830 conserved gate region; other site 207559000831 putative PBP binding loops; other site 207559000832 ABC-ATPase subunit interface; other site 207559000833 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559000834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000835 dimer interface [polypeptide binding]; other site 207559000836 conserved gate region; other site 207559000837 putative PBP binding loops; other site 207559000838 ABC-ATPase subunit interface; other site 207559000839 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 207559000840 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559000841 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 207559000842 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 207559000843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559000844 homodimer interface [polypeptide binding]; other site 207559000845 catalytic residue [active] 207559000846 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559000847 ATP cone domain; Region: ATP-cone; pfam03477 207559000848 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559000849 effector binding site; other site 207559000850 active site 207559000851 Zn binding site [ion binding]; other site 207559000852 glycine loop; other site 207559000853 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 207559000854 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 207559000855 FeS/SAM binding site; other site 207559000856 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559000857 Chemotaxis phosphatase CheX; Region: CheX; cl15816 207559000858 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 207559000859 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 207559000860 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 207559000861 High-affinity nickel-transport protein; Region: NicO; cl00964 207559000862 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 207559000863 Propionate catabolism activator; Region: PrpR_N; pfam06506 207559000864 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559000865 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 207559000866 Walker A motif; other site 207559000867 ATP binding site [chemical binding]; other site 207559000868 Walker B motif; other site 207559000869 arginine finger; other site 207559000870 Helix-turn-helix domains; Region: HTH; cl00088 207559000871 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 207559000872 Cytochrome c; Region: Cytochrom_C; cl11414 207559000873 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 207559000874 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 207559000875 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 207559000876 putative hydrophobic ligand binding site [chemical binding]; other site 207559000877 Type III pantothenate kinase; Region: Pan_kinase; cl09130 207559000878 enolase; Provisional; Region: eno; PRK00077 207559000879 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 207559000880 dimer interface [polypeptide binding]; other site 207559000881 metal binding site [ion binding]; metal-binding site 207559000882 substrate binding pocket [chemical binding]; other site 207559000883 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14184 207559000884 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 207559000885 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 207559000886 homodimer interface [polypeptide binding]; other site 207559000887 NADP binding site [chemical binding]; other site 207559000888 substrate binding site [chemical binding]; other site 207559000889 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 207559000890 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559000891 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559000892 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 207559000893 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 207559000894 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559000895 EamA-like transporter family; Region: EamA; cl01037 207559000896 EamA-like transporter family; Region: EamA; cl01037 207559000897 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559000898 Predicted transcriptional regulator [Transcription]; Region: COG4957 207559000899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 207559000900 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 207559000901 Zn binding site [ion binding]; other site 207559000902 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 207559000903 dimer interface [polypeptide binding]; other site 207559000904 catalytic triad [active] 207559000905 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 207559000906 catalytic residues [active] 207559000907 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2933 207559000908 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; cl16911 207559000909 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 207559000910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559000911 dimer interface [polypeptide binding]; other site 207559000912 conserved gate region; other site 207559000913 putative PBP binding loops; other site 207559000914 ABC-ATPase subunit interface; other site 207559000915 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559000916 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 207559000917 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 207559000918 Cl- selectivity filter; other site 207559000919 Cl- binding residues [ion binding]; other site 207559000920 pore gating glutamate residue; other site 207559000921 dimer interface [polypeptide binding]; other site 207559000922 FOG: CBS domain [General function prediction only]; Region: COG0517 207559000923 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 207559000924 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 207559000925 FAD binding domain; Region: FAD_binding_4; pfam01565 207559000926 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 207559000927 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 207559000928 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559000929 Cysteine-rich domain; Region: CCG; pfam02754 207559000930 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 includes...; Region: RuvC_resolvase; cl00243 207559000931 YceG-like family; Region: YceG; pfam02618 207559000932 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 207559000933 dimerization interface [polypeptide binding]; other site 207559000934 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 207559000935 PAS domain; Region: PAS_9; pfam13426 207559000936 putative active site [active] 207559000937 heme pocket [chemical binding]; other site 207559000938 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559000939 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 207559000940 Walker A motif; other site 207559000941 ATP binding site [chemical binding]; other site 207559000942 Walker B motif; other site 207559000943 arginine finger; other site 207559000944 Helix-turn-helix domains; Region: HTH; cl00088 207559000945 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 207559000946 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000947 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 207559000948 dimer interface [polypeptide binding]; other site 207559000949 phosphorylation site [posttranslational modification] 207559000950 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559000951 ATP binding site [chemical binding]; other site 207559000952 G-X-G motif; other site 207559000953 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000955 active site 207559000956 phosphorylation site [posttranslational modification] 207559000957 intermolecular recognition site; other site 207559000958 dimerization interface [polypeptide binding]; other site 207559000959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559000960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559000961 active site 207559000962 phosphorylation site [posttranslational modification] 207559000963 intermolecular recognition site; other site 207559000964 dimerization interface [polypeptide binding]; other site 207559000965 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000966 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000967 active site 207559000968 phosphorylation site [posttranslational modification] 207559000969 intermolecular recognition site; other site 207559000970 dimerization interface [polypeptide binding]; other site 207559000971 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 207559000972 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 207559000973 transmembrane helices; other site 207559000974 Response regulator receiver domain; Region: Response_reg; pfam00072 207559000975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559000976 active site 207559000977 phosphorylation site [posttranslational modification] 207559000978 intermolecular recognition site; other site 207559000979 dimerization interface [polypeptide binding]; other site 207559000980 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 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 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559000988 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 207559000989 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 207559000990 substrate binding site [chemical binding]; other site 207559000991 glutamase interaction surface [polypeptide binding]; other site 207559000992 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 207559000993 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 207559000994 putative active site [active] 207559000995 oxyanion strand; other site 207559000996 catalytic triad [active] 207559000997 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 207559000998 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559000999 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559001000 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 207559001001 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559001002 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559001003 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 207559001004 IMP binding site; other site 207559001005 dimer interface [polypeptide binding]; other site 207559001006 interdomain contacts; other site 207559001007 partial ornithine binding site; other site 207559001008 amidophosphoribosyltransferase; Region: purF; TIGR01134 207559001009 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 207559001010 active site 207559001011 tetramer interface [polypeptide binding]; other site 207559001012 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559001013 active site 207559001014 KpsF/GutQ family protein; Region: kpsF; TIGR00393 207559001015 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 207559001016 putative active site [active] 207559001017 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 207559001018 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 207559001019 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 207559001020 active site 207559001021 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 207559001022 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 207559001023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559001024 ATP binding site [chemical binding]; other site 207559001025 putative Mg++ binding site [ion binding]; other site 207559001026 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 207559001027 nucleotide binding region [chemical binding]; other site 207559001028 ATP-binding site [chemical binding]; other site 207559001029 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 207559001030 Precorrin-8X methylmutase; Region: CbiC; pfam02570 207559001031 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559001032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559001033 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559001034 catalytic triad [active] 207559001035 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559001036 Predicted transcriptional regulator [Transcription]; Region: COG4957 207559001037 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559001038 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 207559001039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001040 dimer interface [polypeptide binding]; other site 207559001041 putative CheW interface [polypeptide binding]; other site 207559001042 Predicted membrane protein [Function unknown]; Region: COG4125 207559001043 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559001044 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 207559001045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559001046 Helix-turn-helix domains; Region: HTH; cl00088 207559001047 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 207559001048 dimerization interface [polypeptide binding]; other site 207559001049 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 207559001050 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 207559001051 Walker A motif/ATP binding site; other site 207559001052 Walker B motif; other site 207559001053 Flagellar assembly protein FliH; Region: FliH; pfam02108 207559001054 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 207559001055 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559001056 FliG C-terminal domain; Region: FliG_C; pfam01706 207559001057 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 207559001058 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 207559001059 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 207559001060 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 207559001061 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 207559001062 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559001063 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559001064 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 207559001065 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559001066 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 207559001067 binding surface 207559001068 TPR motif; other site 207559001069 TPR repeat; Region: TPR_11; pfam13414 207559001070 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 207559001071 binding surface 207559001072 TPR motif; other site 207559001073 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 207559001074 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 207559001075 NAD binding site [chemical binding]; other site 207559001076 substrate binding site [chemical binding]; other site 207559001077 homodimer interface [polypeptide binding]; other site 207559001078 active site 207559001079 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 207559001080 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 207559001081 putative trimer interface [polypeptide binding]; other site 207559001082 putative CoA binding site [chemical binding]; other site 207559001083 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 207559001084 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001085 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 207559001086 NAD(P) binding site [chemical binding]; other site 207559001087 homodimer interface [polypeptide binding]; other site 207559001088 substrate binding site [chemical binding]; other site 207559001089 active site 207559001090 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 207559001091 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 207559001092 inhibitor-cofactor binding pocket; inhibition site 207559001093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001094 catalytic residue [active] 207559001095 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 207559001096 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559001097 putative ADP-binding pocket [chemical binding]; other site 207559001098 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559001099 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 207559001100 dimerization interface [polypeptide binding]; other site 207559001101 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 207559001102 ATP binding site [chemical binding]; other site 207559001103 Hydrogenase formation hypA family; Region: HypD; cl12072 207559001104 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 207559001105 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559001106 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 207559001107 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 207559001108 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559001109 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 207559001110 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 207559001111 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001112 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001113 dimer interface [polypeptide binding]; other site 207559001114 putative CheW interface [polypeptide binding]; other site 207559001115 CHASE4 domain; Region: CHASE4; cl01308 207559001116 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 207559001117 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 207559001118 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 207559001119 dimerization interface [polypeptide binding]; other site 207559001120 PAS domain S-box; Region: sensory_box; TIGR00229 207559001121 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 207559001122 putative active site [active] 207559001123 heme pocket [chemical binding]; other site 207559001124 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 207559001125 dimer interface [polypeptide binding]; other site 207559001126 phosphorylation site [posttranslational modification] 207559001127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001128 ATP binding site [chemical binding]; other site 207559001129 Mg2+ binding site [ion binding]; other site 207559001130 G-X-G motif; other site 207559001131 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001133 active site 207559001134 phosphorylation site [posttranslational modification] 207559001135 intermolecular recognition site; other site 207559001136 dimerization interface [polypeptide binding]; other site 207559001137 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 207559001138 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559001139 HEAT-like repeat; Region: HEAT_EZ; pfam13513 207559001140 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 207559001141 active site 207559001142 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 207559001143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559001144 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559001145 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 207559001146 active site residue [active] 207559001147 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 207559001148 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 207559001149 HflX GTPase family; Region: HflX; cd01878 207559001150 G1 box; other site 207559001151 GTP/Mg2+ binding site [chemical binding]; other site 207559001152 Switch I region; other site 207559001153 G2 box; other site 207559001154 G3 box; other site 207559001155 Switch II region; other site 207559001156 G4 box; other site 207559001157 G5 box; other site 207559001158 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 207559001159 purine monophosphate binding site [chemical binding]; other site 207559001160 dimer interface [polypeptide binding]; other site 207559001161 putative catalytic residues [active] 207559001162 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 207559001163 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 207559001164 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 207559001165 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 207559001166 FHIPEP family; Region: FHIPEP; pfam00771 207559001167 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 207559001168 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559001169 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 207559001170 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559001171 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 207559001172 P-loop; other site 207559001173 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 207559001174 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 207559001175 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559001176 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559001177 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 207559001178 DNA binding residues [nucleotide binding] 207559001179 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 207559001180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001181 active site 207559001182 phosphorylation site [posttranslational modification] 207559001183 intermolecular recognition site; other site 207559001184 dimerization interface [polypeptide binding]; other site 207559001185 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 207559001186 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 207559001187 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 207559001188 FMN binding site [chemical binding]; other site 207559001189 active site 207559001190 catalytic residues [active] 207559001191 substrate binding site [chemical binding]; other site 207559001192 LytB protein; Region: LYTB; cl00507 207559001193 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 207559001194 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559001195 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559001196 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001197 active site 207559001198 phosphorylation site [posttranslational modification] 207559001199 intermolecular recognition site; other site 207559001200 dimerization interface [polypeptide binding]; other site 207559001201 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 207559001202 binding surface 207559001203 TPR motif; other site 207559001204 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 207559001205 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 207559001206 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559001207 substrate binding pocket [chemical binding]; other site 207559001208 membrane-bound complex binding site; other site 207559001209 hinge residues; other site 207559001210 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559001211 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559001212 dimer interface [polypeptide binding]; other site 207559001213 conserved gate region; other site 207559001214 putative PBP binding loops; other site 207559001215 ABC-ATPase subunit interface; other site 207559001216 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 207559001217 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559001218 PYR/PP interface [polypeptide binding]; other site 207559001219 dimer interface [polypeptide binding]; other site 207559001220 TPP binding site [chemical binding]; other site 207559001221 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 207559001222 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 207559001223 TPP-binding site [chemical binding]; other site 207559001224 dimer interface [polypeptide binding]; other site 207559001225 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559001226 putative valine binding site [chemical binding]; other site 207559001227 dimer interface [polypeptide binding]; other site 207559001228 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 207559001229 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 207559001230 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001231 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 207559001232 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 207559001233 Helix-turn-helix domains; Region: HTH; cl00088 207559001234 Helix-turn-helix domains; Region: HTH; cl00088 207559001235 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 207559001236 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 207559001237 glycerol-3-phosphate dehydrogenase; Region: PLN02464 207559001238 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 207559001239 amphipathic channel; other site 207559001240 Asn-Pro-Ala signature motifs; other site 207559001241 glycerol kinase; Provisional; Region: glpK; PRK00047 207559001242 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 207559001243 N- and C-terminal domain interface [polypeptide binding]; other site 207559001244 active site 207559001245 MgATP binding site [chemical binding]; other site 207559001246 catalytic site [active] 207559001247 metal binding site [ion binding]; metal-binding site 207559001248 glycerol binding site [chemical binding]; other site 207559001249 homotetramer interface [polypeptide binding]; other site 207559001250 homodimer interface [polypeptide binding]; other site 207559001251 FBP binding site [chemical binding]; other site 207559001252 protein IIAGlc interface [polypeptide binding]; other site 207559001253 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 207559001254 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 207559001255 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559001256 Walker A/P-loop; other site 207559001257 ATP binding site [chemical binding]; other site 207559001258 Q-loop/lid; other site 207559001259 ABC transporter signature motif; other site 207559001260 Walker B; other site 207559001261 D-loop; other site 207559001262 H-loop/switch region; other site 207559001263 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 207559001264 active site 207559001265 catalytic triad [active] 207559001266 oxyanion hole [active] 207559001267 switch loop; other site 207559001268 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 207559001269 putative deacylase active site [active] 207559001270 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 207559001271 KduI/IolB family; Region: KduI; cl01508 207559001272 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 207559001273 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 207559001274 inhibitor-cofactor binding pocket; inhibition site 207559001275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001276 catalytic residue [active] 207559001277 argininosuccinate lyase; Provisional; Region: PRK02186 207559001278 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559001279 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 207559001280 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 207559001281 S-adenosylmethionine binding site [chemical binding]; other site 207559001282 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 207559001283 active site 207559001284 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 207559001285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559001286 Coenzyme A binding pocket [chemical binding]; other site 207559001287 NeuB family; Region: NeuB; cl00496 207559001288 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559001289 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559001290 NADP binding site [chemical binding]; other site 207559001291 active site 207559001292 putative substrate binding site [chemical binding]; other site 207559001293 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 207559001294 active site 207559001295 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 207559001296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001297 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 207559001298 NAD(P) binding site [chemical binding]; other site 207559001299 active site 207559001300 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 207559001301 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; cl16911 207559001302 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559001303 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 207559001304 active site 207559001305 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559001306 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; cl16911 207559001307 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; cl16911 207559001308 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 207559001309 active site 207559001310 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 207559001311 active site 207559001312 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 207559001313 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559001314 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 207559001315 active site 207559001316 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001317 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 207559001318 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559001319 NADP-binding site; other site 207559001320 homotetramer interface [polypeptide binding]; other site 207559001321 substrate binding site [chemical binding]; other site 207559001322 homodimer interface [polypeptide binding]; other site 207559001323 active site 207559001324 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001325 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001326 dimer interface [polypeptide binding]; other site 207559001327 putative CheW interface [polypeptide binding]; other site 207559001328 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 207559001329 octamerization interface [polypeptide binding]; other site 207559001330 diferric-oxygen binding site [ion binding]; other site 207559001331 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 207559001332 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 207559001333 active site 207559001334 catalytic site [active] 207559001335 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 207559001336 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 207559001337 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 207559001338 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 207559001339 active site 207559001340 metal-binding site 207559001341 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 207559001342 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559001343 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559001344 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001345 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559001346 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559001347 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559001348 Walker A/P-loop; other site 207559001349 ATP binding site [chemical binding]; other site 207559001350 Q-loop/lid; other site 207559001351 ABC transporter signature motif; other site 207559001352 Walker B; other site 207559001353 D-loop; other site 207559001354 H-loop/switch region; other site 207559001355 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; cl00284 207559001356 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 207559001357 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 207559001358 microcin C ABC transporter permease YejB; Provisional; Region: PRK15133 207559001359 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559001360 dimer interface [polypeptide binding]; other site 207559001361 conserved gate region; other site 207559001362 putative PBP binding loops; other site 207559001363 ABC-ATPase subunit interface; other site 207559001364 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 207559001365 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559001366 dimer interface [polypeptide binding]; other site 207559001367 conserved gate region; other site 207559001368 putative PBP binding loops; other site 207559001369 ABC-ATPase subunit interface; other site 207559001370 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 207559001371 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559001372 Walker A/P-loop; other site 207559001373 ATP binding site [chemical binding]; other site 207559001374 Q-loop/lid; other site 207559001375 ABC transporter signature motif; other site 207559001376 Walker B; other site 207559001377 D-loop; other site 207559001378 H-loop/switch region; other site 207559001379 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001380 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559001381 Walker A/P-loop; other site 207559001382 ATP binding site [chemical binding]; other site 207559001383 Q-loop/lid; other site 207559001384 ABC transporter signature motif; other site 207559001385 Walker B; other site 207559001386 D-loop; other site 207559001387 H-loop/switch region; other site 207559001388 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559001389 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559001390 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559001391 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559001392 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559001393 Gram-negative bacterial tonB protein; Region: TonB; cl10048 207559001394 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 207559001395 TPR motif; other site 207559001396 binding surface 207559001397 TPR repeat; Region: TPR_11; pfam13414 207559001398 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 207559001399 binding surface 207559001400 TPR motif; other site 207559001401 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 207559001402 binding surface 207559001403 TPR motif; other site 207559001404 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 207559001405 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559001406 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559001407 dimer interface [polypeptide binding]; other site 207559001408 putative CheW interface [polypeptide binding]; other site 207559001409 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559001410 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 207559001411 substrate binding pocket [chemical binding]; other site 207559001412 membrane-bound complex binding site; other site 207559001413 hinge residues; other site 207559001414 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 207559001415 Sulfatase; Region: Sulfatase; cl10460 207559001416 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 207559001417 ligand binding site [chemical binding]; other site 207559001418 flexible hinge region; other site 207559001419 Helix-turn-helix domains; Region: HTH; cl00088 207559001420 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 207559001421 catalytic residues [active] 207559001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001423 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559001424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001425 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 207559001426 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 207559001427 dimer interface [polypeptide binding]; other site 207559001428 PYR/PP interface [polypeptide binding]; other site 207559001429 TPP binding site [chemical binding]; other site 207559001430 substrate binding site [chemical binding]; other site 207559001431 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 207559001432 TPP-binding site; other site 207559001433 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559001434 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559001435 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 207559001436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001437 CoA-ligase; Region: Ligase_CoA; cl02894 207559001438 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 207559001439 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 207559001440 [4Fe-4S] binding site [ion binding]; other site 207559001441 molybdopterin cofactor binding site; other site 207559001442 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 207559001443 molybdopterin cofactor binding site; other site 207559001444 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 207559001445 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559001446 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559001447 4Fe-4S binding domain; Region: Fer4; cl02805 207559001448 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559001449 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 207559001450 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 207559001451 4Fe-4S binding domain; Region: Fer4; cl02805 207559001452 Transposase IS200 like; Region: Y1_Tnp; cl00848 207559001453 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 207559001454 putative ADP-binding pocket [chemical binding]; other site 207559001455 O-Antigen ligase; Region: Wzy_C; cl04850 207559001456 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 207559001457 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559001458 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 207559001459 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559001460 Walker A motif; other site 207559001461 ATP binding site [chemical binding]; other site 207559001462 Walker B motif; other site 207559001463 arginine finger; other site 207559001464 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 207559001465 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 207559001466 Transposase domain (DUF772); Region: DUF772; pfam05598 207559001467 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559001468 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559001469 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559001470 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001471 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559001472 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 207559001473 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001474 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559001475 FeoA domain; Region: FeoA; cl00838 207559001476 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559001477 putative DNA binding helix; other site 207559001478 metal binding site 2 [ion binding]; metal-binding site 207559001479 metal binding site 1 [ion binding]; metal-binding site 207559001480 dimer interface [polypeptide binding]; other site 207559001481 structural Zn2+ binding site [ion binding]; other site 207559001482 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 207559001483 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559001484 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559001485 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559001486 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 207559001487 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 207559001488 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 207559001489 glutaminase active site [active] 207559001490 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 207559001491 dimer interface [polypeptide binding]; other site 207559001492 active site 207559001493 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 207559001494 dimer interface [polypeptide binding]; other site 207559001495 active site 207559001496 HPP family; Region: HPP; pfam04982 207559001497 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 207559001498 active site 207559001499 dimerization interface [polypeptide binding]; other site 207559001500 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559001501 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 207559001502 dimer interface [polypeptide binding]; other site 207559001503 phosphorylation site [posttranslational modification] 207559001504 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001505 ATP binding site [chemical binding]; other site 207559001506 Mg2+ binding site [ion binding]; other site 207559001507 G-X-G motif; other site 207559001508 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559001509 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 207559001510 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 207559001511 FeS/SAM binding site; other site 207559001512 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 207559001513 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 207559001514 RNA binding site [nucleotide binding]; other site 207559001515 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 207559001516 RNA binding site [nucleotide binding]; other site 207559001517 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 207559001518 RNA binding site [nucleotide binding]; other site 207559001519 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 207559001520 RNA binding site [nucleotide binding]; other site 207559001521 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 207559001522 RNA binding site [nucleotide binding]; other site 207559001523 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 207559001524 RNA binding site [nucleotide binding]; other site 207559001525 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559001526 tandem repeat interface [polypeptide binding]; other site 207559001527 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 207559001528 oligomer interface [polypeptide binding]; other site 207559001529 active site residues [active] 207559001530 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 207559001531 AAA domain; Region: AAA_33; pfam13671 207559001532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559001533 active site 207559001534 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 207559001535 catalytic core [active] 207559001536 aspartate aminotransferase; Provisional; Region: PRK05764 207559001537 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 207559001538 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001539 homodimer interface [polypeptide binding]; other site 207559001540 catalytic residue [active] 207559001541 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 207559001542 ligand binding site [chemical binding]; other site 207559001543 active site 207559001544 UGI interface [polypeptide binding]; other site 207559001545 catalytic site [active] 207559001546 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 207559001547 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559001548 FeS/SAM binding site; other site 207559001549 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 207559001550 IHF - DNA interface [nucleotide binding]; other site 207559001551 IHF dimer interface [polypeptide binding]; other site 207559001552 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559001553 Amidase; Region: Amidase; cl11426 207559001554 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 207559001555 Sporulation related domain; Region: SPOR; cl10051 207559001556 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 207559001557 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 207559001558 active site 207559001559 catalytic residues [active] 207559001560 metal binding site [ion binding]; metal-binding site 207559001561 Cache domain; Region: Cache_1; pfam02743 207559001562 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559001563 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 207559001564 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001565 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 207559001566 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559001567 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 207559001568 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 207559001569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559001570 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 207559001571 catalytic triad [active] 207559001572 EamA-like transporter family; Region: EamA; cl01037 207559001573 EamA-like transporter family; Region: EamA; cl01037 207559001574 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 207559001575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 207559001576 Sporulation related domain; Region: SPOR; cl10051 207559001577 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001579 active site 207559001580 phosphorylation site [posttranslational modification] 207559001581 intermolecular recognition site; other site 207559001582 dimerization interface [polypeptide binding]; other site 207559001583 PAS fold; Region: PAS; pfam00989 207559001584 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 207559001585 putative active site [active] 207559001586 heme pocket [chemical binding]; other site 207559001587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001588 metal binding site [ion binding]; metal-binding site 207559001589 active site 207559001590 I-site; other site 207559001591 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 207559001592 Helix-turn-helix domains; Region: HTH; cl00088 207559001593 Winged helix-turn helix; Region: HTH_29; pfam13551 207559001594 Helix-turn-helix domains; Region: HTH; cl00088 207559001595 Integrase core domain; Region: rve; cl01316 207559001596 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 207559001597 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 207559001598 FeS/SAM binding site; other site 207559001599 HemN C-terminal domain; Region: HemN_C; pfam06969 207559001600 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 207559001601 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 207559001602 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 207559001603 oligonucleotide binding site [chemical binding]; other site 207559001604 homodimer interface [polypeptide binding]; other site 207559001605 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 207559001606 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559001607 FeS/SAM binding site; other site 207559001608 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 207559001609 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; cl16911 207559001610 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559001611 AMP-binding enzyme; Region: AMP-binding; cl15778 207559001612 Protein of unknown function, DUF399; Region: DUF399; cl01139 207559001613 Protein of unknown function, DUF399; Region: DUF399; cl01139 207559001614 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 207559001615 protein binding site [polypeptide binding]; other site 207559001616 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 207559001617 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 207559001618 DNA binding site [nucleotide binding] 207559001619 catalytic residue [active] 207559001620 H2TH interface [polypeptide binding]; other site 207559001621 putative catalytic residues [active] 207559001622 turnover-facilitating residue; other site 207559001623 intercalation triad [nucleotide binding]; other site 207559001624 8OG recognition residue [nucleotide binding]; other site 207559001625 putative reading head residues; other site 207559001626 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 207559001627 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 207559001628 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 207559001629 dimer interface [polypeptide binding]; other site 207559001630 phosphorylation site [posttranslational modification] 207559001631 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001632 ATP binding site [chemical binding]; other site 207559001633 Mg2+ binding site [ion binding]; other site 207559001634 G-X-G motif; other site 207559001635 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001636 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001637 active site 207559001638 phosphorylation site [posttranslational modification] 207559001639 intermolecular recognition site; other site 207559001640 dimerization interface [polypeptide binding]; other site 207559001641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001642 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001643 active site 207559001644 phosphorylation site [posttranslational modification] 207559001645 intermolecular recognition site; other site 207559001646 dimerization interface [polypeptide binding]; other site 207559001647 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 207559001648 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 207559001649 hinge; other site 207559001650 active site 207559001651 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 207559001652 Competence protein; Region: Competence; cl00471 207559001653 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559001654 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559001655 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001656 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 207559001657 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 207559001658 PAS fold; Region: PAS; pfam00989 207559001659 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 207559001660 putative active site [active] 207559001661 heme pocket [chemical binding]; other site 207559001662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001663 metal binding site [ion binding]; metal-binding site 207559001664 active site 207559001665 I-site; other site 207559001666 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 207559001667 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 207559001668 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001669 putative catalytic site [active] 207559001670 putative metal binding site [ion binding]; other site 207559001671 putative phosphate binding site [ion binding]; other site 207559001672 Divergent AAA domain; Region: AAA_4; pfam04326 207559001673 TIGR00300 family protein; Region: TIGR00300 207559001674 Acylphosphatase; Region: Acylphosphatase; cl00551 207559001675 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 207559001676 HypF finger; Region: zf-HYPF; pfam07503 207559001677 HypF finger; Region: zf-HYPF; pfam07503 207559001678 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 207559001679 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 207559001680 non-specific DNA binding site [nucleotide binding]; other site 207559001681 salt bridge; other site 207559001682 sequence-specific DNA binding site [nucleotide binding]; other site 207559001683 Cupin domain; Region: Cupin_2; cl09118 207559001684 AMP-binding domain protein; Validated; Region: PRK08315 207559001685 AMP-binding enzyme; Region: AMP-binding; cl15778 207559001686 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559001687 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 207559001688 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 207559001689 PAS fold; Region: PAS_3; pfam08447 207559001690 putative active site [active] 207559001691 heme pocket [chemical binding]; other site 207559001692 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 207559001693 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001694 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 207559001695 dimer interface [polypeptide binding]; other site 207559001696 phosphorylation site [posttranslational modification] 207559001697 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001698 ATP binding site [chemical binding]; other site 207559001699 Mg2+ binding site [ion binding]; other site 207559001700 G-X-G motif; other site 207559001701 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 207559001702 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 207559001703 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 207559001704 P loop; other site 207559001705 GTP binding site [chemical binding]; other site 207559001706 Cytochrome c; Region: Cytochrom_C; cl11414 207559001707 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559001708 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 207559001709 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 207559001710 putative active site [active] 207559001711 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001712 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559001713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559001714 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; cl15357 207559001715 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 207559001716 Cation transport protein; Region: TrkH; cl10514 207559001717 multifunctional aminopeptidase A; Provisional; Region: PRK00913 207559001718 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 207559001719 interface (dimer of trimers) [polypeptide binding]; other site 207559001720 Substrate-binding/catalytic site; other site 207559001721 Zn-binding sites [ion binding]; other site 207559001722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559001723 metal binding site [ion binding]; metal-binding site 207559001724 active site 207559001725 I-site; other site 207559001726 arginine decarboxylase; Provisional; Region: PRK05354 207559001727 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 207559001728 dimer interface [polypeptide binding]; other site 207559001729 active site 207559001730 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001731 catalytic residues [active] 207559001732 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 207559001733 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 207559001734 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559001735 NAD(P) binding site [chemical binding]; other site 207559001736 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 207559001737 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 207559001738 dimer interface [polypeptide binding]; other site 207559001739 active site 207559001740 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559001741 catalytic residues [active] 207559001742 substrate binding site [chemical binding]; other site 207559001743 Arginase family; Region: Arginase; cl00306 207559001744 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 207559001745 putative CheA interaction surface; other site 207559001746 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 207559001747 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 207559001748 LemA family; Region: LemA; cl00742 207559001749 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001750 heme-binding residues [chemical binding]; other site 207559001751 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001752 heme-binding residues [chemical binding]; other site 207559001753 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001754 heme-binding residues [chemical binding]; other site 207559001755 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 207559001756 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 207559001757 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 207559001758 FMN-binding domain; Region: FMN_bind; cl01081 207559001759 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 207559001760 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 207559001761 ferredoxin; Validated; Region: PRK07118 207559001762 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 207559001763 4Fe-4S binding domain; Region: Fer4; cl02805 207559001764 ApbE family; Region: ApbE; cl00643 207559001765 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 207559001766 Ligand Binding Site [chemical binding]; other site 207559001767 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 207559001768 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 207559001769 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559001770 putative active site [active] 207559001771 catalytic site [active] 207559001772 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 207559001773 putative active site [active] 207559001774 catalytic site [active] 207559001775 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16917 207559001776 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 207559001777 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 207559001778 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 207559001779 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 207559001780 putative ADP-binding pocket [chemical binding]; other site 207559001781 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 207559001782 metal ion-dependent adhesion site (MIDAS); other site 207559001783 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 207559001784 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 207559001785 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559001786 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559001787 NMT1-like family; Region: NMT1_2; cl15260 207559001788 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559001789 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 207559001790 putative active site [active] 207559001791 heme pocket [chemical binding]; other site 207559001792 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 207559001793 dimer interface [polypeptide binding]; other site 207559001794 phosphorylation site [posttranslational modification] 207559001795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559001796 ATP binding site [chemical binding]; other site 207559001797 Mg2+ binding site [ion binding]; other site 207559001798 G-X-G motif; other site 207559001799 Response regulator receiver domain; Region: Response_reg; pfam00072 207559001800 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559001801 active site 207559001802 phosphorylation site [posttranslational modification] 207559001803 intermolecular recognition site; other site 207559001804 dimerization interface [polypeptide binding]; other site 207559001805 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559001806 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559001807 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 207559001808 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 207559001809 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 207559001810 Walker A/P-loop; other site 207559001811 ATP binding site [chemical binding]; other site 207559001812 Q-loop/lid; other site 207559001813 ABC transporter signature motif; other site 207559001814 Walker B; other site 207559001815 D-loop; other site 207559001816 H-loop/switch region; other site 207559001817 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 207559001818 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 207559001819 Walker A/P-loop; other site 207559001820 ATP binding site [chemical binding]; other site 207559001821 Q-loop/lid; other site 207559001822 ABC transporter signature motif; other site 207559001823 Walker B; other site 207559001824 D-loop; other site 207559001825 H-loop/switch region; other site 207559001826 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 207559001827 TM-ABC transporter signature motif; other site 207559001828 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 207559001829 TM-ABC transporter signature motif; other site 207559001830 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 207559001831 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 207559001832 dimerization interface [polypeptide binding]; other site 207559001833 ligand binding site [chemical binding]; other site 207559001834 HTH-like domain; Region: HTH_21; pfam13276 207559001835 Integrase core domain; Region: rve; cl01316 207559001836 Integrase core domain; Region: rve_3; cl15866 207559001837 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 207559001838 active site 207559001839 Int/Topo IB signature motif; other site 207559001840 DNA binding site [nucleotide binding] 207559001841 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 207559001842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559001843 DNA-binding site [nucleotide binding]; DNA binding site 207559001844 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 207559001845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559001846 homodimer interface [polypeptide binding]; other site 207559001847 catalytic residue [active] 207559001848 Helix-turn-helix domains; Region: HTH; cl00088 207559001849 putative transposase OrfB; Reviewed; Region: PHA02517 207559001850 HTH-like domain; Region: HTH_21; pfam13276 207559001851 Integrase core domain; Region: rve; cl01316 207559001852 Integrase core domain; Region: rve_3; cl15866 207559001853 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 207559001854 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559001855 active site 207559001856 HIGH motif; other site 207559001857 nucleotide binding site [chemical binding]; other site 207559001858 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 207559001859 KMSKS motif; other site 207559001860 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 207559001861 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 207559001862 active site 207559001863 catalytic site [active] 207559001864 substrate binding site [chemical binding]; other site 207559001865 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 207559001866 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 207559001867 ligand binding site [chemical binding]; other site 207559001868 flexible hinge region; other site 207559001869 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 207559001870 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559001871 metal binding triad; other site 207559001872 Sodium:solute symporter family; Region: SSF; cl00456 207559001873 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559001874 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 207559001875 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559001876 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559001877 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559001878 DctM-like transporters; Region: DctM; pfam06808 207559001879 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 207559001880 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 207559001881 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 207559001882 Maf-like protein; Region: Maf; pfam02545 207559001883 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 207559001884 active site 207559001885 dimer interface [polypeptide binding]; other site 207559001886 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 207559001887 tetramer interfaces [polypeptide binding]; other site 207559001888 binuclear metal-binding site [ion binding]; other site 207559001889 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 207559001890 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559001891 HDOD domain; Region: HDOD; pfam08668 207559001892 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559001893 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 207559001894 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 207559001895 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559001896 Walker A motif; other site 207559001897 ATP binding site [chemical binding]; other site 207559001898 Walker B motif; other site 207559001899 arginine finger; other site 207559001900 Helix-turn-helix domains; Region: HTH; cl00088 207559001901 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559001902 Helix-turn-helix domains; Region: HTH; cl00088 207559001903 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559001904 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559001905 Polysulphide reductase, NrfD; Region: NrfD; cl01295 207559001906 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 207559001907 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 207559001908 4Fe-4S binding domain; Region: Fer4; cl02805 207559001909 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001910 heme-binding residues [chemical binding]; other site 207559001911 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001912 heme-binding residues [chemical binding]; other site 207559001913 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 207559001914 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001915 heme-binding residues [chemical binding]; other site 207559001916 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559001917 heme-binding residues [chemical binding]; other site 207559001918 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 207559001919 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559001920 AP (apurinic/apyrimidinic) site pocket; other site 207559001921 DNA interaction; other site 207559001922 Metal-binding active site; metal-binding site 207559001923 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559001924 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 207559001925 PAS domain; Region: PAS_9; pfam13426 207559001926 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559001927 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 207559001928 Walker A motif; other site 207559001929 ATP binding site [chemical binding]; other site 207559001930 Walker B motif; other site 207559001931 arginine finger; other site 207559001932 Helix-turn-helix domains; Region: HTH; cl00088 207559001933 maltose O-acetyltransferase; Provisional; Region: PRK10092 207559001934 Maltose acetyltransferase; Region: Mac; pfam12464 207559001935 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 207559001936 trimer interface [polypeptide binding]; other site 207559001937 active site 207559001938 substrate binding site [chemical binding]; other site 207559001939 CoA binding site [chemical binding]; other site 207559001940 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 207559001941 putative catalytic site [active] 207559001942 putative phosphate binding site [ion binding]; other site 207559001943 putative metal binding site [ion binding]; other site 207559001944 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559001945 putative substrate translocation pore; other site 207559001946 Helix-turn-helix domains; Region: HTH; cl00088 207559001947 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559001948 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559001949 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 207559001950 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 207559001951 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 207559001952 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 207559001953 Walker A/P-loop; other site 207559001954 ATP binding site [chemical binding]; other site 207559001955 Q-loop/lid; other site 207559001956 ABC transporter signature motif; other site 207559001957 Walker B; other site 207559001958 D-loop; other site 207559001959 H-loop/switch region; other site 207559001960 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 207559001961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559001962 dimer interface [polypeptide binding]; other site 207559001963 conserved gate region; other site 207559001964 putative PBP binding loops; other site 207559001965 ABC-ATPase subunit interface; other site 207559001966 NMT1-like family; Region: NMT1_2; cl15260 207559001967 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559001968 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 207559001969 putative homodimer interface [polypeptide binding]; other site 207559001970 putative homotetramer interface [polypeptide binding]; other site 207559001971 putative allosteric switch controlling residues; other site 207559001972 putative metal binding site [ion binding]; other site 207559001973 putative homodimer-homodimer interface [polypeptide binding]; other site 207559001974 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 207559001975 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 207559001976 active site residue [active] 207559001977 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559001978 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 207559001979 active site residue [active] 207559001980 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 207559001981 active site residue [active] 207559001982 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 207559001983 active site residue [active] 207559001984 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 207559001985 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559001986 4Fe-4S binding domain; Region: Fer4; cl02805 207559001987 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559001988 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 207559001989 putative [Fe4-S4] binding site [ion binding]; other site 207559001990 putative molybdopterin cofactor binding site [chemical binding]; other site 207559001991 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 207559001992 putative molybdopterin cofactor binding site; other site 207559001993 Cytochrome c; Region: Cytochrom_C; cl11414 207559001994 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559001995 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559001996 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559001997 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 207559001998 putative MPT binding site; other site 207559001999 Integral membrane protein TerC family; Region: TerC; cl10468 207559002000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002001 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002002 active site 207559002003 phosphorylation site [posttranslational modification] 207559002004 intermolecular recognition site; other site 207559002005 dimerization interface [polypeptide binding]; other site 207559002006 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; cl15357 207559002007 transmembrane helices; other site 207559002008 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; cl15357 207559002009 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; cl15357 207559002010 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 207559002011 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002013 active site 207559002014 phosphorylation site [posttranslational modification] 207559002015 intermolecular recognition site; other site 207559002016 dimerization interface [polypeptide binding]; other site 207559002017 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002019 active site 207559002020 phosphorylation site [posttranslational modification] 207559002021 intermolecular recognition site; other site 207559002022 dimerization interface [polypeptide binding]; other site 207559002023 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 207559002024 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002025 ATP binding site [chemical binding]; other site 207559002026 Mg2+ binding site [ion binding]; other site 207559002027 G-X-G motif; other site 207559002028 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002029 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 207559002030 Walker A motif; other site 207559002031 ATP binding site [chemical binding]; other site 207559002032 Walker B motif; other site 207559002033 arginine finger; other site 207559002034 Helix-turn-helix domains; Region: HTH; cl00088 207559002035 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 207559002036 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559002037 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 207559002038 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559002039 Walker A/P-loop; other site 207559002040 ATP binding site [chemical binding]; other site 207559002041 Q-loop/lid; other site 207559002042 ABC transporter signature motif; other site 207559002043 Walker B; other site 207559002044 D-loop; other site 207559002045 H-loop/switch region; other site 207559002046 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559002047 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 207559002048 xanthine permease; Region: pbuX; TIGR03173 207559002049 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 207559002050 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 207559002051 active site 207559002052 putative substrate binding pocket [chemical binding]; other site 207559002053 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 207559002054 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 207559002055 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 207559002056 PAS domain; Region: PAS_9; pfam13426 207559002057 putative active site [active] 207559002058 heme pocket [chemical binding]; other site 207559002059 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559002060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559002061 dimer interface [polypeptide binding]; other site 207559002062 putative CheW interface [polypeptide binding]; other site 207559002063 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 207559002064 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 207559002065 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559002066 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 207559002067 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 207559002068 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559002069 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559002070 GTP binding site; other site 207559002071 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 207559002072 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 207559002073 FeS/SAM binding site; other site 207559002074 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 207559002075 Response regulator receiver domain; Region: Response_reg; pfam00072 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 active site 207559002078 phosphorylation site [posttranslational modification] 207559002079 intermolecular recognition site; other site 207559002080 dimerization interface [polypeptide binding]; other site 207559002081 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 207559002082 anti sigma factor interaction site; other site 207559002083 regulatory phosphorylation site [posttranslational modification]; other site 207559002084 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002085 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 207559002086 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 207559002087 dimer interface [polypeptide binding]; other site 207559002088 phosphorylation site [posttranslational modification] 207559002089 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002090 ATP binding site [chemical binding]; other site 207559002091 Mg2+ binding site [ion binding]; other site 207559002092 G-X-G motif; other site 207559002093 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 207559002094 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 207559002095 putative ligand binding site [chemical binding]; other site 207559002096 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 207559002097 catalytic residues [active] 207559002098 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 207559002099 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 207559002100 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 207559002101 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 207559002102 [4Fe-4S] binding site [ion binding]; other site 207559002103 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 207559002104 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 207559002105 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 207559002106 molybdopterin cofactor binding site; other site 207559002107 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559002108 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional; Region: PRK14494 207559002109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002110 Putative Fe-S cluster; Region: FeS; pfam04060 207559002111 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 207559002112 anti sigma factor interaction site; other site 207559002113 regulatory phosphorylation site [posttranslational modification]; other site 207559002114 Cache domain; Region: Cache_1; pfam02743 207559002115 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559002116 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 207559002117 dimerization interface [polypeptide binding]; other site 207559002118 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 207559002119 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 207559002120 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 207559002121 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559002122 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559002123 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 207559002124 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13642 207559002125 Walker A/P-loop; other site 207559002126 ATP binding site [chemical binding]; other site 207559002127 Q-loop/lid; other site 207559002128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002129 ABC transporter signature motif; other site 207559002130 Walker B; other site 207559002131 D-loop; other site 207559002132 H-loop/switch region; other site 207559002133 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 207559002134 ligand binding site [chemical binding]; other site 207559002135 flexible hinge region; other site 207559002136 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 207559002137 4Fe-4S binding domain; Region: Fer4; cl02805 207559002138 4Fe-4S binding domain; Region: Fer4; cl02805 207559002139 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559002140 putative cation:proton antiport protein; Provisional; Region: PRK10669 207559002141 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 207559002142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002143 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; cl15357 207559002144 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 207559002145 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 207559002146 metal binding site [ion binding]; metal-binding site 207559002147 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 207559002148 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559002149 FtsX-like permease family; Region: FtsX; cl15850 207559002150 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 207559002151 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559002152 Walker A/P-loop; other site 207559002153 ATP binding site [chemical binding]; other site 207559002154 Q-loop/lid; other site 207559002155 ABC transporter signature motif; other site 207559002156 Walker B; other site 207559002157 D-loop; other site 207559002158 H-loop/switch region; other site 207559002159 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; cl16911 207559002160 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 207559002161 FtsX-like permease family; Region: FtsX; cl15850 207559002162 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 207559002163 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002164 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 207559002165 catalytic core [active] 207559002166 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 207559002167 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 207559002168 putative ADP-binding pocket [chemical binding]; other site 207559002169 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 207559002170 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 207559002171 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 207559002172 FeS/SAM binding site; other site 207559002173 Helix-turn-helix domains; Region: HTH; cl00088 207559002174 Winged helix-turn helix; Region: HTH_29; pfam13551 207559002175 Helix-turn-helix domains; Region: HTH; cl00088 207559002176 Integrase core domain; Region: rve; cl01316 207559002177 Helix-turn-helix domains; Region: HTH; cl00088 207559002178 Winged helix-turn helix; Region: HTH_29; pfam13551 207559002179 Helix-turn-helix domains; Region: HTH; cl00088 207559002180 Integrase core domain; Region: rve; cl01316 207559002181 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 207559002182 dimerization interface [polypeptide binding]; other site 207559002183 putative DNA binding site [nucleotide binding]; other site 207559002184 putative Zn2+ binding site [ion binding]; other site 207559002185 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 207559002186 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559002187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559002188 DNA-binding site [nucleotide binding]; DNA binding site 207559002189 FCD domain; Region: FCD; cl11656 207559002190 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 207559002191 active site 207559002192 substrate binding site [chemical binding]; other site 207559002193 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 207559002194 FMN binding site [chemical binding]; other site 207559002195 putative catalytic residues [active] 207559002196 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559002197 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559002198 metal binding site 2 [ion binding]; metal-binding site 207559002199 putative DNA binding helix; other site 207559002200 metal binding site 1 [ion binding]; metal-binding site 207559002201 dimer interface [polypeptide binding]; other site 207559002202 structural Zn2+ binding site [ion binding]; other site 207559002203 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559002204 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559002205 Transposase domain (DUF772); Region: DUF772; pfam05598 207559002206 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559002207 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559002208 putative diguanylate cyclase; Provisional; Region: PRK09776 207559002209 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559002210 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 207559002211 dimer interface [polypeptide binding]; other site 207559002212 phosphorylation site [posttranslational modification] 207559002213 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002214 ATP binding site [chemical binding]; other site 207559002215 Mg2+ binding site [ion binding]; other site 207559002216 G-X-G motif; other site 207559002217 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002218 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 207559002219 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 207559002220 active site 207559002221 DsrC like protein; Region: DsrC; cl01101 207559002222 FOG: CBS domain [General function prediction only]; Region: COG0517 207559002223 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 207559002224 C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria; Region: ACT_CBS; cd04884 207559002225 Protein of unknown function DUF111; Region: DUF111; cl03398 207559002226 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 207559002227 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 207559002228 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 207559002229 Tim44-like domain; Region: Tim44; cl09208 207559002230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002231 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002232 active site 207559002233 phosphorylation site [posttranslational modification] 207559002234 intermolecular recognition site; other site 207559002235 dimerization interface [polypeptide binding]; other site 207559002236 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559002237 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 207559002238 ATP binding site [chemical binding]; other site 207559002239 putative Mg++ binding site [ion binding]; other site 207559002240 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 207559002241 nucleotide binding region [chemical binding]; other site 207559002242 ATP-binding site [chemical binding]; other site 207559002243 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 207559002244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002245 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 207559002246 nucleotide binding region [chemical binding]; other site 207559002247 ATP-binding site [chemical binding]; other site 207559002248 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 207559002249 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559002250 active site 207559002251 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559002252 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559002253 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 207559002254 putative FMN binding site [chemical binding]; other site 207559002255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002256 I-site; other site 207559002257 active site 207559002258 metal binding site [ion binding]; metal-binding site 207559002259 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 207559002260 TPR motif; other site 207559002261 binding surface 207559002262 TPR repeat; Region: TPR_11; pfam13414 207559002263 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 207559002264 binding surface 207559002265 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559002266 TPR motif; other site 207559002267 TPR repeat; Region: TPR_11; pfam13414 207559002268 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559002269 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 207559002270 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559002271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559002272 Coenzyme A binding pocket [chemical binding]; other site 207559002273 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 207559002274 RNA/DNA binding site [nucleotide binding]; other site 207559002275 RRM dimerization site [polypeptide binding]; other site 207559002276 NMT1-like family; Region: NMT1_2; cl15260 207559002277 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 207559002278 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 207559002279 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 207559002280 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 207559002281 FeS/SAM binding site; other site 207559002282 NMT1-like family; Region: NMT1_2; cl15260 207559002283 4Fe-4S binding domain; Region: Fer4; cl02805 207559002284 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 207559002285 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559002286 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559002287 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 207559002288 substrate binding pocket [chemical binding]; other site 207559002289 membrane-bound complex binding site; other site 207559002290 hinge residues; other site 207559002291 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 207559002292 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559002293 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; cl16911 207559002294 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 207559002295 CbiD; Region: CbiD; cl00828 207559002296 DoxX; Region: DoxX; cl00976 207559002297 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 207559002298 active site residue [active] 207559002299 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 207559002300 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559002301 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559002302 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 207559002303 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 207559002304 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 207559002305 homotrimer interaction site [polypeptide binding]; other site 207559002306 putative active site [active] 207559002307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 207559002308 YheO-like PAS domain; Region: PAS_6; pfam08348 207559002309 Helix-turn-helix domains; Region: HTH; cl00088 207559002310 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 207559002311 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559002312 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 207559002313 active site 207559002314 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559002315 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 207559002316 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 207559002317 [4Fe-4S] binding site [ion binding]; other site 207559002318 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 207559002319 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 207559002320 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 207559002321 molybdopterin cofactor binding site; other site 207559002322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002323 metal binding site [ion binding]; metal-binding site 207559002324 active site 207559002325 I-site; other site 207559002326 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 207559002327 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 207559002328 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002329 metal binding site [ion binding]; metal-binding site 207559002330 active site 207559002331 I-site; other site 207559002332 PilZ domain; Region: PilZ; cl01260 207559002333 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 207559002334 active site 207559002335 nucleophile elbow; other site 207559002336 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 207559002337 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559002339 active site 207559002340 phosphorylation site [posttranslational modification] 207559002341 intermolecular recognition site; other site 207559002342 dimerization interface [polypeptide binding]; other site 207559002343 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 207559002344 Walker A motif; other site 207559002345 ATP binding site [chemical binding]; other site 207559002346 Walker B motif; other site 207559002347 arginine finger; other site 207559002348 PilZ domain; Region: PilZ; cl01260 207559002349 hypothetical protein; Provisional; Region: PRK14852 207559002350 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 207559002351 ATP binding site [chemical binding]; other site 207559002352 substrate interface [chemical binding]; other site 207559002353 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 207559002354 FMN binding site [chemical binding]; other site 207559002355 dimer interface [polypeptide binding]; other site 207559002356 PEP-CTERM motif; Region: VPEP; cl15443 207559002357 CAAX protease self-immunity; Region: Abi; cl00558 207559002358 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 207559002359 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 207559002360 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 207559002361 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559002362 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559002363 Walker A/P-loop; other site 207559002364 ATP binding site [chemical binding]; other site 207559002365 Q-loop/lid; other site 207559002366 ABC transporter signature motif; other site 207559002367 Walker B; other site 207559002368 D-loop; other site 207559002369 H-loop/switch region; other site 207559002370 DevC protein; Region: devC; TIGR01185 207559002371 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559002372 FtsX-like permease family; Region: FtsX; cl15850 207559002373 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559002374 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 207559002375 binding surface 207559002376 TPR motif; other site 207559002377 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 207559002378 binding surface 207559002379 TPR motif; other site 207559002380 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 207559002381 binding surface 207559002382 TPR motif; other site 207559002383 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 207559002384 binding surface 207559002385 TPR motif; other site 207559002386 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 207559002387 binding surface 207559002388 TPR motif; other site 207559002389 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 207559002390 TPR motif; other site 207559002391 binding surface 207559002392 Bacterial sugar transferase; Region: Bac_transf; cl00939 207559002393 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 207559002394 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002395 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 207559002396 SLBB domain; Region: SLBB; pfam10531 207559002397 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 207559002398 Chain length determinant protein; Region: Wzz; cl15801 207559002399 exopolysaccharide/PEPCTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 207559002400 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002401 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 207559002402 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 207559002403 Walker A motif; other site 207559002404 ATP binding site [chemical binding]; other site 207559002405 Walker B motif; other site 207559002406 arginine finger; other site 207559002407 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 207559002408 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559002409 AMP-binding enzyme; Region: AMP-binding; cl15778 207559002410 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002411 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 207559002412 DXD motif; other site 207559002413 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 207559002414 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002415 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 207559002416 putative ADP-binding pocket [chemical binding]; other site 207559002417 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002418 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 207559002419 Ligand binding site; other site 207559002420 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002421 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 207559002422 putative ADP-binding pocket [chemical binding]; other site 207559002423 TIGR03790 family protein; Region: TIGR03790 207559002424 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559002425 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 207559002426 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 207559002427 Ligand Binding Site [chemical binding]; other site 207559002428 Molecular Tunnel; other site 207559002429 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559002430 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 207559002431 active site 207559002432 colanic acid biosynthesis glycosyl transferase WcaA; Region: WcaA; TIGR04017 207559002433 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 207559002434 active site 207559002435 O-Antigen ligase; Region: Wzy_C; cl04850 207559002436 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 207559002437 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002438 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 207559002439 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 207559002440 Protein of unknown function (DUF3485); Region: DUF3485; cl11827 207559002441 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 207559002442 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002443 ATP binding site [chemical binding]; other site 207559002444 Mg2+ binding site [ion binding]; other site 207559002445 G-X-G motif; other site 207559002446 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 207559002447 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002448 active site 207559002449 phosphorylation site [posttranslational modification] 207559002450 intermolecular recognition site; other site 207559002451 dimerization interface [polypeptide binding]; other site 207559002452 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 207559002453 Walker A motif; other site 207559002454 ATP binding site [chemical binding]; other site 207559002455 Walker B motif; other site 207559002456 arginine finger; other site 207559002457 Helix-turn-helix domains; Region: HTH; cl00088 207559002458 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559002459 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 207559002460 Walker A/P-loop; other site 207559002461 ATP binding site [chemical binding]; other site 207559002462 Q-loop/lid; other site 207559002463 ABC transporter signature motif; other site 207559002464 Walker B; other site 207559002465 D-loop; other site 207559002466 H-loop/switch region; other site 207559002467 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 207559002468 putative carbohydrate binding site [chemical binding]; other site 207559002469 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 207559002470 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 207559002471 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 207559002472 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 207559002473 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 207559002474 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 207559002475 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 207559002476 helicase Cas3; Provisional; Region: PRK09694 207559002477 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 207559002478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002479 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 207559002480 PAS domain; Region: PAS_9; pfam13426 207559002481 putative active site [active] 207559002482 heme pocket [chemical binding]; other site 207559002483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002484 metal binding site [ion binding]; metal-binding site 207559002485 active site 207559002486 I-site; other site 207559002487 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 207559002488 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 207559002489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002490 putative transposase OrfB; Reviewed; Region: PHA02517 207559002491 Integrase core domain; Region: rve; cl01316 207559002492 Integrase core domain; Region: rve_3; cl15866 207559002493 TOBE domain; Region: TOBE_2; cl01440 207559002494 TOBE domain; Region: TOBE_2; cl01440 207559002495 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 207559002496 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 207559002497 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559002498 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559002499 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 207559002500 dimer interface [polypeptide binding]; other site 207559002501 phosphorylation site [posttranslational modification] 207559002502 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002503 ATP binding site [chemical binding]; other site 207559002504 Mg2+ binding site [ion binding]; other site 207559002505 G-X-G motif; other site 207559002506 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002508 active site 207559002509 phosphorylation site [posttranslational modification] 207559002510 intermolecular recognition site; other site 207559002511 dimerization interface [polypeptide binding]; other site 207559002512 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 207559002513 Walker A motif; other site 207559002514 ATP binding site [chemical binding]; other site 207559002515 Walker B motif; other site 207559002516 arginine finger; other site 207559002517 Helix-turn-helix domains; Region: HTH; cl00088 207559002518 Membrane transport protein; Region: Mem_trans; cl09117 207559002519 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 207559002520 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 207559002521 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 207559002522 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 207559002523 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 207559002524 Predicted transcriptional regulator [Transcription]; Region: COG1497 207559002525 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002526 metal binding site [ion binding]; metal-binding site 207559002527 active site 207559002528 I-site; other site 207559002529 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002530 Helix-turn-helix domains; Region: HTH; cl00088 207559002531 LexA repressor; Validated; Region: PRK00215 207559002532 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 207559002533 Catalytic site [active] 207559002534 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559002535 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559002536 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 207559002537 catalytic residues [active] 207559002538 catalytic nucleophile [active] 207559002539 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559002540 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559002541 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559002542 Synaptic Site I dimer interface [polypeptide binding]; other site 207559002543 DNA binding site [nucleotide binding] 207559002544 Recombinase; Region: Recombinase; pfam07508 207559002545 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559002546 ParB-like partition proteins; Region: parB_part; TIGR00180 207559002547 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559002548 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559002549 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559002550 AAA domain; Region: AAA_24; pfam13479 207559002551 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559002552 ERCC4 domain; Region: ERCC4; cl10594 207559002553 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 207559002554 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 207559002555 DNA binding site [nucleotide binding] 207559002556 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002557 Family description; Region: UvrD_C_2; cl15862 207559002558 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559002559 CHC2 zinc finger; Region: zf-CHC2; cl15369 207559002560 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559002561 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 207559002562 active site 207559002563 metal binding site [ion binding]; metal-binding site 207559002564 interdomain interaction site; other site 207559002565 Fic family protein [Function unknown]; Region: COG3177 207559002566 Fic/DOC family; Region: Fic; cl00960 207559002567 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559002568 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 207559002569 active site 207559002570 DNA binding site [nucleotide binding] 207559002571 Int/Topo IB signature motif; other site 207559002572 Terminase-like family; Region: Terminase_6; pfam03237 207559002573 Phage portal protein; Region: Phage_portal; pfam04860 207559002574 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559002575 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559002576 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; cl16911 207559002577 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 207559002578 chromosome segregation protein; Provisional; Region: PRK02224 207559002579 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559002580 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559002581 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 207559002582 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559002583 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 207559002584 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 207559002585 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559002586 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559002587 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 207559002588 PAAR motif; Region: PAAR_motif; cl15808 207559002589 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 207559002590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 207559002591 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 207559002592 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559002593 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559002594 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 207559002595 NADH dehydrogenase subunit G; Validated; Region: PRK08166 207559002596 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559002597 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 207559002598 active site 207559002599 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 207559002600 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 207559002601 putative active site pocket [active] 207559002602 dimerization interface [polypeptide binding]; other site 207559002603 putative catalytic residue [active] 207559002604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559002605 Helix-turn-helix domains; Region: HTH; cl00088 207559002606 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 207559002607 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559002608 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 207559002609 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 207559002610 hypothetical protein; Provisional; Region: PRK10279 207559002611 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 207559002612 active site 207559002613 nucleophile elbow; other site 207559002614 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559002615 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 207559002616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559002617 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559002618 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 207559002619 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559002620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 207559002621 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 207559002622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 207559002623 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 207559002624 Fic family protein [Function unknown]; Region: COG3177 207559002625 Fic/DOC family; Region: Fic; cl00960 207559002626 Helix-turn-helix domains; Region: HTH; cl00088 207559002627 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 207559002628 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 207559002629 AMP-binding enzyme; Region: AMP-binding; cl15778 207559002630 AMP-binding enzyme; Region: AMP-binding; cl15778 207559002631 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559002632 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 207559002633 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 207559002634 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559002635 active site 207559002636 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559002637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002638 active site 207559002639 phosphorylation site [posttranslational modification] 207559002640 intermolecular recognition site; other site 207559002641 dimerization interface [polypeptide binding]; other site 207559002642 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 207559002643 DNA binding residues [nucleotide binding] 207559002644 phosphodiesterase; Provisional; Region: PRK12704 207559002645 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559002646 Cell division protein ZapA; Region: ZapA; cl01146 207559002647 Protein of unknown function (DUF904); Region: DUF904; cl11531 207559002648 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 207559002649 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 207559002650 Substrate binding site; other site 207559002651 Mg++ binding site; other site 207559002652 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 207559002653 active site 207559002654 substrate binding site [chemical binding]; other site 207559002655 CoA binding site [chemical binding]; other site 207559002656 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 207559002657 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 207559002658 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 207559002659 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 207559002660 alpha subunit interaction interface [polypeptide binding]; other site 207559002661 Walker A motif; other site 207559002662 ATP binding site [chemical binding]; other site 207559002663 Walker B motif; other site 207559002664 inhibitor binding site; inhibition site 207559002665 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002666 ATP synthase; Region: ATP-synt; cl00365 207559002667 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 207559002668 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 207559002669 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 207559002670 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 207559002671 beta subunit interaction interface [polypeptide binding]; other site 207559002672 Walker A motif; other site 207559002673 ATP binding site [chemical binding]; other site 207559002674 Walker B motif; other site 207559002675 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 207559002676 Plant ATP synthase F0; Region: YMF19; cl07975 207559002677 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 207559002678 Plant ATP synthase F0; Region: YMF19; cl07975 207559002679 Plant ATP synthase F0; Region: YMF19; cl07975 207559002680 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 207559002681 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 207559002682 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 207559002683 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002684 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 207559002685 rod shape-determining protein MreC; Provisional; Region: PRK13922 207559002686 rod shape-determining protein MreC; Region: MreC; pfam04085 207559002687 rod shape-determining protein MreB; Provisional; Region: PRK13927 207559002688 Cell division protein FtsA; Region: FtsA; cl11496 207559002689 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 207559002690 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 207559002691 DNA binding site [nucleotide binding] 207559002692 active site 207559002693 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 207559002694 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 207559002695 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 207559002696 catalytic site [active] 207559002697 active site 207559002698 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 207559002699 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 207559002700 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 207559002701 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 207559002702 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 207559002703 NAD binding site [chemical binding]; other site 207559002704 homotetramer interface [polypeptide binding]; other site 207559002705 homodimer interface [polypeptide binding]; other site 207559002706 substrate binding site [chemical binding]; other site 207559002707 active site 207559002708 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 207559002709 ATP binding site [chemical binding]; other site 207559002710 active site 207559002711 substrate binding site [chemical binding]; other site 207559002712 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 207559002713 histidinol dehydrogenase; Region: hisD; TIGR00069 207559002714 NAD binding site [chemical binding]; other site 207559002715 dimerization interface [polypeptide binding]; other site 207559002716 product binding site; other site 207559002717 substrate binding site [chemical binding]; other site 207559002718 zinc binding site [ion binding]; other site 207559002719 catalytic residues [active] 207559002720 excinuclease ABC subunit C; Provisional; Region: uvrC; PRK14666 207559002721 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 207559002722 GIY-YIG motif/motif A; other site 207559002723 active site 207559002724 catalytic site [active] 207559002725 putative DNA binding site [nucleotide binding]; other site 207559002726 metal binding site [ion binding]; metal-binding site 207559002727 UvrB/uvrC motif; Region: UVR; pfam02151 207559002728 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 207559002729 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559002730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002731 ATP binding site [chemical binding]; other site 207559002732 Mg2+ binding site [ion binding]; other site 207559002733 G-X-G motif; other site 207559002734 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559002735 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002736 active site 207559002737 phosphorylation site [posttranslational modification] 207559002738 intermolecular recognition site; other site 207559002739 dimerization interface [polypeptide binding]; other site 207559002740 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 207559002741 Walker A motif; other site 207559002742 ATP binding site [chemical binding]; other site 207559002743 Walker B motif; other site 207559002744 arginine finger; other site 207559002745 Helix-turn-helix domains; Region: HTH; cl00088 207559002746 Response regulator receiver domain; Region: Response_reg; pfam00072 207559002747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559002748 active site 207559002749 phosphorylation site [posttranslational modification] 207559002750 intermolecular recognition site; other site 207559002751 dimerization interface [polypeptide binding]; other site 207559002752 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 207559002753 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 207559002754 Ligand Binding Site [chemical binding]; other site 207559002755 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 207559002756 Amidase; Region: Amidase; cl11426 207559002757 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 207559002758 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559002759 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559002760 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 207559002761 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 207559002762 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 207559002763 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 207559002764 dimer interface [polypeptide binding]; other site 207559002765 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 207559002766 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 207559002767 HrcA protein C terminal domain; Region: HrcA; pfam01628 207559002768 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 207559002769 catalytic triad [active] 207559002770 AsmA family; Region: AsmA; pfam05170 207559002771 AsmA-like C-terminal region; Region: AsmA_2; cl15864 207559002772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559002773 PilZ domain; Region: PilZ; cl01260 207559002774 cobyric acid synthase; Provisional; Region: PRK00784 207559002775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002776 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 207559002777 catalytic triad [active] 207559002778 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559002779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559002780 pyruvate kinase; Provisional; Region: PRK05826 207559002781 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; cl09155 207559002782 domain interfaces; other site 207559002783 active site 207559002784 cell division protein MraZ; Reviewed; Region: PRK00326 207559002785 MraZ protein; Region: MraZ; pfam02381 207559002786 MraZ protein; Region: MraZ; pfam02381 207559002787 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; cl16911 207559002788 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 207559002789 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 207559002790 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 207559002791 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 207559002792 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 207559002793 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002794 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002795 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002796 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002797 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 207559002798 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002799 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 207559002800 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 207559002801 Mg++ binding site [ion binding]; other site 207559002802 putative catalytic motif [active] 207559002803 putative substrate binding site [chemical binding]; other site 207559002804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002805 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 207559002806 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002807 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002808 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 207559002809 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 207559002810 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 207559002811 active site 207559002812 homodimer interface [polypeptide binding]; other site 207559002813 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 207559002814 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 207559002815 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 207559002816 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559002817 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 207559002818 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 207559002819 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 207559002820 Cell division protein FtsQ; Region: FtsQ; pfam03799 207559002821 cell division protein FtsA; Region: ftsA; TIGR01174 207559002822 Cell division protein FtsA; Region: FtsA; cl11496 207559002823 Cell division protein FtsA; Region: FtsA; cl11496 207559002824 cell division protein FtsZ; Region: ftsZ; TIGR00065 207559002825 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 207559002826 nucleotide binding site [chemical binding]; other site 207559002827 SulA interaction site; other site 207559002828 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 207559002829 CoenzymeA binding site [chemical binding]; other site 207559002830 subunit interaction site [polypeptide binding]; other site 207559002831 PHB binding site; other site 207559002832 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 207559002833 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 207559002834 Peptidase family M48; Region: Peptidase_M48; cl12018 207559002835 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 207559002836 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 207559002837 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 monomeric; Region: PRAI; cd00405 207559002838 active site 207559002839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002840 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 207559002841 Walker A/P-loop; other site 207559002842 ATP binding site [chemical binding]; other site 207559002843 Q-loop/lid; other site 207559002844 ABC transporter signature motif; other site 207559002845 Walker B; other site 207559002846 D-loop; other site 207559002847 H-loop/switch region; other site 207559002848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002849 Walker A/P-loop; other site 207559002850 ATP binding site [chemical binding]; other site 207559002851 Q-loop/lid; other site 207559002852 ABC transporter signature motif; other site 207559002853 Walker B; other site 207559002854 D-loop; other site 207559002855 H-loop/switch region; other site 207559002856 histidinol-phosphatase; Provisional; Region: PRK07328 207559002857 PHP-associated; Region: PHP_C; pfam13263 207559002858 Late competence development protein ComFB; Region: ComFB; pfam10719 207559002859 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 207559002860 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 207559002861 putative active site [active] 207559002862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002863 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 207559002864 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559002865 dimer interface [polypeptide binding]; other site 207559002866 conserved gate region; other site 207559002867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559002868 ABC-ATPase subunit interface; other site 207559002869 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 207559002870 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559002871 dimer interface [polypeptide binding]; other site 207559002872 conserved gate region; other site 207559002873 putative PBP binding loops; other site 207559002874 ABC-ATPase subunit interface; other site 207559002875 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559002876 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559002877 hypothetical protein; Provisional; Region: PHA02515 207559002878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559002879 metal binding site [ion binding]; metal-binding site 207559002880 active site 207559002881 I-site; other site 207559002882 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 207559002883 active site 207559002884 intersubunit interactions; other site 207559002885 catalytic residue [active] 207559002886 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559002887 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559002888 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 207559002889 putative active site [active] 207559002890 heme pocket [chemical binding]; other site 207559002891 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 207559002892 dimer interface [polypeptide binding]; other site 207559002893 phosphorylation site [posttranslational modification] 207559002894 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559002895 ATP binding site [chemical binding]; other site 207559002896 Mg2+ binding site [ion binding]; other site 207559002897 G-X-G motif; other site 207559002898 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 207559002899 glycolate transporter; Provisional; Region: PRK09695 207559002900 L-lactate permease; Region: Lactate_perm; cl00701 207559002901 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559002902 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559002903 thiosulfate reductase PhsA; Provisional; Region: PRK15488 207559002904 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 207559002905 putative [Fe4-S4] binding site [ion binding]; other site 207559002906 putative molybdopterin cofactor binding site [chemical binding]; other site 207559002907 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 207559002908 putative molybdopterin cofactor binding site; other site 207559002909 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 207559002910 dimerization interface [polypeptide binding]; other site 207559002911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559002912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559002913 dimer interface [polypeptide binding]; other site 207559002914 putative CheW interface [polypeptide binding]; other site 207559002915 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 207559002916 putative CheA interaction surface; other site 207559002917 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 207559002918 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 207559002919 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 207559002920 heterotetramer interface [polypeptide binding]; other site 207559002921 active site pocket [active] 207559002922 cleavage site 207559002923 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 207559002924 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559002925 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 207559002926 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 207559002927 nucleotide binding region [chemical binding]; other site 207559002928 ATP-binding site [chemical binding]; other site 207559002929 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559002930 4Fe-4S binding domain; Region: Fer4; cl02805 207559002931 Cysteine-rich domain; Region: CCG; pfam02754 207559002932 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 207559002933 putative amphipathic alpha helix; other site 207559002934 FAD binding domain; Region: FAD_binding_4; pfam01565 207559002935 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559002936 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 207559002937 SmpB-tmRNA interface; other site 207559002938 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559002939 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559002940 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559002941 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; cl09155 207559002942 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 207559002943 dimerization domain swap beta strand [polypeptide binding]; other site 207559002944 regulatory protein interface [polypeptide binding]; other site 207559002945 active site 207559002946 regulatory phosphorylation site [posttranslational modification]; other site 207559002947 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 207559002948 Predicted methyltransferases [General function prediction only]; Region: COG0313 207559002949 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559002950 Restriction endonuclease; Region: Mrr_cat; cl00516 207559002951 Restriction endonuclease; Region: Mrr_cat; cl00516 207559002952 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 207559002953 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559002954 active site 207559002955 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 207559002956 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 207559002957 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559002958 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 207559002959 RimM N-terminal domain; Region: RimM; pfam01782 207559002960 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 207559002961 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 207559002962 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 207559002963 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 207559002964 signal recognition particle protein; Provisional; Region: PRK10867 207559002965 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 207559002966 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 207559002967 P loop; other site 207559002968 GTP binding site [chemical binding]; other site 207559002969 Signal peptide binding domain; Region: SRP_SPB; pfam02978 207559002970 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559002971 high affinity sulphate transporter 1; Region: sulP; TIGR00815 207559002972 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559002973 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 207559002974 aspartate aminotransferase; Provisional; Region: PRK06836 207559002975 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 207559002976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559002977 homodimer interface [polypeptide binding]; other site 207559002978 catalytic residue [active] 207559002979 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 207559002980 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 207559002981 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 207559002982 4Fe-4S binding domain; Region: Fer4; cl02805 207559002983 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 207559002984 adenosine phosphosulphate reductase, alpha subunit; Region: aprA; TIGR02061 207559002985 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002987 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559002989 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559002990 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559002991 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 207559002992 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559002993 tricarballylate utilization protein B; Provisional; Region: PRK15033 207559002994 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559002995 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 207559002996 Yip1 domain; Region: Yip1; cl12048 207559002997 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 207559002998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559002999 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 207559003000 Flagellar protein FliS; Region: FliS; cl00654 207559003001 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 207559003002 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 207559003003 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 207559003004 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 207559003005 RIP metalloprotease RseP; Region: TIGR00054 207559003006 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 207559003007 active site 207559003008 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 207559003009 protein binding site [polypeptide binding]; other site 207559003010 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 207559003011 putative substrate binding region [chemical binding]; other site 207559003012 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 207559003013 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 207559003014 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 207559003015 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 207559003016 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 207559003017 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 207559003018 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559003019 catalytic residue [active] 207559003020 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 207559003021 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 207559003022 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 207559003023 catalytic residue [active] 207559003024 putative FPP diphosphate binding site; other site 207559003025 putative FPP binding hydrophobic cleft; other site 207559003026 dimer interface [polypeptide binding]; other site 207559003027 putative IPP diphosphate binding site; other site 207559003028 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 round of...; Region: RRF; cd00520 207559003029 hinge region; other site 207559003030 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 207559003031 putative nucleotide binding site [chemical binding]; other site 207559003032 uridine monophosphate binding site [chemical binding]; other site 207559003033 homohexameric interface [polypeptide binding]; other site 207559003034 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 207559003035 putative metal binding site; other site 207559003036 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 207559003037 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 207559003038 inhibitor-cofactor binding pocket; inhibition site 207559003039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003040 catalytic residue [active] 207559003041 elongation factor Ts; Reviewed; Region: tsf; PRK12332 207559003042 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 207559003043 Elongation factor TS; Region: EF_TS; pfam00889 207559003044 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 207559003045 rRNA interaction site [nucleotide binding]; other site 207559003046 S8 interaction site; other site 207559003047 putative laminin-1 binding site; other site 207559003048 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 207559003049 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 207559003050 Ligand Binding Site [chemical binding]; other site 207559003051 Molecular Tunnel; other site 207559003052 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559003053 putative acyl-acceptor binding pocket; other site 207559003054 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 207559003055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559003056 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559003057 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 207559003058 MgtC family; Region: MgtC; pfam02308 207559003059 EamA-like transporter family; Region: EamA; cl01037 207559003060 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559003061 EamA-like transporter family; Region: EamA; cl01037 207559003062 heat shock protein 90; Provisional; Region: PRK05218 207559003063 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559003064 [FeFe] hydrogenase H-cluster radical SAM maturase HydG; Region: rSAM_HydG; TIGR03955 207559003065 TSCPD domain; Region: TSCPD; cl14834 207559003066 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 207559003067 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003068 Zn2+ binding site [ion binding]; other site 207559003069 Mg2+ binding site [ion binding]; other site 207559003070 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 207559003071 Catalytic site [active] 207559003072 cystine transporter subunit; Provisional; Region: PRK11260 207559003073 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; cl15306 207559003074 substrate binding pocket [chemical binding]; other site 207559003075 membrane-bound complex binding site; other site 207559003076 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 207559003077 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559003078 putative active site [active] 207559003079 metal binding site [ion binding]; metal-binding site 207559003080 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 207559003081 PAS domain; Region: PAS_9; pfam13426 207559003082 putative active site [active] 207559003083 heme pocket [chemical binding]; other site 207559003084 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559003085 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 207559003086 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559003087 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003088 ATP binding site [chemical binding]; other site 207559003089 Mg2+ binding site [ion binding]; other site 207559003090 G-X-G motif; other site 207559003091 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 207559003092 PAS domain; Region: PAS_9; pfam13426 207559003093 PAS fold; Region: PAS_4; pfam08448 207559003094 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 207559003095 PAS fold; Region: PAS_4; pfam08448 207559003096 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 207559003097 PAS domain; Region: PAS_9; pfam13426 207559003098 putative active site [active] 207559003099 heme pocket [chemical binding]; other site 207559003100 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003101 metal binding site [ion binding]; metal-binding site 207559003102 active site 207559003103 I-site; other site 207559003104 TPR repeat; Region: TPR_11; pfam13414 207559003105 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 207559003106 binding surface 207559003107 TPR motif; other site 207559003108 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003109 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 207559003110 intracellular protease, PfpI family; Region: PfpI; TIGR01382 207559003111 conserved cys residue [active] 207559003112 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559003113 NMT1/THI5 like; Region: NMT1; pfam09084 207559003114 putative diguanylate cyclase; Provisional; Region: PRK09776 207559003115 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003116 metal binding site [ion binding]; metal-binding site 207559003117 active site 207559003118 I-site; other site 207559003119 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 207559003120 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 207559003121 ATP binding site [chemical binding]; other site 207559003122 putative Mg++ binding site [ion binding]; other site 207559003123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559003124 Helicase associated domain (HA2); Region: HA2; cl04503 207559003125 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 207559003126 META domain; Region: META; cl01245 207559003127 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; cl09155 207559003128 active site 207559003129 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 207559003130 RNA/DNA binding site [nucleotide binding]; other site 207559003131 RRM dimerization site [polypeptide binding]; other site 207559003132 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 207559003133 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 207559003134 active site 207559003135 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 207559003136 Dak1 domain; Region: Dak1; pfam02733 207559003137 DAK2 domain; Region: Dak2; cl03685 207559003138 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 207559003139 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 207559003140 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 207559003141 dimerization domain swap beta strand [polypeptide binding]; other site 207559003142 regulatory protein interface [polypeptide binding]; other site 207559003143 active site 207559003144 regulatory phosphorylation site [posttranslational modification]; other site 207559003145 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 207559003146 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 207559003147 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559003148 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; cl09155 207559003149 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559003150 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003151 Walker A/P-loop; other site 207559003152 ATP binding site [chemical binding]; other site 207559003153 Q-loop/lid; other site 207559003154 ABC transporter signature motif; other site 207559003155 Walker B; other site 207559003156 D-loop; other site 207559003157 H-loop/switch region; other site 207559003158 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559003159 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559003160 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003161 Walker A/P-loop; other site 207559003162 ATP binding site [chemical binding]; other site 207559003163 Q-loop/lid; other site 207559003164 ABC transporter signature motif; other site 207559003165 Walker B; other site 207559003166 D-loop; other site 207559003167 H-loop/switch region; other site 207559003168 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559003169 dipeptide transporter; Provisional; Region: PRK10913 207559003170 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 207559003171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003172 dimer interface [polypeptide binding]; other site 207559003173 conserved gate region; other site 207559003174 putative PBP binding loops; other site 207559003175 ABC-ATPase subunit interface; other site 207559003176 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559003177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003178 dimer interface [polypeptide binding]; other site 207559003179 conserved gate region; other site 207559003180 putative PBP binding loops; other site 207559003181 ABC-ATPase subunit interface; other site 207559003182 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559003183 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559003184 peptide binding site [polypeptide binding]; other site 207559003185 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 207559003186 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 207559003187 metal binding site [ion binding]; metal-binding site 207559003188 dimer interface [polypeptide binding]; other site 207559003189 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559003190 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003191 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559003192 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 207559003193 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 207559003194 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 207559003195 Cobalt transport protein; Region: CbiQ; cl00463 207559003196 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559003197 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559003198 Walker A/P-loop; other site 207559003199 ATP binding site [chemical binding]; other site 207559003200 Q-loop/lid; other site 207559003201 ABC transporter signature motif; other site 207559003202 Walker B; other site 207559003203 D-loop; other site 207559003204 H-loop/switch region; other site 207559003205 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 207559003206 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 207559003207 substrate binding pocket [chemical binding]; other site 207559003208 membrane-bound complex binding site; other site 207559003209 hinge residues; other site 207559003210 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559003211 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559003212 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 207559003213 putative FMN binding site [chemical binding]; other site 207559003214 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 207559003215 Chemotaxis phosphatase CheX; Region: CheX; cl15816 207559003216 HDOD domain; Region: HDOD; pfam08668 207559003217 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003218 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559003219 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559003220 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; cl16911 207559003221 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 207559003222 ligand binding site [chemical binding]; other site 207559003223 flexible hinge region; other site 207559003224 Helix-turn-helix domains; Region: HTH; cl00088 207559003225 Sulfatase; Region: Sulfatase; cl10460 207559003226 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 207559003227 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 207559003228 catalytic residues [active] 207559003229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003230 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559003231 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003232 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; cl15357 207559003233 EamA-like transporter family; Region: EamA; cl01037 207559003234 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559003235 EamA-like transporter family; Region: EamA; cl01037 207559003236 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 207559003237 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559003238 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559003239 Cysteine-rich domain; Region: CCG; pfam02754 207559003240 Cysteine-rich domain; Region: CCG; pfam02754 207559003241 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559003242 4Fe-4S binding domain; Region: Fer4; cl02805 207559003243 4Fe-4S binding domain; Region: Fer4; cl02805 207559003244 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559003245 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559003246 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 207559003247 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 207559003248 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 207559003249 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559003250 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 207559003251 FAD binding pocket [chemical binding]; other site 207559003252 FAD binding motif [chemical binding]; other site 207559003253 phosphate binding motif [ion binding]; other site 207559003254 beta-alpha-beta structure motif; other site 207559003255 NAD binding pocket [chemical binding]; other site 207559003256 Iron coordination center [ion binding]; other site 207559003257 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559003258 diiron binding motif [ion binding]; other site 207559003259 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 207559003260 active site 207559003261 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 207559003262 active site 207559003263 dimer interface [polypeptide binding]; other site 207559003264 YibE/F-like protein; Region: YibE_F; cl02259 207559003265 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; cl09108 207559003266 phosphate binding site [ion binding]; other site 207559003267 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003268 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003269 binuclear metal center [ion binding]; other site 207559003270 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 207559003271 iron binding site [ion binding]; other site 207559003272 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559003273 putative active site [active] 207559003274 putative substrate binding site [chemical binding]; other site 207559003275 putative cosubstrate binding site; other site 207559003276 catalytic site [active] 207559003277 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559003278 Helix-turn-helix domains; Region: HTH; cl00088 207559003279 putative transposase OrfB; Reviewed; Region: PHA02517 207559003280 HTH-like domain; Region: HTH_21; pfam13276 207559003281 Integrase core domain; Region: rve; cl01316 207559003282 Integrase core domain; Region: rve_3; cl15866 207559003283 OpgC protein; Region: OpgC_C; cl00792 207559003284 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559003285 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559003286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559003287 DNA-binding site [nucleotide binding]; DNA binding site 207559003288 FCD domain; Region: FCD; cl11656 207559003289 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559003290 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; cl16911 207559003291 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559003292 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559003293 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 207559003294 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 207559003295 putative oxidoreductase; Provisional; Region: PRK12831 207559003296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003298 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559003299 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 207559003300 FAD binding pocket [chemical binding]; other site 207559003301 FAD binding motif [chemical binding]; other site 207559003302 phosphate binding motif [ion binding]; other site 207559003303 beta-alpha-beta structure motif; other site 207559003304 NAD binding pocket [chemical binding]; other site 207559003305 Iron coordination center [ion binding]; other site 207559003306 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 207559003307 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 207559003308 transmembrane helices; other site 207559003309 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559003310 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559003311 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559003312 putative NAD(P) binding site [chemical binding]; other site 207559003313 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559003314 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 207559003315 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 207559003316 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 207559003317 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 207559003318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003319 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 207559003320 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 207559003321 Iron-sulfur protein interface; other site 207559003322 proximal heme binding site [chemical binding]; other site 207559003323 distal heme binding site [chemical binding]; other site 207559003324 dimer interface [polypeptide binding]; other site 207559003325 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003327 active site 207559003328 phosphorylation site [posttranslational modification] 207559003329 intermolecular recognition site; other site 207559003330 dimerization interface [polypeptide binding]; other site 207559003331 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 207559003332 Walker A motif; other site 207559003333 ATP binding site [chemical binding]; other site 207559003334 Walker B motif; other site 207559003335 arginine finger; other site 207559003336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559003337 Cache domain; Region: Cache_2; cl07034 207559003338 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 207559003339 dimer interface [polypeptide binding]; other site 207559003340 phosphorylation site [posttranslational modification] 207559003341 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003342 ATP binding site [chemical binding]; other site 207559003343 Mg2+ binding site [ion binding]; other site 207559003344 G-X-G motif; other site 207559003345 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003347 active site 207559003348 phosphorylation site [posttranslational modification] 207559003349 intermolecular recognition site; other site 207559003350 dimerization interface [polypeptide binding]; other site 207559003351 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003352 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559003353 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 207559003354 Walker A motif; other site 207559003355 ATP binding site [chemical binding]; other site 207559003356 Walker B motif; other site 207559003357 arginine finger; other site 207559003358 Helix-turn-helix domains; Region: HTH; cl00088 207559003359 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 207559003360 homotrimer interaction site [polypeptide binding]; other site 207559003361 putative active site [active] 207559003362 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 207559003363 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 207559003364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559003365 catalytic residue [active] 207559003366 peptidase; Reviewed; Region: PRK13004 207559003367 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 207559003368 putative metal binding site [ion binding]; other site 207559003369 putative dimer interface [polypeptide binding]; other site 207559003370 Sodium:solute symporter family; Region: SSF; cl00456 207559003371 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 207559003372 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 207559003373 active site 207559003374 putative substrate binding pocket [chemical binding]; other site 207559003375 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 207559003376 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 207559003377 PAS domain; Region: PAS_9; pfam13426 207559003378 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559003379 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 207559003380 Walker A motif; other site 207559003381 ATP binding site [chemical binding]; other site 207559003382 Walker B motif; other site 207559003383 arginine finger; other site 207559003384 Helix-turn-helix domains; Region: HTH; cl00088 207559003385 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559003386 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559003387 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559003388 dimer interface [polypeptide binding]; other site 207559003389 active site 207559003390 glycine loop; other site 207559003391 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559003392 DctM-like transporters; Region: DctM; pfam06808 207559003393 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 207559003394 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559003395 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559003396 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 207559003397 PAS domain; Region: PAS_9; pfam13426 207559003398 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003399 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559003400 dimer interface [polypeptide binding]; other site 207559003401 putative CheW interface [polypeptide binding]; other site 207559003402 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 207559003403 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559003404 ABC transporter; Region: ABC_tran_2; pfam12848 207559003405 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559003406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559003407 Helix-turn-helix domains; Region: HTH; cl00088 207559003408 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003410 active site 207559003411 phosphorylation site [posttranslational modification] 207559003412 intermolecular recognition site; other site 207559003413 dimerization interface [polypeptide binding]; other site 207559003414 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 207559003415 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 207559003416 dimer interface [polypeptide binding]; other site 207559003417 phosphorylation site [posttranslational modification] 207559003418 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003419 ATP binding site [chemical binding]; other site 207559003420 Mg2+ binding site [ion binding]; other site 207559003421 G-X-G motif; other site 207559003422 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003424 active site 207559003425 phosphorylation site [posttranslational modification] 207559003426 intermolecular recognition site; other site 207559003427 dimerization interface [polypeptide binding]; other site 207559003428 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003429 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 207559003430 binding surface 207559003431 TPR motif; other site 207559003432 TPR repeat; Region: TPR_11; pfam13414 207559003433 Helix-turn-helix domains; Region: HTH; cl00088 207559003434 Winged helix-turn helix; Region: HTH_29; pfam13551 207559003435 Helix-turn-helix domains; Region: HTH; cl00088 207559003436 Integrase core domain; Region: rve; cl01316 207559003437 Helix-turn-helix domains; Region: HTH; cl00088 207559003438 putative transposase OrfB; Reviewed; Region: PHA02517 207559003439 HTH-like domain; Region: HTH_21; pfam13276 207559003440 Integrase core domain; Region: rve; cl01316 207559003441 Integrase core domain; Region: rve_3; cl15866 207559003442 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; cl16911 207559003443 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 207559003444 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559003445 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559003446 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 207559003447 HSP70 interaction site [polypeptide binding]; other site 207559003448 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 207559003449 Flagellin N-methylase; Region: FliB; cl00497 207559003450 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003451 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 207559003452 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 207559003453 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 207559003454 active site 207559003455 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 207559003456 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 207559003457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559003458 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 207559003459 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 207559003460 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 207559003461 binding surface 207559003462 TPR motif; other site 207559003463 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559003464 ribonuclease E; Reviewed; Region: rne; PRK10811 207559003465 AMIN domain; Region: AMIN; pfam11741 207559003466 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 207559003467 putative catalytic residues [active] 207559003468 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 207559003469 metal-binding site [ion binding] 207559003470 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 207559003471 metal-binding site [ion binding] 207559003472 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 207559003473 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 207559003474 metal-binding site [ion binding] 207559003475 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559003476 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559003477 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 207559003478 Eukaryotic UGPase catalyses the synthesis of UDP-Glucose; Region: UGPase_euk; cd00897 207559003479 active site 207559003480 substrate binding site; other site 207559003481 hypothetical protein; Provisional; Region: PRK11568 207559003482 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 207559003483 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 207559003484 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 207559003485 active site 207559003486 putative interdomain interaction site [polypeptide binding]; other site 207559003487 putative metal-binding site [ion binding]; other site 207559003488 putative nucleotide binding site [chemical binding]; other site 207559003489 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; cl11986 207559003490 domain I; other site 207559003491 phosphate binding site [ion binding]; other site 207559003492 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 207559003493 domain II; other site 207559003494 domain III; other site 207559003495 nucleotide binding site [chemical binding]; other site 207559003496 DNA binding groove [nucleotide binding] 207559003497 catalytic site [active] 207559003498 domain IV; other site 207559003499 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 207559003500 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559003501 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559003502 binuclear metal center [ion binding]; other site 207559003503 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 207559003504 iron binding site [ion binding]; other site 207559003505 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 207559003506 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 207559003507 PAS domain; Region: PAS_9; pfam13426 207559003508 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559003509 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559003510 dimer interface [polypeptide binding]; other site 207559003511 putative CheW interface [polypeptide binding]; other site 207559003512 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 207559003513 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 207559003514 putative active site [active] 207559003515 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003516 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003517 Walker A/P-loop; other site 207559003518 ATP binding site [chemical binding]; other site 207559003519 Q-loop/lid; other site 207559003520 ABC transporter signature motif; other site 207559003521 Walker B; other site 207559003522 D-loop; other site 207559003523 H-loop/switch region; other site 207559003524 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 207559003525 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559003526 Walker A/P-loop; other site 207559003527 ATP binding site [chemical binding]; other site 207559003528 Q-loop/lid; other site 207559003529 ABC transporter signature motif; other site 207559003530 Walker B; other site 207559003531 D-loop; other site 207559003532 H-loop/switch region; other site 207559003533 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559003534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003535 dimer interface [polypeptide binding]; other site 207559003536 conserved gate region; other site 207559003537 putative PBP binding loops; other site 207559003538 ABC-ATPase subunit interface; other site 207559003539 dipeptide transporter permease DppB; Provisional; Region: PRK10914 207559003540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003541 dimer interface [polypeptide binding]; other site 207559003542 conserved gate region; other site 207559003543 putative PBP binding loops; other site 207559003544 ABC-ATPase subunit interface; other site 207559003545 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 207559003546 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559003547 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559003548 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 207559003549 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 207559003550 active site 207559003551 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 207559003552 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003553 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003554 FtsX-like permease family; Region: FtsX; cl15850 207559003555 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003556 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 207559003557 FtsX-like permease family; Region: FtsX; cl15850 207559003558 Sodium:solute symporter family; Region: SSF; cl00456 207559003559 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 207559003560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 207559003561 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559003562 Walker A/P-loop; other site 207559003563 ATP binding site [chemical binding]; other site 207559003564 Q-loop/lid; other site 207559003565 ABC transporter signature motif; other site 207559003566 Walker B; other site 207559003567 D-loop; other site 207559003568 H-loop/switch region; other site 207559003569 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559003570 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 207559003571 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 207559003572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 207559003573 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559003574 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559003575 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 207559003576 putative dimer interface [polypeptide binding]; other site 207559003577 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 207559003578 putative dimer interface [polypeptide binding]; other site 207559003579 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 207559003580 Predicted permeases [General function prediction only]; Region: RarD; COG2962 207559003581 PAS domain S-box; Region: sensory_box; TIGR00229 207559003582 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 207559003583 putative active site [active] 207559003584 heme pocket [chemical binding]; other site 207559003585 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559003586 metal binding site [ion binding]; metal-binding site 207559003587 active site 207559003588 I-site; other site 207559003589 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 207559003590 Helix-turn-helix domains; Region: HTH; cl00088 207559003591 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 207559003592 putative FMN binding site [chemical binding]; other site 207559003593 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 207559003594 active site residue [active] 207559003595 SlyX; Region: SlyX; cl01090 207559003596 EVE domain; Region: EVE; cl00728 207559003597 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 207559003598 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 207559003599 PAS domain S-box; Region: sensory_box; TIGR00229 207559003600 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 207559003601 putative active site [active] 207559003602 heme pocket [chemical binding]; other site 207559003603 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 207559003604 GAF domain; Region: GAF; cl15785 207559003605 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 207559003606 dimer interface [polypeptide binding]; other site 207559003607 phosphorylation site [posttranslational modification] 207559003608 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559003609 ATP binding site [chemical binding]; other site 207559003610 Mg2+ binding site [ion binding]; other site 207559003611 G-X-G motif; other site 207559003612 Response regulator receiver domain; Region: Response_reg; pfam00072 207559003613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003614 active site 207559003615 phosphorylation site [posttranslational modification] 207559003616 intermolecular recognition site; other site 207559003617 dimerization interface [polypeptide binding]; other site 207559003618 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003619 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559003620 Vps51/Vps67; Region: Vps51; cl15380 207559003621 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; cd00051 207559003622 Ca2+ binding site [ion binding]; other site 207559003623 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 207559003624 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 207559003625 dimer interface [polypeptide binding]; other site 207559003626 putative anticodon binding site; other site 207559003627 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 207559003628 motif 1; other site 207559003629 active site 207559003630 motif 2; other site 207559003631 motif 3; other site 207559003632 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 207559003633 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 207559003634 FtsX-like permease family; Region: FtsX; cl15850 207559003635 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 207559003636 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 207559003637 Walker A/P-loop; other site 207559003638 ATP binding site [chemical binding]; other site 207559003639 Q-loop/lid; other site 207559003640 ABC transporter signature motif; other site 207559003641 Walker B; other site 207559003642 D-loop; other site 207559003643 H-loop/switch region; other site 207559003644 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 207559003645 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003646 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003647 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003648 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003649 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 207559003650 Surface antigen; Region: Bac_surface_Ag; cl03097 207559003651 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559003652 AMIN domain; Region: AMIN; pfam11741 207559003653 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 207559003654 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 207559003655 active site 207559003656 metal binding site [ion binding]; metal-binding site 207559003657 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 207559003658 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 207559003659 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 207559003660 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 207559003661 trimer interface [polypeptide binding]; other site 207559003662 active site 207559003663 UDP-GlcNAc binding site [chemical binding]; other site 207559003664 lipid binding site [chemical binding]; lipid-binding site 207559003665 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 207559003666 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 207559003667 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 207559003668 active site 207559003669 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 207559003670 potential frameshift: common BLAST hit: gi|218888087|ref|YP_002437408.1| GntR family transcriptional regulator 207559003671 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 207559003672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003673 homodimer interface [polypeptide binding]; other site 207559003674 catalytic residue [active] 207559003675 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 207559003676 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 207559003677 substrate binding site [chemical binding]; other site 207559003678 multimerization interface [polypeptide binding]; other site 207559003679 ATP binding site [chemical binding]; other site 207559003680 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 207559003681 thiamine phosphate binding site [chemical binding]; other site 207559003682 active site 207559003683 pyrophosphate binding site [ion binding]; other site 207559003684 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 207559003685 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 207559003686 FAD binding pocket [chemical binding]; other site 207559003687 FAD binding motif [chemical binding]; other site 207559003688 phosphate binding motif [ion binding]; other site 207559003689 beta-alpha-beta structure motif; other site 207559003690 NAD binding pocket [chemical binding]; other site 207559003691 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 207559003692 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 207559003693 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003694 NAD(P) binding pocket [chemical binding]; other site 207559003695 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 207559003696 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 207559003697 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003698 substrate binding pocket [chemical binding]; other site 207559003699 membrane-bound complex binding site; other site 207559003700 hinge residues; other site 207559003701 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003702 dimer interface [polypeptide binding]; other site 207559003703 conserved gate region; other site 207559003704 putative PBP binding loops; other site 207559003705 ABC-ATPase subunit interface; other site 207559003706 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559003707 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559003708 Walker A/P-loop; other site 207559003709 ATP binding site [chemical binding]; other site 207559003710 Q-loop/lid; other site 207559003711 ABC transporter signature motif; other site 207559003712 Walker B; other site 207559003713 D-loop; other site 207559003714 H-loop/switch region; other site 207559003715 LysE type translocator; Region: LysE; cl00565 207559003716 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 207559003717 MPT binding site; other site 207559003718 trimer interface [polypeptide binding]; other site 207559003719 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003720 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559003721 Zn2+ binding site [ion binding]; other site 207559003722 Mg2+ binding site [ion binding]; other site 207559003723 UbiA prenyltransferase family; Region: UbiA; cl00337 207559003724 Protein of unknown function (DUF615); Region: DUF615; cl01147 207559003725 Helix-turn-helix domains; Region: HTH; cl00088 207559003726 putative transposase OrfB; Reviewed; Region: PHA02517 207559003727 HTH-like domain; Region: HTH_21; pfam13276 207559003728 Integrase core domain; Region: rve; cl01316 207559003729 Integrase core domain; Region: rve_3; cl15866 207559003730 HDOD domain; Region: HDOD; pfam08668 207559003731 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 207559003732 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 207559003733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003734 homodimer interface [polypeptide binding]; other site 207559003735 catalytic residue [active] 207559003736 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 207559003737 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 207559003738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559003739 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 207559003740 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 207559003741 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 207559003742 AIR carboxylase; Region: AIRC; cl00310 207559003743 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559003744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559003745 active site 207559003746 phosphorylation site [posttranslational modification] 207559003747 intermolecular recognition site; other site 207559003748 dimerization interface [polypeptide binding]; other site 207559003749 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 207559003750 Walker A motif; other site 207559003751 ATP binding site [chemical binding]; other site 207559003752 Walker B motif; other site 207559003753 arginine finger; other site 207559003754 Helix-turn-helix domains; Region: HTH; cl00088 207559003755 aconitate hydratase; Validated; Region: PRK07229 207559003756 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 207559003757 substrate binding site [chemical binding]; other site 207559003758 ligand binding site [chemical binding]; other site 207559003759 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 207559003760 substrate binding site [chemical binding]; other site 207559003761 periplasmic folding chaperone; Provisional; Region: PRK10788 207559003762 SurA N-terminal domain; Region: SurA_N_3; cl07813 207559003763 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559003764 replicative DNA helicase; Region: DnaB; TIGR00665 207559003765 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 207559003766 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 207559003767 Walker A motif; other site 207559003768 ATP binding site [chemical binding]; other site 207559003769 Walker B motif; other site 207559003770 DNA binding loops [nucleotide binding] 207559003771 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 207559003772 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 207559003773 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 207559003774 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 207559003775 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 207559003776 OstA-like protein; Region: OstA; cl00844 207559003777 Organic solvent tolerance protein; Region: OstA_C; pfam04453 207559003778 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 207559003779 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 207559003780 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 207559003781 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 207559003782 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 207559003783 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 207559003784 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 207559003785 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559003786 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 207559003787 Walker A/P-loop; other site 207559003788 ATP binding site [chemical binding]; other site 207559003789 Q-loop/lid; other site 207559003790 ABC transporter signature motif; other site 207559003791 Walker B; other site 207559003792 D-loop; other site 207559003793 H-loop/switch region; other site 207559003794 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 207559003795 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 207559003796 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 207559003797 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 207559003798 PAS fold; Region: PAS; pfam00989 207559003799 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 207559003800 putative active site [active] 207559003801 heme pocket [chemical binding]; other site 207559003802 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559003803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559003804 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 207559003805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003806 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 207559003807 substrate binding pocket [chemical binding]; other site 207559003808 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003809 membrane-bound complex binding site; other site 207559003810 hinge residues; other site 207559003811 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 207559003812 putative homodimer interface [polypeptide binding]; other site 207559003813 putative active site pocket [active] 207559003814 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 207559003815 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 207559003816 trimer interface [polypeptide binding]; other site 207559003817 active site 207559003818 acetylornithine aminotransferase; Provisional; Region: PRK02627 207559003819 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 207559003820 inhibitor-cofactor binding pocket; inhibition site 207559003821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003822 catalytic residue [active] 207559003823 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559003824 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559003825 Walker A/P-loop; other site 207559003826 ATP binding site [chemical binding]; other site 207559003827 Q-loop/lid; other site 207559003828 ABC transporter signature motif; other site 207559003829 Walker B; other site 207559003830 D-loop; other site 207559003831 H-loop/switch region; other site 207559003832 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003833 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 207559003834 substrate binding pocket [chemical binding]; other site 207559003835 membrane-bound complex binding site; other site 207559003836 hinge residues; other site 207559003837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559003838 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003839 dimer interface [polypeptide binding]; other site 207559003840 conserved gate region; other site 207559003841 putative PBP binding loops; other site 207559003842 ABC-ATPase subunit interface; other site 207559003843 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559003844 dimer interface [polypeptide binding]; other site 207559003845 conserved gate region; other site 207559003846 putative PBP binding loops; other site 207559003847 ABC-ATPase subunit interface; other site 207559003848 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 207559003849 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 207559003850 S-adenosylmethionine binding site [chemical binding]; other site 207559003851 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559003852 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 207559003853 putative active site [active] 207559003854 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 207559003855 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559003856 minor groove reading motif; other site 207559003857 helix-hairpin-helix signature motif; other site 207559003858 substrate binding pocket [chemical binding]; other site 207559003859 active site 207559003860 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 207559003861 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 207559003862 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 207559003863 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 207559003864 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 207559003865 protein binding site [polypeptide binding]; other site 207559003866 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 207559003867 Catalytic dyad [active] 207559003868 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 207559003869 NodB motif; other site 207559003870 putative active site [active] 207559003871 putative catalytic site [active] 207559003872 Zn binding site [ion binding]; other site 207559003873 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 207559003874 active site 207559003875 multimer interface [polypeptide binding]; other site 207559003876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559003877 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 207559003878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 207559003879 Smr domain; Region: Smr; cl02619 207559003880 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 207559003881 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 207559003882 tandem repeat interface [polypeptide binding]; other site 207559003883 oligomer interface [polypeptide binding]; other site 207559003884 active site residues [active] 207559003885 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 207559003886 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 207559003887 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 207559003888 Walker A/P-loop; other site 207559003889 ATP binding site [chemical binding]; other site 207559003890 Q-loop/lid; other site 207559003891 ABC transporter signature motif; other site 207559003892 Walker B; other site 207559003893 D-loop; other site 207559003894 H-loop/switch region; other site 207559003895 Rhomboid family; Region: Rhomboid; cl11446 207559003896 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 207559003897 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 207559003898 RNA binding surface [nucleotide binding]; other site 207559003899 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 207559003900 active site 207559003901 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 207559003902 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 207559003903 CoA-binding site [chemical binding]; other site 207559003904 ATP-binding [chemical binding]; other site 207559003905 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559003906 active site 207559003907 uracil-xanthine permease; Region: ncs2; TIGR00801 207559003908 cytidylate kinase; Provisional; Region: cmk; PRK00023 207559003909 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 207559003910 CMP-binding site; other site 207559003911 The sites determining sugar specificity; other site 207559003912 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 207559003913 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 207559003914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559003915 homodimer interface [polypeptide binding]; other site 207559003916 catalytic residue [active] 207559003917 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 207559003918 Ligand Binding Site [chemical binding]; other site 207559003919 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 207559003920 S-adenosylmethionine binding site [chemical binding]; other site 207559003921 Competence-damaged protein; Region: CinA; cl00666 207559003922 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 207559003923 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559003924 substrate binding pocket [chemical binding]; other site 207559003925 membrane-bound complex binding site; other site 207559003926 hinge residues; other site 207559003927 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 207559003928 active site 207559003929 catalytic motif [active] 207559003930 Zn binding site [ion binding]; other site 207559003931 PilZ domain; Region: PilZ; cl01260 207559003932 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 207559003933 glucokinase, proteobacterial type; Region: glk; TIGR00749 207559003934 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559003935 mercuric reductase; Validated; Region: PRK06370 207559003936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559003937 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559003938 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 207559003939 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 207559003940 catalytic residues [active] 207559003941 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 207559003942 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 207559003943 4-fold oligomerization interface [polypeptide binding]; other site 207559003944 putative active site pocket [active] 207559003945 metal binding residues [ion binding]; metal-binding site 207559003946 3-fold/trimer interface [polypeptide binding]; other site 207559003947 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 207559003948 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 207559003949 GMP synthase; Reviewed; Region: guaA; PRK00074 207559003950 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 207559003951 AMP/PPi binding site [chemical binding]; other site 207559003952 candidate oxyanion hole; other site 207559003953 catalytic triad [active] 207559003954 potential glutamine specificity residues [chemical binding]; other site 207559003955 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 207559003956 ATP Binding subdomain [chemical binding]; other site 207559003957 Ligand Binding sites [chemical binding]; other site 207559003958 Dimerization subdomain; other site 207559003959 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 207559003960 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; cl09108 207559003961 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 key...; Region: CBS_pair_IMPDH; cd04601 207559003962 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 the guanine...; Region: IMPDH; cd00381 207559003963 active site 207559003964 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 207559003965 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 207559003966 binding surface 207559003967 TPR motif; other site 207559003968 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559003969 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559003970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559003971 Walker A/P-loop; other site 207559003972 ATP binding site [chemical binding]; other site 207559003973 Q-loop/lid; other site 207559003974 ABC transporter signature motif; other site 207559003975 Walker B; other site 207559003976 D-loop; other site 207559003977 H-loop/switch region; other site 207559003978 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559003979 CcmE; Region: CcmE; cl00994 207559003980 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559003981 FOG: CBS domain [General function prediction only]; Region: COG0517 207559003982 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 207559003983 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 207559003984 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 207559003985 active site 207559003986 motif I; other site 207559003987 motif II; other site 207559003988 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559003989 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 207559003990 putative active site [active] 207559003991 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 207559003992 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; cl15357 207559003993 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559003994 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559003995 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559003996 Probable Catalytic site; other site 207559003997 metal-binding site 207559003998 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559003999 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 207559004000 active site 207559004001 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559004002 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 207559004003 active site 207559004004 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 207559004005 THUMP domain; Region: THUMP; cl12076 207559004006 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; cl16911 207559004007 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 207559004008 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 207559004009 substrate binding site [chemical binding]; other site 207559004010 ATP binding site [chemical binding]; other site 207559004011 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 207559004012 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 207559004013 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 207559004014 minor groove reading motif; other site 207559004015 helix-hairpin-helix signature motif; other site 207559004016 substrate binding pocket [chemical binding]; other site 207559004017 active site 207559004018 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 207559004019 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 207559004020 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559004021 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559004022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004023 active site 207559004024 phosphorylation site [posttranslational modification] 207559004025 intermolecular recognition site; other site 207559004026 dimerization interface [polypeptide binding]; other site 207559004027 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 207559004028 trimer interface [polypeptide binding]; other site 207559004029 active site 207559004030 substrate binding site [chemical binding]; other site 207559004031 CoA binding site [chemical binding]; other site 207559004032 S-adenosylmethionine synthetase; Validated; Region: PRK05250 207559004033 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 207559004034 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 207559004035 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 207559004036 Protein of unknown function (DUF502); Region: DUF502; cl01107 207559004037 pantoate--beta-alanine ligase; Region: panC; TIGR00018 207559004038 Pantoate-beta-alanine ligase; Region: PanC; cd00560 207559004039 active site 207559004040 ATP-binding site [chemical binding]; other site 207559004041 pantoate-binding site; other site 207559004042 HXXH motif; other site 207559004043 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 207559004044 active site 207559004045 oligomerization interface [polypeptide binding]; other site 207559004046 metal binding site [ion binding]; metal-binding site 207559004047 flagellin; Provisional; Region: PRK12802 207559004048 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004049 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004050 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 207559004051 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004052 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004053 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 207559004054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004055 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 207559004056 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559004057 active site 207559004058 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 207559004059 putative ligand binding site [chemical binding]; other site 207559004060 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 207559004061 TM-ABC transporter signature motif; other site 207559004062 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 207559004063 TM-ABC transporter signature motif; other site 207559004064 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 207559004065 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 207559004066 Walker A/P-loop; other site 207559004067 ATP binding site [chemical binding]; other site 207559004068 Q-loop/lid; other site 207559004069 ABC transporter signature motif; other site 207559004070 Walker B; other site 207559004071 D-loop; other site 207559004072 H-loop/switch region; other site 207559004073 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 207559004074 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 207559004075 Cation efflux family; Region: Cation_efflux; cl00316 207559004076 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 207559004077 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559004078 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559004079 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559004080 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 207559004081 Walker A motif; other site 207559004082 ATP binding site [chemical binding]; other site 207559004083 Walker B motif; other site 207559004084 arginine finger; other site 207559004085 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559004086 dihydropteroate synthase; Region: DHPS; TIGR01496 207559004087 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 207559004088 substrate binding pocket [chemical binding]; other site 207559004089 dimer interface [polypeptide binding]; other site 207559004090 inhibitor binding site; inhibition site 207559004091 TIGR00159 family protein; Region: TIGR00159 207559004092 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 207559004093 YbbR-like protein; Region: YbbR; pfam07949 207559004094 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 207559004095 YbbR-like protein; Region: YbbR; pfam07949 207559004096 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 207559004097 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 207559004098 active site 207559004099 substrate binding site [chemical binding]; other site 207559004100 metal binding site [ion binding]; metal-binding site 207559004101 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 207559004102 active site 207559004103 tetramer interface; other site 207559004104 primosome assembly protein PriA; Validated; Region: PRK05580 207559004105 primosome assembly protein PriA; Validated; Region: PRK05580 207559004106 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 207559004107 ATP binding site [chemical binding]; other site 207559004108 putative Mg++ binding site [ion binding]; other site 207559004109 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004110 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004112 active site 207559004113 phosphorylation site [posttranslational modification] 207559004114 intermolecular recognition site; other site 207559004115 dimerization interface [polypeptide binding]; other site 207559004116 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004118 active site 207559004119 phosphorylation site [posttranslational modification] 207559004120 intermolecular recognition site; other site 207559004121 dimerization interface [polypeptide binding]; other site 207559004122 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 207559004123 dimer interface [polypeptide binding]; other site 207559004124 phosphorylation site [posttranslational modification] 207559004125 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004126 ATP binding site [chemical binding]; other site 207559004127 Mg2+ binding site [ion binding]; other site 207559004128 G-X-G motif; other site 207559004129 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004131 active site 207559004132 phosphorylation site [posttranslational modification] 207559004133 intermolecular recognition site; other site 207559004134 dimerization interface [polypeptide binding]; other site 207559004135 Helix-turn-helix domains; Region: HTH; cl00088 207559004136 Winged helix-turn helix; Region: HTH_29; pfam13551 207559004137 Helix-turn-helix domains; Region: HTH; cl00088 207559004138 Integrase core domain; Region: rve; cl01316 207559004139 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559004140 CobD/Cbib protein; Region: CobD_Cbib; cl00561 207559004141 flavoprotein, HI0933 family; Region: TIGR00275 207559004142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004144 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 207559004145 Cytochrome P450; Region: p450; pfam00067 207559004146 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 207559004147 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 207559004148 G1 box; other site 207559004149 putative GEF interaction site [polypeptide binding]; other site 207559004150 GTP/Mg2+ binding site [chemical binding]; other site 207559004151 Switch I region; other site 207559004152 G2 box; other site 207559004153 G3 box; other site 207559004154 Switch II region; other site 207559004155 G4 box; other site 207559004156 G5 box; other site 207559004157 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 207559004158 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 207559004159 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559004160 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559004161 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 207559004162 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 207559004163 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559004164 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 207559004165 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559004166 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004167 ligand binding site [chemical binding]; other site 207559004168 PilZ domain; Region: PilZ; cl01260 207559004169 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559004170 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 207559004171 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559004172 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 207559004173 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 207559004174 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 207559004175 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 207559004176 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 207559004177 dimer interface [polypeptide binding]; other site 207559004178 ssDNA binding site [nucleotide binding]; other site 207559004179 tetramer (dimer of dimers) interface [polypeptide binding]; other site 207559004180 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 207559004181 Helix-turn-helix domains; Region: HTH; cl00088 207559004182 Bacterial transcriptional regulator; Region: IclR; pfam01614 207559004183 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 207559004184 alanine racemase; Reviewed; Region: alr; PRK00053 207559004185 active site 207559004186 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559004187 dimer interface [polypeptide binding]; other site 207559004188 substrate binding site [chemical binding]; other site 207559004189 catalytic residues [active] 207559004190 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559004191 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559004192 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559004193 DctM-like transporters; Region: DctM; pfam06808 207559004194 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 207559004195 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 207559004196 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559004197 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 207559004198 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559004199 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559004200 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 207559004201 Walker A motif; other site 207559004202 ATP binding site [chemical binding]; other site 207559004203 Walker B motif; other site 207559004204 arginine finger; other site 207559004205 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 207559004206 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 207559004207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004208 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 207559004209 thiS-thiF/thiG interaction site; other site 207559004210 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; cl09108 207559004211 phosphate binding site [ion binding]; other site 207559004212 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 207559004213 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 207559004214 FeS/SAM binding site; other site 207559004215 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559004216 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 207559004217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004218 ATP binding site [chemical binding]; other site 207559004219 substrate interface [chemical binding]; other site 207559004220 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 207559004221 thiamine phosphate binding site [chemical binding]; other site 207559004222 active site 207559004223 pyrophosphate binding site [ion binding]; other site 207559004224 Phospholipid methyltransferase; Region: PEMT; cl00763 207559004225 Helix-turn-helix domains; Region: HTH; cl00088 207559004226 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559004227 Helix-turn-helix domains; Region: HTH; cl00088 207559004228 WHG domain; Region: WHG; pfam13305 207559004229 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559004230 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 207559004231 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559004232 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 207559004233 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 207559004234 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 207559004235 ATP binding site [chemical binding]; other site 207559004236 putative Mg++ binding site [ion binding]; other site 207559004237 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 207559004238 nucleotide binding region [chemical binding]; other site 207559004239 ATP-binding site [chemical binding]; other site 207559004240 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 207559004241 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004242 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004243 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004244 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 207559004245 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 207559004246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004247 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 207559004248 synthetase active site [active] 207559004249 NTP binding site [chemical binding]; other site 207559004250 metal binding site [ion binding]; metal-binding site 207559004251 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 207559004252 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 207559004253 flagellin; Provisional; Region: PRK12802 207559004254 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004255 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004256 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559004257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004258 active site 207559004259 phosphorylation site [posttranslational modification] 207559004260 intermolecular recognition site; other site 207559004261 CheB methylesterase; Region: CheB_methylest; pfam01339 207559004262 HEAT repeats; Region: HEAT_2; pfam13646 207559004263 HEAT repeats; Region: HEAT_2; pfam13646 207559004264 HEAT repeats; Region: HEAT_2; pfam13646 207559004265 HEAT repeats; Region: HEAT_2; pfam13646 207559004266 HEAT repeats; Region: HEAT_2; pfam13646 207559004267 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 207559004268 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559004269 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559004270 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; cl16911 207559004271 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559004272 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 207559004273 P-loop; other site 207559004274 Magnesium ion binding site [ion binding]; other site 207559004275 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 207559004276 Magnesium ion binding site [ion binding]; other site 207559004277 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559004278 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004280 active site 207559004281 phosphorylation site [posttranslational modification] 207559004282 intermolecular recognition site; other site 207559004283 dimerization interface [polypeptide binding]; other site 207559004284 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 207559004285 putative binding surface; other site 207559004286 active site 207559004287 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 207559004288 putative binding surface; other site 207559004289 active site 207559004290 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 207559004291 putative binding surface; other site 207559004292 active site 207559004293 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559004294 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004295 ATP binding site [chemical binding]; other site 207559004296 Mg2+ binding site [ion binding]; other site 207559004297 G-X-G motif; other site 207559004298 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 207559004299 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559004300 Tetratricopeptide repeat; Region: TPR_6; pfam13174 207559004301 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 207559004302 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 207559004303 HDOD domain; Region: HDOD; pfam08668 207559004304 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004305 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559004306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004307 active site 207559004308 phosphorylation site [posttranslational modification] 207559004309 intermolecular recognition site; other site 207559004310 dimerization interface [polypeptide binding]; other site 207559004311 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004312 metal binding site [ion binding]; metal-binding site 207559004313 active site 207559004314 I-site; other site 207559004315 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559004316 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 207559004317 active site 207559004318 Int/Topo IB signature motif; other site 207559004319 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 207559004320 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 207559004321 FMN binding site [chemical binding]; other site 207559004322 substrate binding site [chemical binding]; other site 207559004323 putative catalytic residue [active] 207559004324 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 207559004325 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559004326 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 207559004327 Family description; Region: UvrD_C_2; cl15862 207559004328 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559004329 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 207559004330 active site 207559004331 ADP/pyrophosphate binding site [chemical binding]; other site 207559004332 dimerization interface [polypeptide binding]; other site 207559004333 allosteric effector site; other site 207559004334 fructose-1,6-bisphosphate binding site; other site 207559004335 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559004336 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 207559004337 Probable Catalytic site; other site 207559004338 metal-binding site 207559004339 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559004340 PSP1 C-terminal conserved region; Region: PSP1; cl00770 207559004341 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 207559004342 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 207559004343 active site 207559004344 HIGH motif; other site 207559004345 KMSKS motif; other site 207559004346 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 207559004347 anticodon binding site; other site 207559004348 tRNA binding surface [nucleotide binding]; other site 207559004349 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 207559004350 dimer interface [polypeptide binding]; other site 207559004351 putative tRNA-binding site [nucleotide binding]; other site 207559004352 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559004353 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 207559004354 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 207559004355 Ligand binding site; other site 207559004356 Putative Catalytic site; other site 207559004357 DXD motif; other site 207559004358 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559004359 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 207559004360 G1 box; other site 207559004361 GTP/Mg2+ binding site [chemical binding]; other site 207559004362 Switch I region; other site 207559004363 G2 box; other site 207559004364 G3 box; other site 207559004365 Switch II region; other site 207559004366 G4 box; other site 207559004367 G5 box; other site 207559004368 Nucleoside recognition; Region: Gate; cl00486 207559004369 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559004370 Nucleoside recognition; Region: Gate; cl00486 207559004371 FeoA domain; Region: FeoA; cl00838 207559004372 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 207559004373 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 207559004374 N-terminal plug; other site 207559004375 ligand-binding site [chemical binding]; other site 207559004376 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004378 Walker A/P-loop; other site 207559004379 ATP binding site [chemical binding]; other site 207559004380 Q-loop/lid; other site 207559004381 ABC transporter signature motif; other site 207559004382 Walker B; other site 207559004383 D-loop; other site 207559004384 H-loop/switch region; other site 207559004385 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 207559004386 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559004387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004388 Walker A/P-loop; other site 207559004389 ATP binding site [chemical binding]; other site 207559004390 Q-loop/lid; other site 207559004391 ABC transporter signature motif; other site 207559004392 Walker B; other site 207559004393 D-loop; other site 207559004394 H-loop/switch region; other site 207559004395 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 207559004396 Ligand Binding Site [chemical binding]; other site 207559004397 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 207559004398 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 207559004399 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 207559004400 nucleophilic elbow; other site 207559004401 catalytic triad; other site 207559004402 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004403 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004404 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004405 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 207559004406 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004407 active site 207559004408 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004409 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559004410 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; cl16911 207559004411 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 207559004412 NADP binding site [chemical binding]; other site 207559004413 active site 207559004414 Condensation domain; Region: Condensation; pfam00668 207559004415 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004416 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004417 AMP-binding enzyme; Region: AMP-binding; cl15778 207559004418 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 207559004419 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004420 Thioesterase domain; Region: Thioesterase; pfam00975 207559004421 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004422 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 207559004423 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 207559004424 active site 207559004425 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559004426 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559004427 peptide synthase; Provisional; Region: PRK12316 207559004428 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004429 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004430 AMP-binding enzyme; Region: AMP-binding; cl15778 207559004431 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004432 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 207559004433 Nonribosomal peptide synthase; Region: NRPS; pfam08415 207559004434 AMP-binding enzyme; Region: AMP-binding; cl15778 207559004435 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 207559004436 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559004437 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559004438 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559004439 Transcriptional regulators [Transcription]; Region: FadR; COG2186 207559004440 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559004441 DNA-binding site [nucleotide binding]; DNA binding site 207559004442 FCD domain; Region: FCD; cl11656 207559004443 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559004444 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 207559004445 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004446 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 207559004447 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559004448 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004449 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559004450 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 207559004451 catalytic triad [active] 207559004452 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559004453 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 207559004454 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 207559004455 putative metal binding site [ion binding]; other site 207559004456 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 207559004457 ABC-ATPase subunit interface; other site 207559004458 dimer interface [polypeptide binding]; other site 207559004459 putative PBP binding regions; other site 207559004460 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559004461 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 207559004462 Walker A/P-loop; other site 207559004463 ATP binding site [chemical binding]; other site 207559004464 Q-loop/lid; other site 207559004465 ABC transporter signature motif; other site 207559004466 Walker B; other site 207559004467 D-loop; other site 207559004468 H-loop/switch region; other site 207559004469 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 207559004470 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 207559004471 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559004472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004473 dimer interface [polypeptide binding]; other site 207559004474 putative CheW interface [polypeptide binding]; other site 207559004475 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 207559004476 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 207559004477 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004479 metal binding site [ion binding]; metal-binding site 207559004480 active site 207559004481 I-site; other site 207559004482 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559004483 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 207559004484 putative active site [active] 207559004485 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 207559004486 TPR motif; other site 207559004487 binding surface 207559004488 TPR repeat; Region: TPR_11; pfam13414 207559004489 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004491 active site 207559004492 phosphorylation site [posttranslational modification] 207559004493 intermolecular recognition site; other site 207559004494 dimerization interface [polypeptide binding]; other site 207559004495 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 207559004496 PAS domain; Region: PAS_9; pfam13426 207559004497 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 207559004498 PAS fold; Region: PAS; pfam00989 207559004499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004500 metal binding site [ion binding]; metal-binding site 207559004501 active site 207559004502 I-site; other site 207559004503 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 207559004504 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 207559004505 active site 207559004506 (T/H)XGH motif; other site 207559004507 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 207559004508 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 207559004509 putative catalytic cysteine [active] 207559004510 Nif-specific regulatory protein; Region: nifA; TIGR01817 207559004511 GAF domain; Region: GAF; cl15785 207559004512 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 207559004513 Walker A motif; other site 207559004514 ATP binding site [chemical binding]; other site 207559004515 Walker B motif; other site 207559004516 arginine finger; other site 207559004517 Helix-turn-helix domains; Region: HTH; cl00088 207559004518 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 207559004519 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559004520 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 207559004521 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 207559004522 TPP-binding site [chemical binding]; other site 207559004523 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 207559004524 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 207559004525 dimer interface [polypeptide binding]; other site 207559004526 PYR/PP interface [polypeptide binding]; other site 207559004527 TPP binding site [chemical binding]; other site 207559004528 substrate binding site [chemical binding]; other site 207559004529 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559004530 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559004531 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559004532 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 207559004533 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 207559004534 AMIN domain; Region: AMIN; pfam11741 207559004535 DAK2 domain; Region: Dak2; cl03685 207559004536 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 207559004537 intracellular protease, PfpI family; Region: PfpI; TIGR01382 207559004538 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 207559004539 proposed catalytic triad [active] 207559004540 conserved cys residue [active] 207559004541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004543 putative substrate translocation pore; other site 207559004544 Helix-turn-helix domains; Region: HTH; cl00088 207559004545 Winged helix-turn helix; Region: HTH_29; pfam13551 207559004546 Helix-turn-helix domains; Region: HTH; cl00088 207559004547 Integrase core domain; Region: rve; cl01316 207559004548 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 207559004549 PAS domain; Region: PAS_9; pfam13426 207559004550 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004551 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004552 dimer interface [polypeptide binding]; other site 207559004553 putative CheW interface [polypeptide binding]; other site 207559004554 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 207559004555 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 207559004556 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 207559004557 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559004558 Zn2+ binding site [ion binding]; other site 207559004559 Mg2+ binding site [ion binding]; other site 207559004560 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 207559004561 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004562 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 207559004563 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 207559004564 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 207559004565 tetramer interface [polypeptide binding]; other site 207559004566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559004567 catalytic residue [active] 207559004568 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 207559004569 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 207559004570 putative active site [active] 207559004571 putative metal binding site [ion binding]; other site 207559004572 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 207559004573 chaperone protein DnaJ; Provisional; Region: PRK14299 207559004574 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 207559004575 HSP70 interaction site [polypeptide binding]; other site 207559004576 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 207559004577 substrate binding site [polypeptide binding]; other site 207559004578 dimer interface [polypeptide binding]; other site 207559004579 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 207559004580 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559004581 DNA binding residues [nucleotide binding] 207559004582 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 207559004583 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004584 Clp amino terminal domain; Region: Clp_N; pfam02861 207559004585 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 207559004586 Walker A motif; other site 207559004587 ATP binding site [chemical binding]; other site 207559004588 Walker B motif; other site 207559004589 arginine finger; other site 207559004590 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 207559004591 Walker A motif; other site 207559004592 ATP binding site [chemical binding]; other site 207559004593 Walker B motif; other site 207559004594 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 207559004595 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 207559004596 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 207559004597 substrate binding site [chemical binding]; other site 207559004598 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 207559004599 Aspartase; Region: Aspartase; cd01357 207559004600 active sites [active] 207559004601 tetramer interface [polypeptide binding]; other site 207559004602 Putative cyclase; Region: Cyclase; cl00814 207559004603 Cache domain; Region: Cache_1; pfam02743 207559004604 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 207559004605 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 207559004606 PAS domain; Region: PAS_9; pfam13426 207559004607 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004608 dimer interface [polypeptide binding]; other site 207559004609 putative CheW interface [polypeptide binding]; other site 207559004610 Tetratricopeptide repeat; Region: TPR_16; pfam13432 207559004611 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 207559004612 binding surface 207559004613 TPR motif; other site 207559004614 TPR repeat; Region: TPR_11; pfam13414 207559004615 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 207559004616 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 207559004617 Walker A motif; other site 207559004618 homodimer interface [polypeptide binding]; other site 207559004619 ATP binding site [chemical binding]; other site 207559004620 hydroxycobalamin binding site [chemical binding]; other site 207559004621 Walker B motif; other site 207559004622 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 207559004623 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 207559004624 FeS/SAM binding site; other site 207559004625 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 207559004626 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 207559004627 dimerization interface [polypeptide binding]; other site 207559004628 putative ATP binding site [chemical binding]; other site 207559004629 putative transposase OrfB; Reviewed; Region: PHA02517 207559004630 Integrase core domain; Region: rve; cl01316 207559004631 Integrase core domain; Region: rve_3; cl15866 207559004632 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 207559004633 Radical SAM superfamily; Region: Radical_SAM; pfam04055 207559004634 FeS/SAM binding site; other site 207559004635 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 207559004636 ThiC family; Region: ThiC; cl08031 207559004637 glycerate dehydrogenase; Provisional; Region: PRK06487 207559004638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004639 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 207559004640 AsmA-like C-terminal region; Region: AsmA_2; cl15864 207559004641 AsmA-like C-terminal region; Region: AsmA_2; cl15864 207559004642 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559004643 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 207559004644 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 207559004645 phosphorylation site [posttranslational modification] 207559004646 dimer interface [polypeptide binding]; other site 207559004647 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004648 ATP binding site [chemical binding]; other site 207559004649 Mg2+ binding site [ion binding]; other site 207559004650 G-X-G motif; other site 207559004651 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559004652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004653 active site 207559004654 phosphorylation site [posttranslational modification] 207559004655 intermolecular recognition site; other site 207559004656 dimerization interface [polypeptide binding]; other site 207559004657 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 207559004658 Walker A motif; other site 207559004659 ATP binding site [chemical binding]; other site 207559004660 Walker B motif; other site 207559004661 arginine finger; other site 207559004662 Helix-turn-helix domains; Region: HTH; cl00088 207559004663 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 207559004664 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 207559004665 metal ion-dependent adhesion site (MIDAS); other site 207559004666 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004667 ligand binding site [chemical binding]; other site 207559004668 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 207559004669 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 207559004670 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559004671 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559004672 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 207559004673 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 207559004674 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004675 catalytic residue [active] 207559004676 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 207559004677 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 207559004678 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559004679 catalytic residue [active] 207559004680 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 207559004681 lipoyl attachment site [posttranslational modification]; other site 207559004682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004683 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004684 active site 207559004685 phosphorylation site [posttranslational modification] 207559004686 intermolecular recognition site; other site 207559004687 dimerization interface [polypeptide binding]; other site 207559004688 phosphoglucomutase; Validated; Region: PRK07564 207559004689 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 207559004690 active site 207559004691 substrate binding site [chemical binding]; other site 207559004692 metal binding site [ion binding]; metal-binding site 207559004693 Haemolysin-III related; Region: HlyIII; cl03831 207559004694 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 207559004695 dimer interface [polypeptide binding]; other site 207559004696 phosphorylation site [posttranslational modification] 207559004697 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559004698 ATP binding site [chemical binding]; other site 207559004699 Mg2+ binding site [ion binding]; other site 207559004700 G-X-G motif; other site 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 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 207559004708 GTP-binding protein YchF; Reviewed; Region: PRK09601 207559004709 YchF GTPase; Region: YchF; cd01900 207559004710 G1 box; other site 207559004711 GTP/Mg2+ binding site [chemical binding]; other site 207559004712 Switch I region; other site 207559004713 G2 box; other site 207559004714 Switch II region; other site 207559004715 G3 box; other site 207559004716 G4 box; other site 207559004717 G5 box; other site 207559004718 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 207559004719 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004720 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559004721 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004722 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 207559004723 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559004724 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 207559004725 putative binding surface; other site 207559004726 active site 207559004727 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 207559004728 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 207559004729 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 207559004730 FeS/SAM binding site; other site 207559004731 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 207559004732 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 207559004733 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559004734 putative substrate translocation pore; other site 207559004735 Major Facilitator Superfamily; Region: MFS_1; pfam07690 207559004736 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559004737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004738 DRTGG domain; Region: DRTGG; cl12147 207559004739 ribonuclease III; Reviewed; Region: rnc; PRK00102 207559004740 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 207559004741 dimerization interface [polypeptide binding]; other site 207559004742 active site 207559004743 metal binding site [ion binding]; metal-binding site 207559004744 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 207559004745 dsRNA binding site [nucleotide binding]; other site 207559004746 flagellin; Provisional; Region: PRK12802 207559004747 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559004748 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559004749 FlaG protein; Region: FlaG; cl00591 207559004750 Flagellar hook protein FlgE [Cell motility and secretion]; Region: FlgE; COG1749 207559004751 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559004752 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 207559004753 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559004754 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 207559004755 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 207559004756 FlgD Ig-like domain; Region: FlgD_ig; cl15790 207559004757 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 207559004758 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 207559004759 putative active site [active] 207559004760 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559004761 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 207559004762 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 207559004763 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 207559004764 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559004765 ligand binding site [chemical binding]; other site 207559004766 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559004767 Protein of unknown function (DUF342); Region: DUF342; pfam03961 207559004768 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 207559004769 anti sigma factor interaction site; other site 207559004770 regulatory phosphorylation site [posttranslational modification]; other site 207559004771 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004772 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004773 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004774 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 207559004775 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559004776 Response regulator receiver domain; Region: Response_reg; pfam00072 207559004777 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559004778 active site 207559004779 phosphorylation site [posttranslational modification] 207559004780 intermolecular recognition site; other site 207559004781 dimerization interface [polypeptide binding]; other site 207559004782 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 207559004783 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 207559004784 putative active site [active] 207559004785 dimerization interface [polypeptide binding]; other site 207559004786 putative tRNAtyr binding site [nucleotide binding]; other site 207559004787 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 207559004788 AMP-binding enzyme; Region: AMP-binding; cl15778 207559004789 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559004790 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 207559004791 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 207559004792 substrate binding site; other site 207559004793 dimer interface; other site 207559004794 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 207559004795 homotrimer interaction site [polypeptide binding]; other site 207559004796 zinc binding site [ion binding]; other site 207559004797 CDP-binding sites; other site 207559004798 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 207559004799 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 in DNA...; Region: TOP4c; cl00148 207559004800 Putative zinc ribbon domain; Region: DUF164; pfam02591 207559004801 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 207559004802 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 207559004803 Int/Topo IB signature motif; other site 207559004804 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559004805 BRO family, N-terminal domain; Region: Bro-N; cl10591 207559004806 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559004807 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 207559004808 catalytic residues [active] 207559004809 catalytic nucleophile [active] 207559004810 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559004811 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559004812 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559004813 Synaptic Site I dimer interface [polypeptide binding]; other site 207559004814 DNA binding site [nucleotide binding] 207559004815 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 207559004816 DNA-binding interface [nucleotide binding]; DNA binding site 207559004817 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559004818 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559004819 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 207559004820 putative dimer interface [polypeptide binding]; other site 207559004821 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559004822 BRO family, N-terminal domain; Region: Bro-N; cl10591 207559004823 Restriction endonuclease [Defense mechanisms]; Region: COG3587 207559004824 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 207559004825 ATP binding site [chemical binding]; other site 207559004826 putative Mg++ binding site [ion binding]; other site 207559004827 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 207559004828 Helix-turn-helix domains; Region: HTH; cl00088 207559004829 putative transposase OrfB; Reviewed; Region: PHA02517 207559004830 HTH-like domain; Region: HTH_21; pfam13276 207559004831 Integrase core domain; Region: rve; cl01316 207559004832 Integrase core domain; Region: rve_3; cl15866 207559004833 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 207559004834 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 207559004835 putative active site [active] 207559004836 catalytic site [active] 207559004837 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 207559004838 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 207559004839 ATP binding site [chemical binding]; other site 207559004840 putative Mg++ binding site [ion binding]; other site 207559004841 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 207559004842 nucleotide binding region [chemical binding]; other site 207559004843 ATP-binding site [chemical binding]; other site 207559004844 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 207559004845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004847 dimer interface [polypeptide binding]; other site 207559004848 putative CheW interface [polypeptide binding]; other site 207559004849 Heme NO binding; Region: HNOB; cl15268 207559004850 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 207559004851 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559004852 Cache domain; Region: Cache_2; cl07034 207559004853 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 207559004854 dimerization interface [polypeptide binding]; other site 207559004855 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559004856 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559004857 dimer interface [polypeptide binding]; other site 207559004858 putative CheW interface [polypeptide binding]; other site 207559004859 Oligomerisation domain; Region: Oligomerisation; cl00519 207559004860 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 207559004861 Sulfatase; Region: Sulfatase; cl10460 207559004862 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 207559004863 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 207559004864 putative active site [active] 207559004865 catalytic triad [active] 207559004866 CTP synthetase; Validated; Region: pyrG; PRK05380 207559004867 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 207559004868 Catalytic site [active] 207559004869 active site 207559004870 UTP binding site [chemical binding]; other site 207559004871 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 207559004872 active site 207559004873 putative oxyanion hole; other site 207559004874 catalytic triad [active] 207559004875 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 207559004876 NeuB family; Region: NeuB; cl00496 207559004877 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 207559004878 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559004879 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 207559004880 OstA-like protein; Region: OstA; cl00844 207559004881 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 207559004882 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 207559004883 Walker A/P-loop; other site 207559004884 ATP binding site [chemical binding]; other site 207559004885 Q-loop/lid; other site 207559004886 ABC transporter signature motif; other site 207559004887 Walker B; other site 207559004888 D-loop; other site 207559004889 H-loop/switch region; other site 207559004890 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 207559004891 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 207559004892 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 207559004893 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 207559004894 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 A site; Region: RaiA; cd00552 207559004895 30S subunit binding site; other site 207559004896 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 207559004897 active site 207559004898 phosphorylation site [posttranslational modification] 207559004899 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 207559004900 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 207559004901 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 207559004902 active pocket/dimerization site; other site 207559004903 active site 207559004904 phosphorylation site [posttranslational modification] 207559004905 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cl00021 207559004906 active site 207559004907 phosphorylation site [posttranslational modification] 207559004908 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 207559004909 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 207559004910 DHHA2 domain; Region: DHHA2; pfam02833 207559004911 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 207559004912 nucleoside/Zn binding site; other site 207559004913 dimer interface [polypeptide binding]; other site 207559004914 catalytic motif [active] 207559004915 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 207559004916 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 207559004917 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559004918 Beta-Casp domain; Region: Beta-Casp; cl12567 207559004919 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 207559004920 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 207559004921 S-adenosylmethionine binding site [chemical binding]; other site 207559004922 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 207559004923 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 207559004924 active site 207559004925 (T/H)XGH motif; other site 207559004926 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004927 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 207559004928 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 207559004929 binding surface 207559004930 TPR motif; other site 207559004931 TPR repeat; Region: TPR_11; pfam13414 207559004932 Stage II sporulation protein; Region: SpoIID; pfam08486 207559004933 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 207559004934 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 207559004935 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 207559004936 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 catalyze...; Region: LT_GEWL; cd00254 207559004937 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559004938 catalytic residue [active] 207559004939 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 207559004940 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 207559004941 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 207559004942 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 207559004943 Active Sites [active] 207559004944 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 207559004945 Ferritin-like domain; Region: Ferritin; pfam00210 207559004946 ferroxidase diiron center [ion binding]; other site 207559004947 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 207559004948 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559004949 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 207559004950 dimer interface [polypeptide binding]; other site 207559004951 PYR/PP interface [polypeptide binding]; other site 207559004952 TPP binding site [chemical binding]; other site 207559004953 substrate binding site [chemical binding]; other site 207559004954 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 207559004955 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 207559004956 TPP-binding site [chemical binding]; other site 207559004957 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 207559004958 DsrE/DsrF-like family; Region: DrsE; cl00672 207559004959 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 207559004960 putative active site [active] 207559004961 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 207559004962 dihydrodipicolinate synthase; Region: dapA; TIGR00674 207559004963 dimer interface [polypeptide binding]; other site 207559004964 active site 207559004965 catalytic residue [active] 207559004966 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 207559004967 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 207559004968 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 207559004969 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 207559004970 IHF - DNA interface [nucleotide binding]; other site 207559004971 IHF dimer interface [polypeptide binding]; other site 207559004972 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559004973 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559004974 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 207559004975 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004976 metal binding site [ion binding]; metal-binding site 207559004977 active site 207559004978 I-site; other site 207559004979 Transposase domain (DUF772); Region: DUF772; pfam05598 207559004980 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559004981 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559004982 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559004983 peptide chain release factor 2; Validated; Region: prfB; PRK00578 207559004984 RF-1 domain; Region: RF-1; cl02875 207559004985 RF-1 domain; Region: RF-1; cl02875 207559004986 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 207559004987 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 207559004988 putative active site [active] 207559004989 catalytic triad [active] 207559004990 putative dimer interface [polypeptide binding]; other site 207559004991 FOG: CBS domain [General function prediction only]; Region: COG0517 207559004992 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 207559004993 Transporter associated domain; Region: CorC_HlyC; cl08393 207559004994 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 207559004995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559004996 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 207559004997 diaminopimelate aminotransferase; Provisional; Region: PRK13983 207559004998 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like1; cd05650 207559004999 metal binding site [ion binding]; metal-binding site 207559005000 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 207559005001 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 207559005002 active site 207559005003 putative substrate binding pocket [chemical binding]; other site 207559005004 Esterase/lipase [General function prediction only]; Region: COG1647 207559005005 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 207559005006 4Fe-4S binding domain; Region: Fer4; cl02805 207559005007 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 207559005008 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 207559005009 active site 207559005010 FMN binding site [chemical binding]; other site 207559005011 substrate binding site [chemical binding]; other site 207559005012 3Fe-4S cluster binding site [ion binding]; other site 207559005013 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 207559005014 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 207559005015 putative active site [active] 207559005016 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 207559005017 putative subunit interface; other site 207559005018 Preprotein translocase subunit; Region: YajC; cl00806 207559005019 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 207559005020 Protein export membrane protein; Region: SecD_SecF; cl14618 207559005021 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 207559005022 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 207559005023 Protein export membrane protein; Region: SecD_SecF; cl14618 207559005024 Cytochrome c; Region: Cytochrom_C; cl11414 207559005025 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 207559005026 Cu(I) binding site [ion binding]; other site 207559005027 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 207559005028 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 207559005029 D-pathway; other site 207559005030 Low-spin heme binding site [chemical binding]; other site 207559005031 Putative water exit pathway; other site 207559005032 Binuclear center (active site) [active] 207559005033 K-pathway; other site 207559005034 Putative proton exit pathway; other site 207559005035 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 207559005036 Subunit I/III interface [polypeptide binding]; other site 207559005037 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 207559005038 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 207559005039 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 207559005040 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 207559005041 Cytochrome c; Region: Cytochrom_C; cl11414 207559005042 UbiA prenyltransferase family; Region: UbiA; cl00337 207559005043 L-aspartate oxidase; Provisional; Region: PRK09077 207559005044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005045 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 207559005046 Quinolinate synthetase A protein; Region: NadA; cl00420 207559005047 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 207559005048 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 207559005049 dimerization interface [polypeptide binding]; other site 207559005050 active site 207559005051 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 207559005052 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559005053 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 207559005054 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 207559005055 GAF domain; Region: GAF; cl15785 207559005056 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005057 metal binding site [ion binding]; metal-binding site 207559005058 active site 207559005059 I-site; other site 207559005060 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 207559005061 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 207559005062 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559005063 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 207559005064 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; cl12031 207559005065 MarC family integral membrane protein; Region: MarC; cl00919 207559005066 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 207559005067 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 207559005068 putative NAD(P) binding site [chemical binding]; other site 207559005069 homodimer interface [polypeptide binding]; other site 207559005070 homotetramer interface [polypeptide binding]; other site 207559005071 active site 207559005072 Cysteine-rich domain; Region: CCG; pfam02754 207559005073 Cysteine-rich domain; Region: CCG; pfam02754 207559005074 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559005075 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 207559005076 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 207559005077 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 207559005078 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 207559005079 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 207559005080 PilZ domain; Region: PilZ; cl01260 207559005081 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 207559005082 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559005083 metal binding site [ion binding]; metal-binding site 207559005084 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559005085 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 207559005086 putative ADP-binding pocket [chemical binding]; other site 207559005087 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 207559005088 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 207559005089 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559005090 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559005091 Peptidase family M48; Region: Peptidase_M48; cl12018 207559005092 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559005093 Protein of unknown function (DUF511); Region: DUF511; cl01114 207559005094 Restriction endonuclease; Region: Mrr_cat; cl00516 207559005095 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559005096 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559005097 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 207559005098 ATP binding site [chemical binding]; other site 207559005099 putative Mg++ binding site [ion binding]; other site 207559005100 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559005101 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559005102 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559005103 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; cl16911 207559005104 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559005105 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 207559005106 putative active site pocket [active] 207559005107 dimerization interface [polypeptide binding]; other site 207559005108 putative catalytic residue [active] 207559005109 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 207559005110 active site 207559005111 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 207559005112 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 207559005113 NADH dehydrogenase subunit G; Validated; Region: PRK08166 207559005114 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 207559005115 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559005116 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559005117 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 207559005118 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 207559005119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 207559005120 PAAR motif; Region: PAAR_motif; cl15808 207559005121 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 207559005122 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 207559005123 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559005124 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 207559005125 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 207559005126 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 207559005127 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 207559005128 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559005129 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 207559005130 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559005131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559005132 putative active site [active] 207559005133 putative metal binding site [ion binding]; other site 207559005134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005135 Helix-turn-helix domains; Region: HTH; cl00088 207559005136 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 207559005137 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 207559005138 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 207559005139 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 207559005140 motif II; other site 207559005141 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 207559005142 Dihaem cytochrome c; Region: DHC; pfam09626 207559005143 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 207559005144 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 207559005145 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; cl16911 207559005146 bZIP transcription factor; Region: bZIP_1; cl02576 207559005147 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559005148 Phage portal protein; Region: Phage_portal; pfam04860 207559005149 Terminase-like family; Region: Terminase_6; pfam03237 207559005150 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 207559005151 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 207559005152 active site 207559005153 DNA binding site [nucleotide binding] 207559005154 Int/Topo IB signature motif; other site 207559005155 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 207559005156 RloB-like protein; Region: RloB; pfam13707 207559005157 Predicted ATPases [General function prediction only]; Region: COG1106 207559005158 DNA primase, catalytic core; Region: dnaG; TIGR01391 207559005159 CHC2 zinc finger; Region: zf-CHC2; cl15369 207559005160 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559005161 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 207559005162 active site 207559005163 metal binding site [ion binding]; metal-binding site 207559005164 interdomain interaction site; other site 207559005165 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 207559005166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559005167 Family description; Region: UvrD_C_2; cl15862 207559005168 ERCC4 domain; Region: ERCC4; cl10594 207559005169 Protein of unknown function (DUF669); Region: DUF669; pfam05037 207559005170 AAA domain; Region: AAA_24; pfam13479 207559005171 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 207559005172 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 207559005173 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559005174 Helix-turn-helix domains; Region: HTH; cl00088 207559005175 LexA repressor; Validated; Region: PRK00215 207559005176 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 207559005177 Catalytic site [active] 207559005178 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 207559005179 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559005180 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 207559005181 catalytic residues [active] 207559005182 catalytic nucleophile [active] 207559005183 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559005184 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559005185 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559005186 Synaptic Site I dimer interface [polypeptide binding]; other site 207559005187 DNA binding site [nucleotide binding] 207559005188 Recombinase; Region: Recombinase; pfam07508 207559005189 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559005190 Response regulator receiver domain; Region: Response_reg; pfam00072 207559005191 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005192 active site 207559005193 phosphorylation site [posttranslational modification] 207559005194 intermolecular recognition site; other site 207559005195 dimerization interface [polypeptide binding]; other site 207559005196 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 207559005197 dimer interface [polypeptide binding]; other site 207559005198 phosphorylation site [posttranslational modification] 207559005199 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559005200 ATP binding site [chemical binding]; other site 207559005201 Mg2+ binding site [ion binding]; other site 207559005202 G-X-G motif; other site 207559005203 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559005204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005205 active site 207559005206 phosphorylation site [posttranslational modification] 207559005207 intermolecular recognition site; other site 207559005208 dimerization interface [polypeptide binding]; other site 207559005209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559005210 Zn2+ binding site [ion binding]; other site 207559005211 Mg2+ binding site [ion binding]; other site 207559005212 Helix-turn-helix domains; Region: HTH; cl00088 207559005213 Winged helix-turn helix; Region: HTH_29; pfam13551 207559005214 Helix-turn-helix domains; Region: HTH; cl00088 207559005215 Integrase core domain; Region: rve; cl01316 207559005216 Bacitracin resistance protein BacA; Region: BacA; cl00858 207559005217 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 207559005218 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 207559005219 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 207559005220 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 207559005221 G1 box; other site 207559005222 GTP/Mg2+ binding site [chemical binding]; other site 207559005223 Switch I region; other site 207559005224 G2 box; other site 207559005225 G3 box; other site 207559005226 Switch II region; other site 207559005227 G4 box; other site 207559005228 G5 box; other site 207559005229 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 207559005230 trimer interface [polypeptide binding]; other site 207559005231 active site 207559005232 dimer interface [polypeptide binding]; other site 207559005233 elongation factor P; Validated; Region: PRK00529 207559005234 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 207559005235 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 207559005236 RNA binding site [nucleotide binding]; other site 207559005237 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 207559005238 RNA binding site [nucleotide binding]; other site 207559005239 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 207559005240 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559005241 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 207559005242 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 207559005243 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 207559005244 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 207559005245 active site 207559005246 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 207559005247 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 207559005248 CPxP motif; other site 207559005249 DsrE/DsrF-like family; Region: DrsE; cl00672 207559005250 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 207559005251 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 207559005252 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 207559005253 Walker A/P-loop; other site 207559005254 ATP binding site [chemical binding]; other site 207559005255 Q-loop/lid; other site 207559005256 ABC transporter signature motif; other site 207559005257 Walker B; other site 207559005258 D-loop; other site 207559005259 H-loop/switch region; other site 207559005260 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 207559005261 putative acyl-acceptor binding pocket; other site 207559005262 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 207559005263 putative acyl-acceptor binding pocket; other site 207559005264 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 207559005265 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 207559005266 catalytic center binding site [active] 207559005267 ATP binding site [chemical binding]; other site 207559005268 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 207559005269 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 207559005270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559005271 homodimer interface [polypeptide binding]; other site 207559005272 catalytic residue [active] 207559005273 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 207559005274 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 207559005275 active site 207559005276 Int/Topo IB signature motif; other site 207559005277 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559005278 DHH family; Region: DHH; pfam01368 207559005279 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005280 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 207559005281 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 207559005282 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 207559005283 active site 207559005284 NTP binding site [chemical binding]; other site 207559005285 metal binding triad [ion binding]; metal-binding site 207559005286 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559005287 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 207559005288 nucleotide binding site/active site [active] 207559005289 HIT family signature motif; other site 207559005290 catalytic residue [active] 207559005291 tetratricopeptide repeat protein; Provisional; Region: PRK11788 207559005292 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 207559005293 TPR motif; other site 207559005294 binding surface 207559005295 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 207559005296 binding surface 207559005297 TPR motif; other site 207559005298 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 207559005299 MutS domain I; Region: MutS_I; pfam01624 207559005300 MutS domain II; Region: MutS_II; pfam05188 207559005301 MutS family domain IV; Region: MutS_IV; pfam05190 207559005302 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 207559005303 Walker A/P-loop; other site 207559005304 ATP binding site [chemical binding]; other site 207559005305 Q-loop/lid; other site 207559005306 ABC transporter signature motif; other site 207559005307 Walker B; other site 207559005308 D-loop; other site 207559005309 H-loop/switch region; other site 207559005310 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559005311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559005312 active site 207559005313 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559005314 substrate binding site [chemical binding]; other site 207559005315 catalytic residues [active] 207559005316 dimer interface [polypeptide binding]; other site 207559005317 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 207559005318 active site 207559005319 dimer interfaces [polypeptide binding]; other site 207559005320 catalytic residues [active] 207559005321 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559005322 Predicted transcriptional regulator [Transcription]; Region: COG2932 207559005323 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 207559005324 Catalytic site [active] 207559005325 Protein of unknown function (DUF330); Region: DUF330; cl01135 207559005326 paraquat-inducible protein B; Provisional; Region: PRK10807 207559005327 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559005328 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 207559005329 Walker A/P-loop; other site 207559005330 ATP binding site [chemical binding]; other site 207559005331 Q-loop/lid; other site 207559005332 ABC transporter signature motif; other site 207559005333 Walker B; other site 207559005334 D-loop; other site 207559005335 H-loop/switch region; other site 207559005336 Permease; Region: Permease; cl00510 207559005337 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 207559005338 active site 207559005339 Preprotein translocase SecG subunit; Region: SecG; cl09123 207559005340 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 207559005341 substrate binding site [chemical binding]; other site 207559005342 dimer interface [polypeptide binding]; other site 207559005343 catalytic triad [active] 207559005344 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 207559005345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559005346 Coenzyme A binding pocket [chemical binding]; other site 207559005347 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 207559005348 nudix motif; other site 207559005349 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 207559005350 active site 207559005351 dimerization interface [polypeptide binding]; other site 207559005352 rod shape-determining protein MreB; Provisional; Region: PRK13930 207559005353 Cell division protein FtsA; Region: FtsA; cl11496 207559005354 GAF domain; Region: GAF; cl15785 207559005355 GAF domain; Region: GAF_2; pfam13185 207559005356 GAF domain; Region: GAF; cl15785 207559005357 GAF domain; Region: GAF_2; pfam13185 207559005358 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 207559005359 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 207559005360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 207559005361 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 207559005362 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 207559005363 Walker A motif; other site 207559005364 ATP binding site [chemical binding]; other site 207559005365 Walker B motif; other site 207559005366 recombination factor protein RarA; Provisional; Region: PRK14700 207559005367 arginine finger; other site 207559005368 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 207559005369 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 207559005370 outer membrane lipoprotein; Provisional; Region: PRK11023 207559005371 BON domain; Region: BON; cl02771 207559005372 BON domain; Region: BON; cl02771 207559005373 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 207559005374 putative acyl-acceptor binding pocket; other site 207559005375 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559005376 Helix-turn-helix domains; Region: HTH; cl00088 207559005377 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005378 active site 207559005379 HIGH motif; other site 207559005380 nucleotide binding site [chemical binding]; other site 207559005381 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005382 active site 207559005383 KMSKS motif; other site 207559005384 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 207559005385 AAA domain; Region: AAA_32; pfam13654 207559005386 ATP-dependent protease Lon; Provisional; Region: PRK13765 207559005387 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559005388 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 207559005389 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559005390 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 207559005391 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 207559005392 RNA binding site [nucleotide binding]; other site 207559005393 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 207559005394 RNA binding site [nucleotide binding]; other site 207559005395 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 207559005396 RNA binding site [nucleotide binding]; other site 207559005397 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 207559005398 RNA binding site [nucleotide binding]; other site 207559005399 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 207559005400 RNA binding site [nucleotide binding]; other site 207559005401 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; cl12031 207559005402 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 207559005403 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 207559005404 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 207559005405 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 207559005406 protein binding site [polypeptide binding]; other site 207559005407 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 207559005408 protein binding site [polypeptide binding]; other site 207559005409 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 207559005410 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 207559005411 Walker A motif; other site 207559005412 ATP binding site [chemical binding]; other site 207559005413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559005414 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 207559005415 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 207559005416 feedback inhibition sensing region; other site 207559005417 homohexameric interface [polypeptide binding]; other site 207559005418 nucleotide binding site [chemical binding]; other site 207559005419 N-acetyl-L-glutamate binding site [chemical binding]; other site 207559005420 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559005421 active site 207559005422 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 207559005423 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 207559005424 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559005425 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 207559005426 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 207559005427 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 207559005428 putative active site [active] 207559005429 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 207559005430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005431 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 207559005432 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 207559005433 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 207559005434 tRNA; other site 207559005435 putative tRNA binding site [nucleotide binding]; other site 207559005436 putative NADP binding site [chemical binding]; other site 207559005437 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 207559005438 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 207559005439 Ligand Binding Site [chemical binding]; other site 207559005440 adenylate kinase; Provisional; Region: PRK14529 207559005441 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 207559005442 AMP-binding site [chemical binding]; other site 207559005443 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 207559005444 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 207559005445 Cation transport protein; Region: TrkH; cl10514 207559005446 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 207559005447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005448 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; cl15357 207559005449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005450 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; cl15357 207559005451 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 207559005452 Helix-turn-helix domains; Region: HTH; cl00088 207559005453 Winged helix-turn helix; Region: HTH_29; pfam13551 207559005454 Helix-turn-helix domains; Region: HTH; cl00088 207559005455 Integrase core domain; Region: rve; cl01316 207559005456 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 207559005457 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559005458 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 207559005459 dimer interface [polypeptide binding]; other site 207559005460 motif 1; other site 207559005461 active site 207559005462 motif 2; other site 207559005463 motif 3; other site 207559005464 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 207559005465 Recombination protein O N terminal; Region: RecO_N; cl15812 207559005466 Recombination protein O C terminal; Region: RecO_C; pfam02565 207559005467 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559005468 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 207559005469 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 207559005470 SurA N-terminal domain; Region: SurA_N_3; cl07813 207559005471 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559005472 SurA N-terminal domain; Region: SurA_N_3; cl07813 207559005473 PPIC-type PPIASE domain; Region: Rotamase; cl08278 207559005474 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 207559005475 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 207559005476 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 207559005477 ATP binding site [chemical binding]; other site 207559005478 putative Mg++ binding site [ion binding]; other site 207559005479 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 207559005480 nucleotide binding region [chemical binding]; other site 207559005481 ATP-binding site [chemical binding]; other site 207559005482 TRCF domain; Region: TRCF; cl04088 207559005483 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 207559005484 putative CheA interaction surface; other site 207559005485 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 207559005486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005487 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559005488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005489 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 the...; Region: PNPsynthase; cd00003 207559005490 active site 207559005491 hydrophilic channel; other site 207559005492 dimerization interface [polypeptide binding]; other site 207559005493 catalytic residues [active] 207559005494 active site lid [active] 207559005495 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 207559005496 putative carbohydrate kinase; Provisional; Region: PRK10565 207559005497 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 207559005498 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 207559005499 putative substrate binding site [chemical binding]; other site 207559005500 putative ATP binding site [chemical binding]; other site 207559005501 FOG: CBS domain [General function prediction only]; Region: COG0517 207559005502 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 207559005503 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 207559005504 aspartate kinase; Reviewed; Region: PRK06635 207559005505 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 207559005506 putative nucleotide binding site [chemical binding]; other site 207559005507 putative catalytic residues [active] 207559005508 putative Mg ion binding site [ion binding]; other site 207559005509 putative aspartate binding site [chemical binding]; other site 207559005510 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 207559005511 putative allosteric regulatory site; other site 207559005512 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 207559005513 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 207559005514 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 207559005515 active site 207559005516 catalytic residues [active] 207559005517 metal binding site [ion binding]; metal-binding site 207559005518 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 207559005519 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559005520 metal binding site [ion binding]; metal-binding site 207559005521 active site 207559005522 I-site; other site 207559005523 Staphylococcal nuclease homologues; Region: SNc; smart00318 207559005524 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 207559005525 Catalytic site; other site 207559005526 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 207559005527 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 207559005528 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559005529 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559005530 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 207559005531 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 207559005532 DNA binding residues [nucleotide binding] 207559005533 DNA primase; Validated; Region: dnaG; PRK05667 207559005534 CHC2 zinc finger; Region: zf-CHC2; cl15369 207559005535 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 207559005536 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 207559005537 active site 207559005538 metal binding site [ion binding]; metal-binding site 207559005539 interdomain interaction site; other site 207559005540 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 207559005541 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 207559005542 Walker A/P-loop; other site 207559005543 ATP binding site [chemical binding]; other site 207559005544 Q-loop/lid; other site 207559005545 ABC transporter signature motif; other site 207559005546 Walker B; other site 207559005547 D-loop; other site 207559005548 H-loop/switch region; other site 207559005549 Smr domain; Region: Smr; cl02619 207559005550 GatB domain; Region: GatB_Yqey; cl11497 207559005551 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 207559005552 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 207559005553 IHF dimer interface [polypeptide binding]; other site 207559005554 IHF - DNA interface [nucleotide binding]; other site 207559005555 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; cl16911 207559005556 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 207559005557 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 207559005558 active site 207559005559 homotetramer interface [polypeptide binding]; other site 207559005560 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 207559005561 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559005562 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 207559005563 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 207559005564 elongation factor G; Reviewed; Region: PRK12740 207559005565 G1 box; other site 207559005566 putative GEF interaction site [polypeptide binding]; other site 207559005567 GTP/Mg2+ binding site [chemical binding]; other site 207559005568 Switch I region; other site 207559005569 G2 box; other site 207559005570 G3 box; other site 207559005571 Switch II region; other site 207559005572 G4 box; other site 207559005573 G5 box; other site 207559005574 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 207559005575 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 207559005576 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 207559005577 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559005578 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559005579 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559005581 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 207559005582 catalytic residues [active] 207559005583 UGMP family protein; Validated; Region: PRK09604 207559005584 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 207559005585 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 207559005586 AMP binding site [chemical binding]; other site 207559005587 metal binding site [ion binding]; metal-binding site 207559005588 active site 207559005589 cell division protein DedD; Provisional; Region: PRK11633 207559005590 Sporulation related domain; Region: SPOR; cl10051 207559005591 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559005592 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 207559005593 Septum formation initiator; Region: DivIC; cl11433 207559005594 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 207559005595 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 207559005596 Walker A motif; other site 207559005597 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559005598 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 207559005599 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 207559005600 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; cl16911 207559005601 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 207559005602 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559005603 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 207559005604 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 207559005605 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; cl09155 207559005606 pyruvate carboxylase; Reviewed; Region: PRK12999 207559005607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 207559005608 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559005609 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 207559005610 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 207559005611 active site 207559005612 catalytic residues [active] 207559005613 metal binding site [ion binding]; metal-binding site 207559005614 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 207559005615 carboxyltransferase (CT) interaction site; other site 207559005616 biotinylation site [posttranslational modification]; other site 207559005617 birA, biotin-[acetyl-CoA-carboxylase] ligase region; Region: birA_ligase; TIGR00121 207559005618 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559005619 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 207559005620 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 207559005621 metal binding triad [ion binding]; metal-binding site 207559005622 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559005623 AMP-binding enzyme; Region: AMP-binding; cl15778 207559005624 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 207559005625 AMP-binding enzyme; Region: AMP-binding; cl15778 207559005626 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559005627 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559005628 putative glutamate synthase subunit beta; Provisional; Region: PRK12770 207559005629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005630 ACT domain-containing protein [General function prediction only]; Region: COG4747 207559005631 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 207559005632 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 207559005633 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 207559005634 hypothetical protein; Reviewed; Region: PRK09588 207559005635 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 207559005636 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559005637 putative [4Fe-4S] binding site [ion binding]; other site 207559005638 putative molybdopterin cofactor binding site [chemical binding]; other site 207559005639 NAD synthetase; Provisional; Region: PRK13981 207559005640 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 207559005641 multimer interface [polypeptide binding]; other site 207559005642 active site 207559005643 catalytic triad [active] 207559005644 protein interface 1 [polypeptide binding]; other site 207559005645 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 207559005646 homodimer interface [polypeptide binding]; other site 207559005647 NAD binding pocket [chemical binding]; other site 207559005648 ATP binding pocket [chemical binding]; other site 207559005649 Mg binding site [ion binding]; other site 207559005650 active-site loop [active] 207559005651 dihydrodipicolinate reductase; Provisional; Region: PRK00048 207559005652 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005653 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 207559005654 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 207559005655 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 207559005656 nucleotide binding pocket [chemical binding]; other site 207559005657 K-X-D-G motif; other site 207559005658 catalytic site [active] 207559005659 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 207559005660 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 207559005661 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; cl00038 207559005662 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 207559005663 Ion channel; Region: Ion_trans_2; cl11596 207559005664 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 207559005665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005666 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; cl15357 207559005667 excinuclease ABC subunit B; Provisional; Region: PRK05298 207559005668 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 207559005669 ATP binding site [chemical binding]; other site 207559005670 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 207559005671 nucleotide binding region [chemical binding]; other site 207559005672 ATP-binding site [chemical binding]; other site 207559005673 Ultra-violet resistance protein B; Region: UvrB; pfam12344 207559005674 UvrB/uvrC motif; Region: UVR; pfam02151 207559005675 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559005676 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 207559005677 Clp amino terminal domain; Region: Clp_N; pfam02861 207559005678 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 207559005679 Walker A motif; other site 207559005680 ATP binding site [chemical binding]; other site 207559005681 Walker B motif; other site 207559005682 arginine finger; other site 207559005683 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 207559005684 Walker A motif; other site 207559005685 ATP binding site [chemical binding]; other site 207559005686 Walker B motif; other site 207559005687 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 207559005688 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 207559005689 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 207559005690 putative active site [active] 207559005691 putative metal binding residues [ion binding]; other site 207559005692 signature motif; other site 207559005693 putative triphosphate binding site [ion binding]; other site 207559005694 dimer interface [polypeptide binding]; other site 207559005695 CrcB-like protein; Region: CRCB; cl09114 207559005696 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 207559005697 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 207559005698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005699 active site 207559005700 phosphorylation site [posttranslational modification] 207559005701 intermolecular recognition site; other site 207559005702 dimerization interface [polypeptide binding]; other site 207559005703 CheB methylesterase; Region: CheB_methylest; pfam01339 207559005704 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 207559005705 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 207559005706 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; cl16911 207559005707 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 207559005708 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 207559005709 putative binding surface; other site 207559005710 active site 207559005711 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 207559005712 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559005713 ATP binding site [chemical binding]; other site 207559005714 Mg2+ binding site [ion binding]; other site 207559005715 G-X-G motif; other site 207559005716 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 207559005717 Response regulator receiver domain; Region: Response_reg; pfam00072 207559005718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559005719 active site 207559005720 phosphorylation site [posttranslational modification] 207559005721 intermolecular recognition site; other site 207559005722 dimerization interface [polypeptide binding]; other site 207559005723 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 207559005724 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559005725 dimer interface [polypeptide binding]; other site 207559005726 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 207559005727 putative CheW interface [polypeptide binding]; other site 207559005728 DNA repair protein RadA; Provisional; Region: PRK11823 207559005729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559005730 Walker A motif; other site 207559005731 ATP binding site [chemical binding]; other site 207559005732 Walker B motif; other site 207559005733 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559005734 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 207559005735 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 207559005736 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559005737 active site 207559005738 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 207559005739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559005740 Coenzyme A binding pocket [chemical binding]; other site 207559005741 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 207559005742 catalytic residues [active] 207559005743 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 207559005744 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 207559005745 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 207559005746 substrate binding pocket [chemical binding]; other site 207559005747 dimer interface [polypeptide binding]; other site 207559005748 inhibitor binding site; inhibition site 207559005749 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 207559005750 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 207559005751 B12 binding site [chemical binding]; other site 207559005752 cobalt ligand [ion binding]; other site 207559005753 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 207559005754 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 207559005755 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 207559005756 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 207559005757 DNA binding residues [nucleotide binding] 207559005758 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 207559005759 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 207559005760 binding surface 207559005761 TPR motif; other site 207559005762 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 207559005763 binding surface 207559005764 TPR motif; other site 207559005765 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 207559005766 binding surface 207559005767 TPR motif; other site 207559005768 TPR repeat; Region: TPR_11; pfam13414 207559005769 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 207559005770 binding surface 207559005771 TPR motif; other site 207559005772 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 207559005773 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 207559005774 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559005775 active site 207559005776 HIGH motif; other site 207559005777 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 207559005778 KMSKS motif; other site 207559005779 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559005780 tRNA binding surface [nucleotide binding]; other site 207559005781 anticodon binding site; other site 207559005782 Peptidase family M48; Region: Peptidase_M48; cl12018 207559005783 TPR repeat; Region: TPR_11; pfam13414 207559005784 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 207559005785 binding surface 207559005786 TPR motif; other site 207559005787 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 207559005788 putative ADP-ribose binding site [chemical binding]; other site 207559005789 putative active site [active] 207559005790 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 207559005791 active site 207559005792 HslU subunit interaction site [polypeptide binding]; other site 207559005793 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 207559005794 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 207559005795 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 207559005796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559005797 active site 207559005798 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 207559005799 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 207559005800 5S rRNA interface [nucleotide binding]; other site 207559005801 CTC domain interface [polypeptide binding]; other site 207559005802 L16 interface [polypeptide binding]; other site 207559005803 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 207559005804 putative active site [active] 207559005805 catalytic residue [active] 207559005806 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 207559005807 transcription termination factor Rho; Provisional; Region: rho; PRK09376 207559005808 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 207559005809 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 207559005810 RNA binding site [nucleotide binding]; other site 207559005811 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 207559005812 multimer interface [polypeptide binding]; other site 207559005813 Walker A motif; other site 207559005814 ATP binding site [chemical binding]; other site 207559005815 Walker B motif; other site 207559005816 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 207559005817 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 207559005818 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 207559005819 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 207559005820 putative substrate-binding site; other site 207559005821 nickel binding site [ion binding]; other site 207559005822 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559005823 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 207559005824 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 207559005825 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 207559005826 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 207559005827 putative substrate-binding site; other site 207559005828 nickel binding site [ion binding]; other site 207559005829 HupF/HypC family; Region: HupF_HypC; cl00394 207559005830 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 207559005831 active site 207559005832 catalytic triad [active] 207559005833 oxyanion hole [active] 207559005834 switch loop; other site 207559005835 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 207559005836 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559005837 active site 207559005838 HIGH motif; other site 207559005839 nucleotide binding site [chemical binding]; other site 207559005840 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559005841 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 207559005842 active site 207559005843 KMSKS motif; other site 207559005844 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 207559005845 tRNA binding surface [nucleotide binding]; other site 207559005846 anticodon binding site; other site 207559005847 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 207559005848 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 207559005849 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 207559005850 Optic atrophy 3 protein (OPA3); Region: OPA3; pfam07047 207559005851 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 207559005852 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 207559005853 NIL domain; Region: NIL; cl09633 207559005854 4Fe-4S binding domain; Region: Fer4; cl02805 207559005855 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559005856 4Fe-4S binding domain; Region: Fer4; cl02805 207559005857 PilZ domain; Region: PilZ; cl01260 207559005858 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 207559005859 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 207559005860 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 207559005861 Plant ATP synthase F0; Region: YMF19; cl07975 207559005862 CENP-A-nucleosome distal (CAD) centromere subunit; Region: CENP-Q; pfam13094 207559005863 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559005864 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559005865 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559005866 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 207559005867 Gram-negative bacterial tonB protein; Region: TonB; cl10048 207559005868 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 207559005869 TPR motif; other site 207559005870 binding surface 207559005871 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 207559005872 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 207559005873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559005874 dimer interface [polypeptide binding]; other site 207559005875 putative CheW interface [polypeptide binding]; other site 207559005876 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 207559005877 Peptidase family M48; Region: Peptidase_M48; cl12018 207559005878 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559005879 MatE; Region: MatE; cl10513 207559005880 Acylphosphatase; Region: Acylphosphatase; cl00551 207559005881 ketol-acid reductoisomerase; Provisional; Region: PRK05479 207559005882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005883 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 207559005884 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559005885 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559005886 putative valine binding site [chemical binding]; other site 207559005887 dimer interface [polypeptide binding]; other site 207559005888 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559005889 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 207559005890 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 207559005891 PYR/PP interface [polypeptide binding]; other site 207559005892 dimer interface [polypeptide binding]; other site 207559005893 TPP binding site [chemical binding]; other site 207559005894 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 207559005895 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 207559005896 TPP-binding site [chemical binding]; other site 207559005897 dimer interface [polypeptide binding]; other site 207559005898 isoleucyl-tRNA synthetase; Region: PLN02843 207559005899 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 207559005900 DivIVA domain; Region: DivI1A_domain; TIGR03544 207559005901 DivIVA protein; Region: DivIVA; pfam05103 207559005902 YGGT family; Region: YGGT; cl00508 207559005903 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559005904 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 207559005905 motif II; other site 207559005906 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 207559005907 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 207559005908 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 207559005909 active site residue [active] 207559005910 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 207559005911 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 207559005912 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559005913 active site 207559005914 C-terminal domain interface [polypeptide binding]; other site 207559005915 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 207559005916 active site 207559005917 N-terminal domain interface [polypeptide binding]; other site 207559005918 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 207559005919 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 207559005920 NAD binding site [chemical binding]; other site 207559005921 substrate binding site [chemical binding]; other site 207559005922 homodimer interface [polypeptide binding]; other site 207559005923 active site 207559005924 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 207559005925 NADP binding site [chemical binding]; other site 207559005926 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 207559005927 active site 207559005928 putative substrate binding site [chemical binding]; other site 207559005929 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 207559005930 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 207559005931 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 207559005932 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 207559005933 NAD binding site [chemical binding]; other site 207559005934 homodimer interface [polypeptide binding]; other site 207559005935 active site 207559005936 substrate binding site [chemical binding]; other site 207559005937 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 207559005938 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 207559005939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559005940 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559005941 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 207559005942 motif II; other site 207559005943 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 207559005944 S-adenosylmethionine binding site [chemical binding]; other site 207559005945 aspartate aminotransferase; Provisional; Region: PRK05764 207559005946 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 207559005947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559005948 homodimer interface [polypeptide binding]; other site 207559005949 catalytic residue [active] 207559005950 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 207559005951 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 207559005952 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 207559005953 generic binding surface I; other site 207559005954 generic binding surface II; other site 207559005955 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 207559005956 active site 207559005957 MarC family integral membrane protein; Region: MarC; cl00919 207559005958 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 207559005959 dimer interface [polypeptide binding]; other site 207559005960 FMN binding site [chemical binding]; other site 207559005961 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 207559005962 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 207559005963 TPP-binding site; other site 207559005964 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 207559005965 PYR/PP interface [polypeptide binding]; other site 207559005966 dimer interface [polypeptide binding]; other site 207559005967 TPP binding site [chemical binding]; other site 207559005968 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559005969 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559005970 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559005971 substrate binding pocket [chemical binding]; other site 207559005972 chain length determination region; other site 207559005973 substrate-Mg2+ binding site; other site 207559005974 catalytic residues [active] 207559005975 aspartate-rich region 1; other site 207559005976 active site lid residues [active] 207559005977 aspartate-rich region 2; other site 207559005978 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 207559005979 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559005980 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 207559005981 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 207559005982 generic binding surface II; other site 207559005983 generic binding surface I; other site 207559005984 prolyl-tRNA synthetase; Provisional; Region: PRK09194 207559005985 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 formation of...; Region: ProRS_core_prok; cd00779 207559005986 dimer interface [polypeptide binding]; other site 207559005987 motif 1; other site 207559005988 active site 207559005989 motif 2; other site 207559005990 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 207559005991 putative deacylase active site [active] 207559005992 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 attaches...; Region: class_II_aaRS-like_core; cl00268 207559005993 active site 207559005994 motif 3; other site 207559005995 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 207559005996 anticodon binding site; other site 207559005997 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 207559005998 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 207559005999 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 207559006000 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 207559006001 intersubunit interface [polypeptide binding]; other site 207559006002 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 207559006003 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 207559006004 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 207559006005 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 207559006006 putative PBP binding regions; other site 207559006007 ABC-ATPase subunit interface; other site 207559006008 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559006009 metal binding site 2 [ion binding]; metal-binding site 207559006010 putative DNA binding helix; other site 207559006011 metal binding site 1 [ion binding]; metal-binding site 207559006012 dimer interface [polypeptide binding]; other site 207559006013 structural Zn2+ binding site [ion binding]; other site 207559006014 DctM-like transporters; Region: DctM; pfam06808 207559006015 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 207559006016 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 207559006017 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 207559006018 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 207559006019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559006020 Helix-turn-helix domains; Region: HTH; cl00088 207559006021 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559006022 Found in ATP-dependent protease La (LON); Region: LON; smart00464 207559006023 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 207559006024 Walker A motif; other site 207559006025 ATP binding site [chemical binding]; other site 207559006026 Walker B motif; other site 207559006027 arginine finger; other site 207559006028 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559006029 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 207559006030 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 207559006031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559006032 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 207559006033 Walker A motif; other site 207559006034 ATP binding site [chemical binding]; other site 207559006035 Walker B motif; other site 207559006036 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 207559006037 Clp protease; Region: CLP_protease; pfam00574 207559006038 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 207559006039 oligomer interface [polypeptide binding]; other site 207559006040 active site residues [active] 207559006041 trigger factor; Region: tig; TIGR00115 207559006042 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 207559006043 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 207559006044 dimerization interface [polypeptide binding]; other site 207559006045 putative ATP binding site [chemical binding]; other site 207559006046 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 207559006047 Helix-turn-helix domains; Region: HTH; cl00088 207559006048 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 207559006049 putative dimerization interface [polypeptide binding]; other site 207559006050 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 207559006051 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 207559006052 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 207559006053 alphaNTD - beta interaction site [polypeptide binding]; other site 207559006054 alphaNTD homodimer interface [polypeptide binding]; other site 207559006055 alphaNTD - beta' interaction site [polypeptide binding]; other site 207559006056 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 207559006057 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 207559006058 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 207559006059 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 207559006060 RNA binding surface [nucleotide binding]; other site 207559006061 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 207559006062 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 207559006063 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 207559006064 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 207559006065 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 207559006066 active site 207559006067 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 207559006068 SecY translocase; Region: SecY; pfam00344 207559006069 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 207559006070 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 207559006071 23S rRNA binding site [nucleotide binding]; other site 207559006072 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 207559006073 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 207559006074 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 207559006075 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 207559006076 23S rRNA interface [nucleotide binding]; other site 207559006077 5S rRNA interface [nucleotide binding]; other site 207559006078 L27 interface [polypeptide binding]; other site 207559006079 L5 interface [polypeptide binding]; other site 207559006080 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 207559006081 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559006082 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 207559006083 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 207559006084 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 207559006085 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 207559006086 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 207559006087 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 207559006088 KOW motif; Region: KOW; cl00354 207559006089 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 207559006090 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 207559006091 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 207559006092 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 207559006093 23S rRNA interface [nucleotide binding]; other site 207559006094 putative translocon interaction site; other site 207559006095 signal recognition particle (SRP54) interaction site; other site 207559006096 L23 interface [polypeptide binding]; other site 207559006097 trigger factor interaction site; other site 207559006098 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 207559006099 23S rRNA interface [nucleotide binding]; other site 207559006100 5S rRNA interface [nucleotide binding]; other site 207559006101 putative antibiotic binding site [chemical binding]; other site 207559006102 L25 interface [polypeptide binding]; other site 207559006103 L27 interface [polypeptide binding]; other site 207559006104 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 207559006105 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 207559006106 G-X-X-G motif; other site 207559006107 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 207559006108 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 207559006109 putative translocon binding site; other site 207559006110 protein-rRNA interface [nucleotide binding]; other site 207559006111 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 207559006112 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 207559006113 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 207559006114 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 207559006115 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 207559006116 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 207559006117 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 207559006118 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 207559006119 elongation factor G; Reviewed; Region: PRK00007 207559006120 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 207559006121 G1 box; other site 207559006122 putative GEF interaction site [polypeptide binding]; other site 207559006123 GTP/Mg2+ binding site [chemical binding]; other site 207559006124 Switch I region; other site 207559006125 G2 box; other site 207559006126 G3 box; other site 207559006127 Switch II region; other site 207559006128 G4 box; other site 207559006129 G5 box; other site 207559006130 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 207559006131 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 207559006132 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 207559006133 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 207559006134 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 207559006135 S17 interaction site [polypeptide binding]; other site 207559006136 S8 interaction site; other site 207559006137 16S rRNA interaction site [nucleotide binding]; other site 207559006138 streptomycin interaction site [chemical binding]; other site 207559006139 23S rRNA interaction site [nucleotide binding]; other site 207559006140 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 207559006141 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 207559006142 ATP-sulfurylase; Region: ATPS; cd00517 207559006143 active site 207559006144 HXXH motif; other site 207559006145 flexible loop; other site 207559006146 Protein of unknown function DUF45; Region: DUF45; cl00636 207559006147 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 207559006148 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559006149 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559006150 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559006151 4Fe-4S binding domain; Region: Fer4; cl02805 207559006152 Polysulphide reductase, NrfD; Region: NrfD; cl01295 207559006153 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 207559006154 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 207559006155 G1 box; other site 207559006156 GTP/Mg2+ binding site [chemical binding]; other site 207559006157 Switch I region; other site 207559006158 G2 box; other site 207559006159 Switch II region; other site 207559006160 G3 box; other site 207559006161 G4 box; other site 207559006162 G5 box; other site 207559006163 biotin synthase; Provisional; Region: PRK07094 207559006164 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 207559006165 FeS/SAM binding site; other site 207559006166 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559006167 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 207559006168 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 207559006169 FeS/SAM binding site; other site 207559006170 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559006171 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 207559006172 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 207559006173 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 207559006174 4Fe-4S binding domain; Region: Fer4; cl02805 207559006175 4Fe-4S binding domain; Region: Fer4; cl02805 207559006176 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 207559006177 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 207559006178 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 207559006179 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 207559006180 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 207559006181 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 207559006182 catalytic nucleophile [active] 207559006183 glycogen branching enzyme; Provisional; Region: PRK12313 207559006184 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 207559006185 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 207559006186 active site 207559006187 catalytic site [active] 207559006188 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 207559006189 glycogen synthase; Provisional; Region: glgA; PRK00654 207559006190 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 207559006191 ADP-binding pocket [chemical binding]; other site 207559006192 homodimer interface [polypeptide binding]; other site 207559006193 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 207559006194 nudix motif; other site 207559006195 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 207559006196 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 207559006197 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 207559006198 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; cl16911 207559006199 Acyl transferase domain; Region: Acyl_transf_1; cl08282 207559006200 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 207559006201 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 207559006202 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 207559006203 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 207559006204 active site 207559006205 HIGH motif; other site 207559006206 KMSK motif region; other site 207559006207 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 207559006208 tRNA binding surface [nucleotide binding]; other site 207559006209 anticodon binding site; other site 207559006210 Sporulation related domain; Region: SPOR; cl10051 207559006211 Permease; Region: Permease; cl00510 207559006212 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 207559006213 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 207559006214 Walker A/P-loop; other site 207559006215 ATP binding site [chemical binding]; other site 207559006216 Q-loop/lid; other site 207559006217 ABC transporter signature motif; other site 207559006218 Walker B; other site 207559006219 D-loop; other site 207559006220 H-loop/switch region; other site 207559006221 mce related protein; Region: MCE; pfam02470 207559006222 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 207559006223 VacJ like lipoprotein; Region: VacJ; cl01073 207559006224 Cupin domain; Region: Cupin_2; cl09118 207559006225 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 207559006226 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 207559006227 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559006228 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 207559006229 substrate binding pocket [chemical binding]; other site 207559006230 membrane-bound complex binding site; other site 207559006231 hinge residues; other site 207559006232 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559006233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559006234 dimer interface [polypeptide binding]; other site 207559006235 conserved gate region; other site 207559006236 putative PBP binding loops; other site 207559006237 ABC-ATPase subunit interface; other site 207559006238 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559006239 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559006240 Walker A/P-loop; other site 207559006241 ATP binding site [chemical binding]; other site 207559006242 Q-loop/lid; other site 207559006243 ABC transporter signature motif; other site 207559006244 Walker B; other site 207559006245 D-loop; other site 207559006246 H-loop/switch region; other site 207559006247 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 207559006248 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 207559006249 metal binding triad; other site 207559006250 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 207559006251 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 207559006252 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 207559006253 Nitrogen regulatory protein P-II; Region: P-II; cl00412 207559006254 Nitrogen regulatory protein P-II; Region: P-II; smart00938 207559006255 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 207559006256 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 207559006257 dimer interface [polypeptide binding]; other site 207559006258 catalytic triad [active] 207559006259 peroxidatic and resolving cysteines [active] 207559006260 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 207559006261 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 207559006262 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 includes...; Region: RuvC_resolvase; cl00243 207559006263 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 207559006264 RNA binding site [nucleotide binding]; other site 207559006265 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 207559006266 AMP-binding enzyme; Region: AMP-binding; cl15778 207559006267 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559006268 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 207559006269 non-specific DNA binding site [nucleotide binding]; other site 207559006270 salt bridge; other site 207559006271 sequence-specific DNA binding site [nucleotide binding]; other site 207559006272 Cupin domain; Region: Cupin_2; cl09118 207559006273 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 207559006274 DnaA N-terminal domain; Region: DnaA_N; pfam11638 207559006275 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 207559006276 Walker A motif; other site 207559006277 ATP binding site [chemical binding]; other site 207559006278 Walker B motif; other site 207559006279 arginine finger; other site 207559006280 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 207559006281 DnaA box-binding interface [nucleotide binding]; other site 207559006282 Thymidylate synthase complementing protein; Region: Thy1; cl03630 207559006283 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 207559006284 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 207559006285 Walker A motif; other site 207559006286 ATP binding site [chemical binding]; other site 207559006287 Walker B motif; other site 207559006288 arginine finger; other site 207559006289 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 207559006290 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 207559006291 RuvA N terminal domain; Region: RuvA_N; pfam01330 207559006292 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 207559006293 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 includes...; Region: RuvC_resolvase; cd00529 207559006294 active site 207559006295 putative DNA-binding cleft [nucleotide binding]; other site 207559006296 dimer interface [polypeptide binding]; other site 207559006297 Transcriptional regulator; Region: Transcrip_reg; cl00361 207559006298 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 207559006299 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 207559006300 S-adenosylmethionine binding site [chemical binding]; other site 207559006301 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 207559006302 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 207559006303 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 207559006304 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 207559006305 THF binding site; other site 207559006306 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 207559006307 substrate binding site [chemical binding]; other site 207559006308 THF binding site; other site 207559006309 zinc-binding site [ion binding]; other site 207559006310 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 207559006311 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; cl16911 207559006312 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 207559006313 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 207559006314 dimer interface [polypeptide binding]; other site 207559006315 PYR/PP interface [polypeptide binding]; other site 207559006316 TPP binding site [chemical binding]; other site 207559006317 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 207559006318 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 207559006319 TPP-binding site [chemical binding]; other site 207559006320 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 207559006321 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559006322 CoA-ligase; Region: Ligase_CoA; cl02894 207559006323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006324 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 207559006325 CoA-ligase; Region: Ligase_CoA; cl02894 207559006326 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 207559006327 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 207559006328 binding surface 207559006329 TPR motif; other site 207559006330 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 207559006331 binding surface 207559006332 TPR motif; other site 207559006333 TPR repeat; Region: TPR_11; pfam13414 207559006334 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 207559006335 binding surface 207559006336 TPR motif; other site 207559006337 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 207559006338 binding surface 207559006339 TPR motif; other site 207559006340 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 207559006341 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 207559006342 thymidylate kinase; Validated; Region: tmk; PRK00698 207559006343 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 207559006344 TMP-binding site; other site 207559006345 ATP-binding site [chemical binding]; other site 207559006346 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 207559006347 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 inactive in...; Region: YhaM_OBF_like; cd04492 207559006348 generic binding surface II; other site 207559006349 generic binding surface I; other site 207559006350 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006351 Zn2+ binding site [ion binding]; other site 207559006352 Mg2+ binding site [ion binding]; other site 207559006353 Survival protein SurE; Region: SurE; cl00448 207559006354 hypothetical protein; Provisional; Region: PRK08185 207559006355 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 207559006356 intersubunit interface [polypeptide binding]; other site 207559006357 active site 207559006358 zinc binding site [ion binding]; other site 207559006359 Na+ binding site [ion binding]; other site 207559006360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006361 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559006362 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 207559006363 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559006364 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 207559006365 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 207559006366 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 207559006367 Domain of unknown function (DUF814); Region: DUF814; pfam05670 207559006368 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559006369 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 207559006370 YcaO-like family; Region: YcaO; pfam02624 207559006371 TPR repeat; Region: TPR_11; pfam13414 207559006372 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 207559006373 binding surface 207559006374 TPR motif; other site 207559006375 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559006376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559006377 Helix-turn-helix domains; Region: HTH; cl00088 207559006378 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006379 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 207559006380 TPR motif; other site 207559006381 binding surface 207559006382 TPR repeat; Region: TPR_11; pfam13414 207559006383 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 207559006384 MoaE homodimer interface [polypeptide binding]; other site 207559006385 MoaD interaction [polypeptide binding]; other site 207559006386 active site residues [active] 207559006387 trehalose synthase; Region: treS_nterm; TIGR02456 207559006388 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 207559006389 active site 207559006390 catalytic site [active] 207559006391 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 207559006392 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559006393 Catalytic site; other site 207559006394 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559006395 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006396 active site 207559006397 phosphorylation site [posttranslational modification] 207559006398 intermolecular recognition site; other site 207559006399 dimerization interface [polypeptide binding]; other site 207559006400 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 207559006401 Walker A motif; other site 207559006402 ATP binding site [chemical binding]; other site 207559006403 Walker B motif; other site 207559006404 arginine finger; other site 207559006405 Flp/Fap pilin component; Region: Flp_Fap; cl01585 207559006406 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 207559006407 SAF domain; Region: SAF; cl00555 207559006408 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 207559006409 BON domain; Region: BON; cl02771 207559006410 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 207559006411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559006412 active site 207559006413 phosphorylation site [posttranslational modification] 207559006414 intermolecular recognition site; other site 207559006415 dimerization interface [polypeptide binding]; other site 207559006416 AAA domain; Region: AAA_31; pfam13614 207559006417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559006418 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 207559006419 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 207559006420 ATP binding site [chemical binding]; other site 207559006421 Walker A motif; other site 207559006422 hexamer interface [polypeptide binding]; other site 207559006423 Walker B motif; other site 207559006424 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 207559006425 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 207559006426 TPR repeat; Region: TPR_11; pfam13414 207559006427 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 207559006428 binding surface 207559006429 TPR motif; other site 207559006430 TPR repeat; Region: TPR_11; pfam13414 207559006431 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 207559006432 binding surface 207559006433 TPR motif; other site 207559006434 TPR repeat; Region: TPR_11; pfam13414 207559006435 Sporulation related domain; Region: SPOR; cl10051 207559006436 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 207559006437 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 207559006438 metal ion-dependent adhesion site (MIDAS); other site 207559006439 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 207559006440 TadE-like protein; Region: TadE; cl10688 207559006441 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 207559006442 PAS domain; Region: PAS_9; pfam13426 207559006443 putative active site [active] 207559006444 heme pocket [chemical binding]; other site 207559006445 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559006446 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 207559006447 putative active site [active] 207559006448 heme pocket [chemical binding]; other site 207559006449 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 207559006450 dimer interface [polypeptide binding]; other site 207559006451 phosphorylation site [posttranslational modification] 207559006452 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559006453 ATP binding site [chemical binding]; other site 207559006454 Mg2+ binding site [ion binding]; other site 207559006455 G-X-G motif; other site 207559006456 Response regulator receiver domain; Region: Response_reg; pfam00072 207559006457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006458 active site 207559006459 phosphorylation site [posttranslational modification] 207559006460 intermolecular recognition site; other site 207559006461 dimerization interface [polypeptide binding]; other site 207559006462 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 207559006463 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 207559006464 Ligand Binding Site [chemical binding]; other site 207559006465 recombinase A; Provisional; Region: recA; PRK09354 207559006466 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 207559006467 hexamer interface [polypeptide binding]; other site 207559006468 Walker A motif; other site 207559006469 ATP binding site [chemical binding]; other site 207559006470 Walker B motif; other site 207559006471 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 207559006472 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 formation of...; Region: AlaRS_core; cd00673 207559006473 motif 1; other site 207559006474 active site 207559006475 motif 2; other site 207559006476 motif 3; other site 207559006477 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 207559006478 DHHA1 domain; Region: DHHA1; pfam02272 207559006479 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 207559006480 metal-binding site [ion binding] 207559006481 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 207559006482 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559006483 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 207559006484 FeS/SAM binding site; other site 207559006485 Bifunctional nuclease; Region: DNase-RNase; cl00553 207559006486 hypothetical protein; Provisional; Region: PRK06361 207559006487 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 207559006488 Protein export membrane protein; Region: SecD_SecF; cl14618 207559006489 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006490 active site 207559006491 phosphorylation site [posttranslational modification] 207559006492 intermolecular recognition site; other site 207559006493 dimerization interface [polypeptide binding]; other site 207559006494 TPR repeat; Region: TPR_11; pfam13414 207559006495 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 207559006496 binding surface 207559006497 TPR motif; other site 207559006498 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 207559006499 PhoU domain; Region: PhoU; pfam01895 207559006500 PhoU domain; Region: PhoU; pfam01895 207559006501 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 207559006502 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 207559006503 Walker A/P-loop; other site 207559006504 ATP binding site [chemical binding]; other site 207559006505 Q-loop/lid; other site 207559006506 ABC transporter signature motif; other site 207559006507 Walker B; other site 207559006508 D-loop; other site 207559006509 H-loop/switch region; other site 207559006510 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 207559006511 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006512 active site 207559006513 phosphorylation site [posttranslational modification] 207559006514 intermolecular recognition site; other site 207559006515 dimerization interface [polypeptide binding]; other site 207559006516 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 207559006517 DNA binding site [nucleotide binding] 207559006518 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 207559006519 catalytic site [active] 207559006520 putative active site [active] 207559006521 putative substrate binding site [chemical binding]; other site 207559006522 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006523 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 207559006524 4Fe-4S binding domain; Region: Fer4; cl02805 207559006525 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 207559006526 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 207559006527 trmE is a tRNA modification GTPase; Region: trmE; cd04164 207559006528 G1 box; other site 207559006529 GTP/Mg2+ binding site [chemical binding]; other site 207559006530 Switch I region; other site 207559006531 G2 box; other site 207559006532 Switch II region; other site 207559006533 G3 box; other site 207559006534 G4 box; other site 207559006535 G5 box; other site 207559006536 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 207559006537 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 207559006538 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 207559006539 G-X-X-G motif; other site 207559006540 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 207559006541 RxxxH motif; other site 207559006542 membrane protein insertase; Provisional; Region: PRK01318 207559006543 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 207559006544 Haemolytic domain; Region: Haemolytic; cl00506 207559006545 Ribonuclease P; Region: Ribonuclease_P; cl00457 207559006546 endonuclease IV; Provisional; Region: PRK01060 207559006547 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 207559006548 AP (apurinic/apyrimidinic) site pocket; other site 207559006549 DNA interaction; other site 207559006550 Metal-binding active site; metal-binding site 207559006551 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006552 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 207559006553 YcaO-like family; Region: YcaO; pfam02624 207559006554 bacteriocin biosynthesis docking scaffold, SagD family; Region: docking_ocin; cl09146 207559006555 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006556 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 207559006557 Cache domain; Region: Cache_1; pfam02743 207559006558 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 207559006559 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 207559006560 PAS domain; Region: PAS_9; pfam13426 207559006561 putative active site [active] 207559006562 heme pocket [chemical binding]; other site 207559006563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559006564 dimer interface [polypeptide binding]; other site 207559006565 putative CheW interface [polypeptide binding]; other site 207559006566 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 207559006567 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559006568 putative active site [active] 207559006569 putative metal binding site [ion binding]; other site 207559006570 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 207559006571 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 207559006572 putative FMN binding site [chemical binding]; other site 207559006573 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 207559006574 Thiamin pyrophosphokinase, catalytic domain; Region: TPK_catalytic; cl09135 207559006575 Domain of unknown function DUF77; Region: DUF77; cl00307 207559006576 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559006577 MatE; Region: MatE; cl10513 207559006578 MatE; Region: MatE; cl10513 207559006579 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 207559006580 active site 207559006581 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559006582 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 207559006583 cytoskeletal protein RodZ; Provisional; Region: PRK10856 207559006584 Rhomboid family; Region: Rhomboid; cl11446 207559006585 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 207559006586 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 207559006587 EamA-like transporter family; Region: EamA; cl01037 207559006588 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 207559006589 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 207559006590 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 207559006591 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559006592 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 207559006593 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 207559006594 dimer interface [polypeptide binding]; other site 207559006595 active site 207559006596 CoA binding pocket [chemical binding]; other site 207559006597 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 207559006598 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 207559006599 NAD(P) binding site [chemical binding]; other site 207559006600 homotetramer interface [polypeptide binding]; other site 207559006601 homodimer interface [polypeptide binding]; other site 207559006602 active site 207559006603 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559006604 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 207559006605 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 207559006606 dimer interface [polypeptide binding]; other site 207559006607 active site 207559006608 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 207559006609 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 207559006610 dimer interface [polypeptide binding]; other site 207559006611 active site 207559006612 glycine-pyridoxal phosphate binding site [chemical binding]; other site 207559006613 folate binding site [chemical binding]; other site 207559006614 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 207559006615 catalytic motif [active] 207559006616 Zn binding site [ion binding]; other site 207559006617 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 207559006618 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 207559006619 catalytic motif [active] 207559006620 Zn binding site [ion binding]; other site 207559006621 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 207559006622 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 207559006623 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006624 Lumazine binding domain; Region: Lum_binding; pfam00677 207559006625 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 207559006626 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 207559006627 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 207559006628 dimerization interface [polypeptide binding]; other site 207559006629 active site 207559006630 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 207559006631 homopentamer interface [polypeptide binding]; other site 207559006632 active site 207559006633 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 207559006634 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 207559006635 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006636 HIGH motif; other site 207559006637 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559006638 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559006639 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 207559006640 active site 207559006641 KMSKS motif; other site 207559006642 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 207559006643 tRNA binding surface [nucleotide binding]; other site 207559006644 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 207559006645 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 207559006646 hypothetical protein; Reviewed; Region: PRK00024 207559006647 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 207559006648 MPN+ (JAMM) motif; other site 207559006649 Zinc-binding site [ion binding]; other site 207559006650 Acylphosphatase; Region: Acylphosphatase; cl00551 207559006651 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559006652 Found in ATP-dependent protease La (LON); Region: LON; smart00464 207559006653 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 207559006654 Walker A motif; other site 207559006655 ATP binding site [chemical binding]; other site 207559006656 Walker B motif; other site 207559006657 arginine finger; other site 207559006658 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559006659 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 207559006660 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 207559006661 ATP binding site [chemical binding]; other site 207559006662 putative Mg++ binding site [ion binding]; other site 207559006663 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 207559006664 nucleotide binding region [chemical binding]; other site 207559006665 ATP-binding site [chemical binding]; other site 207559006666 RQC domain; Region: RQC; cl09632 207559006667 HRDC domain; Region: HRDC; cl02578 207559006668 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 207559006669 GAF domain; Region: GAF; cl15785 207559006670 PAS domain S-box; Region: sensory_box; TIGR00229 207559006671 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 207559006672 putative active site [active] 207559006673 heme pocket [chemical binding]; other site 207559006674 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006675 metal binding site [ion binding]; metal-binding site 207559006676 active site 207559006677 I-site; other site 207559006678 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 207559006679 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 207559006680 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 207559006681 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 207559006682 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 207559006683 Colicin V production protein; Region: Colicin_V; cl00567 207559006684 HDOD domain; Region: HDOD; pfam08668 207559006685 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006686 GAF domain; Region: GAF_2; pfam13185 207559006687 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 207559006688 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006689 active site 207559006690 phosphorylation site [posttranslational modification] 207559006691 intermolecular recognition site; other site 207559006692 dimerization interface [polypeptide binding]; other site 207559006693 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006694 Zn2+ binding site [ion binding]; other site 207559006695 Mg2+ binding site [ion binding]; other site 207559006696 Ubiquitin-like proteins; Region: UBQ; cl00155 207559006697 charged pocket; other site 207559006698 hydrophobic patch; other site 207559006699 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 207559006700 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 207559006701 ATP binding site [chemical binding]; other site 207559006702 substrate interface [chemical binding]; other site 207559006703 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 207559006704 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559006705 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559006706 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 207559006707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006708 integral membrane protein MviN; Region: mviN; TIGR01695 207559006709 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 207559006710 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 207559006711 active site 207559006712 motif I; other site 207559006713 motif II; other site 207559006714 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 207559006715 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 207559006716 ring oligomerisation interface [polypeptide binding]; other site 207559006717 ATP/Mg binding site [chemical binding]; other site 207559006718 stacking interactions; other site 207559006719 hinge regions; other site 207559006720 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 207559006721 oligomerisation interface [polypeptide binding]; other site 207559006722 mobile loop; other site 207559006723 roof hairpin; other site 207559006724 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559006725 ABC transporter ATPase component; Reviewed; Region: PRK11147 207559006726 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 207559006727 Walker A/P-loop; other site 207559006728 ATP binding site [chemical binding]; other site 207559006729 Q-loop/lid; other site 207559006730 ABC transporter signature motif; other site 207559006731 Walker B; other site 207559006732 D-loop; other site 207559006733 H-loop/switch region; other site 207559006734 ABC transporter; Region: ABC_tran_2; pfam12848 207559006735 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 207559006736 Protein of unknown function (DUF520); Region: DUF520; cl00723 207559006737 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 207559006738 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559006739 ATP binding site [chemical binding]; other site 207559006740 Mg++ binding site [ion binding]; other site 207559006741 motif III; other site 207559006742 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 207559006743 nucleotide binding region [chemical binding]; other site 207559006744 ATP-binding site [chemical binding]; other site 207559006745 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559006746 active site 207559006747 ATP binding site [chemical binding]; other site 207559006748 substrate binding site [chemical binding]; other site 207559006749 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 207559006750 LabA_like proteins; Region: LabA_like; cd06167 207559006751 putative metal binding site [ion binding]; other site 207559006752 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 207559006753 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 207559006754 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 207559006755 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 207559006756 Protein of unknown function (DUF554); Region: DUF554; cl00784 207559006757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559006758 Helix-turn-helix domains; Region: HTH; cl00088 207559006759 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 207559006760 putative effector binding pocket; other site 207559006761 dimerization interface [polypeptide binding]; other site 207559006762 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 207559006763 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 207559006764 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559006765 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 207559006766 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 207559006767 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 207559006768 ATP binding site [chemical binding]; other site 207559006769 putative Mg++ binding site [ion binding]; other site 207559006770 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 207559006771 nucleotide binding region [chemical binding]; other site 207559006772 ATP-binding site [chemical binding]; other site 207559006773 Fic family protein [Function unknown]; Region: COG3177 207559006774 Fic/DOC family; Region: Fic; cl00960 207559006775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559006776 AAA domain; Region: AAA_21; pfam13304 207559006777 Walker A/P-loop; other site 207559006778 ATP binding site [chemical binding]; other site 207559006779 AAA domain; Region: AAA_21; pfam13304 207559006780 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559006781 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559006782 Virulence protein [General function prediction only]; Region: COG3943 207559006783 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 207559006784 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559006785 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559006786 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; cl16911 207559006787 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; cl16911 207559006788 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559006789 DEAD-like helicases superfamily; Region: DEXDc; smart00487 207559006790 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 207559006791 ATP binding site [chemical binding]; other site 207559006792 putative Mg++ binding site [ion binding]; other site 207559006793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559006794 nucleotide binding region [chemical binding]; other site 207559006795 ATP-binding site [chemical binding]; other site 207559006796 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 207559006797 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 207559006798 non-specific DNA binding site [nucleotide binding]; other site 207559006799 salt bridge; other site 207559006800 sequence-specific DNA binding site [nucleotide binding]; other site 207559006801 hypothetical protein; Provisional; Region: PRK04164 207559006802 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 207559006803 putative transporter; Provisional; Region: PRK11660 207559006804 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559006805 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559006806 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559006807 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 207559006808 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 207559006809 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 207559006810 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 207559006811 Helix-turn-helix domains; Region: HTH; cl00088 207559006812 Winged helix-turn helix; Region: HTH_29; pfam13551 207559006813 Helix-turn-helix domains; Region: HTH; cl00088 207559006814 Integrase core domain; Region: rve; cl01316 207559006815 Protein of unknown function (DUF401); Region: DUF401; cl00830 207559006816 Transglycosylase; Region: Transgly; cl07896 207559006817 PAS fold; Region: PAS_3; pfam08447 207559006818 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 207559006819 PAS domain S-box; Region: sensory_box; TIGR00229 207559006820 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 207559006821 putative active site [active] 207559006822 heme pocket [chemical binding]; other site 207559006823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006824 metal binding site [ion binding]; metal-binding site 207559006825 active site 207559006826 I-site; other site 207559006827 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559006828 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559006829 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 207559006830 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 207559006831 Cupin domain; Region: Cupin_2; cl09118 207559006832 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 207559006833 putative substrate binding site [chemical binding]; other site 207559006834 putative ATP binding site [chemical binding]; other site 207559006835 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 207559006836 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559006837 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 207559006838 motif II; other site 207559006839 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 207559006840 dimer interface [polypeptide binding]; other site 207559006841 FMN binding site [chemical binding]; other site 207559006842 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 207559006843 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 207559006844 FAD binding site [chemical binding]; other site 207559006845 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 207559006846 argininosuccinate lyase; Provisional; Region: PRK00855 207559006847 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 207559006848 active sites [active] 207559006849 tetramer interface [polypeptide binding]; other site 207559006850 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 207559006851 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 207559006852 ANP binding site [chemical binding]; other site 207559006853 Substrate Binding Site II [chemical binding]; other site 207559006854 Substrate Binding Site I [chemical binding]; other site 207559006855 ornithine carbamoyltransferase; Provisional; Region: PRK00779 207559006856 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559006857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559006858 Response regulator receiver domain; Region: Response_reg; pfam00072 207559006859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559006860 active site 207559006861 phosphorylation site [posttranslational modification] 207559006862 intermolecular recognition site; other site 207559006863 dimerization interface [polypeptide binding]; other site 207559006864 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 207559006865 active site 207559006866 ApbE family; Region: ApbE; cl00643 207559006867 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559006868 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559006869 DNA binding residues [nucleotide binding] 207559006870 Helix-turn-helix domains; Region: HTH; cl00088 207559006871 hypothetical protein; Region: PHA01733 207559006872 hypothetical protein; Region: PHA00661 207559006873 hypothetical protein; Region: PHA00661 207559006874 hypothetical protein; Region: PHA00662 207559006875 putative protease; Region: PHA00666 207559006876 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl10251 207559006877 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 207559006878 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 catalyze...; Region: LT_GEWL; cd00254 207559006879 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559006880 catalytic residue [active] 207559006881 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 207559006882 CHASE4 domain; Region: CHASE4; cl01308 207559006883 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 207559006884 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 207559006885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559006886 metal binding site [ion binding]; metal-binding site 207559006887 active site 207559006888 I-site; other site 207559006889 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 207559006890 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 207559006891 peroxiredoxin; Provisional; Region: PRK13189 207559006892 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 207559006893 dimer interface [polypeptide binding]; other site 207559006894 decamer (pentamer of dimers) interface [polypeptide binding]; other site 207559006895 catalytic triad [active] 207559006896 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 207559006897 active site residue [active] 207559006898 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559006899 diiron binding motif [ion binding]; other site 207559006900 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 207559006901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 207559006902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006903 Zn2+ binding site [ion binding]; other site 207559006904 Mg2+ binding site [ion binding]; other site 207559006905 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559006906 Zn2+ binding site [ion binding]; other site 207559006907 Mg2+ binding site [ion binding]; other site 207559006908 mechanosensitive channel MscS; Provisional; Region: PRK10334 207559006909 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559006910 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 207559006911 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 207559006912 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 207559006913 FeS/SAM binding site; other site 207559006914 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 207559006915 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 207559006916 dimer interface [polypeptide binding]; other site 207559006917 active site 207559006918 Schiff base residues; other site 207559006919 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 207559006920 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 207559006921 FeS/SAM binding site; other site 207559006922 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 207559006923 Helix-turn-helix domains; Region: HTH; cl00088 207559006924 Transcriptional regulators [Transcription]; Region: GntR; COG1802 207559006925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559006926 DNA-binding site [nucleotide binding]; DNA binding site 207559006927 FCD domain; Region: FCD; cl11656 207559006928 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 207559006929 D-cysteine desulfhydrase; Validated; Region: PRK03910 207559006930 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 207559006931 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559006932 catalytic residue [active] 207559006933 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 207559006934 homotrimer interaction site [polypeptide binding]; other site 207559006935 putative active site [active] 207559006936 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 207559006937 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559006938 substrate binding pocket [chemical binding]; other site 207559006939 membrane-bound complex binding site; other site 207559006940 hinge residues; other site 207559006941 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 207559006942 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559006943 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559006944 dimer interface [polypeptide binding]; other site 207559006945 putative CheW interface [polypeptide binding]; other site 207559006946 Putative exonuclease, RdgC; Region: RdgC; cl01122 207559006947 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 207559006948 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559006949 dimer interface [polypeptide binding]; other site 207559006950 conserved gate region; other site 207559006951 putative PBP binding loops; other site 207559006952 ABC-ATPase subunit interface; other site 207559006953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 207559006954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559006955 dimer interface [polypeptide binding]; other site 207559006956 conserved gate region; other site 207559006957 putative PBP binding loops; other site 207559006958 ABC-ATPase subunit interface; other site 207559006959 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 207559006960 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 207559006961 Walker A/P-loop; other site 207559006962 ATP binding site [chemical binding]; other site 207559006963 Q-loop/lid; other site 207559006964 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 207559006965 ABC transporter signature motif; other site 207559006966 Walker B; other site 207559006967 D-loop; other site 207559006968 H-loop/switch region; other site 207559006969 ribonuclease R; Region: RNase_R; TIGR02063 207559006970 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 207559006971 RNB domain; Region: RNB; pfam00773 207559006972 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 play an important...; Region: S1_RNase_R; cd04471 207559006973 RNA binding site [nucleotide binding]; other site 207559006974 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 207559006975 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 207559006976 DsrE/DsrF-like family; Region: DrsE; cl00672 207559006977 Alpha-amylase/alpha-mannosidase [Carbohydrate transport and metabolism]; Region: COG1449 207559006978 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 207559006979 FOG: CBS domain [General function prediction only]; Region: COG0517 207559006980 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 207559006981 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 207559006982 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559006983 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 207559006984 23S rRNA interface [nucleotide binding]; other site 207559006985 L3 interface [polypeptide binding]; other site 207559006986 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 207559006987 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559006988 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 207559006989 ADP binding site [chemical binding]; other site 207559006990 magnesium binding site [ion binding]; other site 207559006991 putative shikimate binding site; other site 207559006992 Predicted transcriptional regulator [Transcription]; Region: COG4957 207559006993 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 207559006994 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 207559006995 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 207559006996 GatB domain; Region: GatB_Yqey; cl11497 207559006997 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 207559006998 Protein of unknown function DUF89; Region: DUF89; cl15397 207559006999 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 207559007000 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 207559007001 dimer interface [polypeptide binding]; other site 207559007002 active site 207559007003 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559007004 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 207559007005 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 207559007006 domain interfaces; other site 207559007007 active site 207559007008 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 207559007009 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 207559007010 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 207559007011 Probable Catalytic site; other site 207559007012 AAA domain; Region: AAA_32; pfam13654 207559007013 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 207559007014 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559007015 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 207559007016 Phosphoglycerate kinase; Region: PGK; pfam00162 207559007017 substrate binding site [chemical binding]; other site 207559007018 hinge regions; other site 207559007019 ADP binding site [chemical binding]; other site 207559007020 catalytic site [active] 207559007021 transketolase; Reviewed; Region: PRK12753 207559007022 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 207559007023 TPP-binding site [chemical binding]; other site 207559007024 dimer interface [polypeptide binding]; other site 207559007025 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 207559007026 PYR/PP interface [polypeptide binding]; other site 207559007027 dimer interface [polypeptide binding]; other site 207559007028 TPP binding site [chemical binding]; other site 207559007029 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559007030 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 207559007031 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 207559007032 substrate binding site [chemical binding]; other site 207559007033 hexamer interface [polypeptide binding]; other site 207559007034 metal binding site [ion binding]; metal-binding site 207559007035 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 207559007036 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559007037 DNA binding residues [nucleotide binding] 207559007038 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 207559007039 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 207559007040 putative tRNA-binding site [nucleotide binding]; other site 207559007041 B3/4 domain; Region: B3_4; cl11458 207559007042 tRNA synthetase B5 domain; Region: B5; cl08394 207559007043 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 207559007044 dimer interface [polypeptide binding]; other site 207559007045 motif 1; other site 207559007046 motif 3; other site 207559007047 motif 2; other site 207559007048 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 207559007049 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 207559007050 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 207559007051 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 207559007052 dimer interface [polypeptide binding]; other site 207559007053 motif 1; other site 207559007054 active site 207559007055 motif 2; other site 207559007056 motif 3; other site 207559007057 ribosomal protein L20; Region: rpl20; CHL00068 207559007058 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 207559007059 23S rRNA binding site [nucleotide binding]; other site 207559007060 L21 binding site [polypeptide binding]; other site 207559007061 L13 binding site [polypeptide binding]; other site 207559007062 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 207559007063 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 207559007064 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 207559007065 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 207559007066 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 207559007067 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 207559007068 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 207559007069 active site 207559007070 dimer interface [polypeptide binding]; other site 207559007071 motif 1; other site 207559007072 motif 2; other site 207559007073 motif 3; other site 207559007074 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 207559007075 anticodon binding site; other site 207559007076 hybrid cluster protein; Provisional; Region: PRK05290 207559007077 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 207559007078 ACS interaction site; other site 207559007079 CODH interaction site; other site 207559007080 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 207559007081 hybrid metal cluster; other site 207559007082 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559007083 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 207559007084 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 207559007085 Ligand Binding Site [chemical binding]; other site 207559007086 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559007087 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 207559007088 ligand binding site [chemical binding]; other site 207559007089 flexible hinge region; other site 207559007090 Helix-turn-helix domains; Region: HTH; cl00088 207559007091 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559007092 homodimer interaction site [polypeptide binding]; other site 207559007093 cofactor binding site; other site 207559007094 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 207559007095 CoenzymeA binding site [chemical binding]; other site 207559007096 subunit interaction site [polypeptide binding]; other site 207559007097 PHB binding site; other site 207559007098 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 207559007099 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559007100 HIGH motif; other site 207559007101 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 207559007102 active site 207559007103 KMSKS motif; other site 207559007104 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 207559007105 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 207559007106 MatE; Region: MatE; cl10513 207559007107 Helix-turn-helix domains; Region: HTH; cl00088 207559007108 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 207559007109 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559007110 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 207559007111 biotin synthase; Region: bioB; TIGR00433 207559007112 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 207559007113 FeS/SAM binding site; other site 207559007114 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 207559007115 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 207559007116 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 207559007117 inhibitor-cofactor binding pocket; inhibition site 207559007118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559007119 catalytic residue [active] 207559007120 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 207559007121 active site 2 [active] 207559007122 active site 1 [active] 207559007123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007124 active site 207559007125 Phosphopantetheine attachment site; Region: PP-binding; cl09936 207559007126 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 207559007127 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 207559007128 dimer interface [polypeptide binding]; other site 207559007129 active site 207559007130 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 207559007131 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 207559007132 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007133 catalytic residue [active] 207559007134 AAA domain; Region: AAA_26; pfam13500 207559007135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559007136 diaminopimelate decarboxylase; Region: lysA; TIGR01048 207559007137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 207559007138 active site 207559007139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559007140 substrate binding site [chemical binding]; other site 207559007141 catalytic residues [active] 207559007142 dimer interface [polypeptide binding]; other site 207559007143 Helix-turn-helix domains; Region: HTH; cl00088 207559007144 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 207559007145 C-terminal domain interface [polypeptide binding]; other site 207559007146 sugar binding site [chemical binding]; other site 207559007147 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559007148 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 207559007149 metal binding site [ion binding]; metal-binding site 207559007150 dimer interface [polypeptide binding]; other site 207559007151 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 207559007152 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 207559007153 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 207559007154 G1 box; other site 207559007155 GTP/Mg2+ binding site [chemical binding]; other site 207559007156 Switch I region; other site 207559007157 G2 box; other site 207559007158 G3 box; other site 207559007159 Switch II region; other site 207559007160 G4 box; other site 207559007161 G5 box; other site 207559007162 Nucleoside recognition; Region: Gate; cl00486 207559007163 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 207559007164 Nucleoside recognition; Region: Gate; cl00486 207559007165 FeoA domain; Region: FeoA; cl00838 207559007166 FeoA domain; Region: FeoA; cl00838 207559007167 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 207559007168 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007169 active site 207559007170 phosphorylation site [posttranslational modification] 207559007171 intermolecular recognition site; other site 207559007172 dimerization interface [polypeptide binding]; other site 207559007173 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 207559007174 DNA binding residues [nucleotide binding] 207559007175 dimerization interface [polypeptide binding]; other site 207559007176 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559007177 metal binding site 2 [ion binding]; metal-binding site 207559007178 putative DNA binding helix; other site 207559007179 metal binding site 1 [ion binding]; metal-binding site 207559007180 dimer interface [polypeptide binding]; other site 207559007181 structural Zn2+ binding site [ion binding]; other site 207559007182 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 207559007183 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 207559007184 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 207559007185 Peptidase M16C associated; Region: M16C_assoc; pfam08367 207559007186 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559007187 metal binding site [ion binding]; metal-binding site 207559007188 active site 207559007189 I-site; other site 207559007190 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 207559007191 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559007192 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 207559007193 PAS domain; Region: PAS_9; pfam13426 207559007194 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559007195 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007196 ATP binding site [chemical binding]; other site 207559007197 Mg2+ binding site [ion binding]; other site 207559007198 G-X-G motif; other site 207559007199 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 207559007200 dimer interface [polypeptide binding]; other site 207559007201 substrate binding site [chemical binding]; other site 207559007202 ATP binding site [chemical binding]; other site 207559007203 gamma-glutamyl kinase; Provisional; Region: PRK05429 207559007204 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 207559007205 nucleotide binding site [chemical binding]; other site 207559007206 homotetrameric interface [polypeptide binding]; other site 207559007207 putative phosphate binding site [ion binding]; other site 207559007208 putative allosteric binding site; other site 207559007209 PUA domain; Region: PUA; cl00607 207559007210 GTPase CgtA; Reviewed; Region: obgE; PRK12299 207559007211 GTP1/OBG; Region: GTP1_OBG; pfam01018 207559007212 Obg GTPase; Region: Obg; cd01898 207559007213 G1 box; other site 207559007214 GTP/Mg2+ binding site [chemical binding]; other site 207559007215 Switch I region; other site 207559007216 G2 box; other site 207559007217 G3 box; other site 207559007218 Switch II region; other site 207559007219 G4 box; other site 207559007220 G5 box; other site 207559007221 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 207559007222 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 207559007223 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 207559007224 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 207559007225 substrate binding site; other site 207559007226 tetramer interface; other site 207559007227 TRAM domain; Region: TRAM; cl01282 207559007228 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 207559007229 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 207559007230 S-adenosylmethionine binding site [chemical binding]; other site 207559007231 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 207559007232 ATP synthase A chain; Region: ATP-synt_A; cl00413 207559007233 ATP synthase subunit C; Region: ATP-synt_C; cl00466 207559007234 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 207559007235 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 207559007236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007237 Uncharacterized conserved protein [Function unknown]; Region: COG1912 207559007238 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 207559007239 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 207559007240 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 207559007241 MgtE intracellular N domain; Region: MgtE_N; cl15244 207559007242 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 207559007243 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 207559007244 dimerization interface 3.5A [polypeptide binding]; other site 207559007245 active site 207559007246 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 207559007247 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 207559007248 catalytic loop [active] 207559007249 iron binding site [ion binding]; other site 207559007250 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 207559007251 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; cl16911 207559007252 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 207559007253 lipoyl synthase; Provisional; Region: PRK05481 207559007254 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 207559007255 FeS/SAM binding site; other site 207559007256 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 207559007257 DHH family; Region: DHH; pfam01368 207559007258 DHHA1 domain; Region: DHHA1; pfam02272 207559007259 HDOD domain; Region: HDOD; pfam08668 207559007260 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559007261 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559007262 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 207559007263 binding surface 207559007264 TPR motif; other site 207559007265 TPR repeat; Region: TPR_11; pfam13414 207559007266 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 contains two...; Region: OMP_decarboxylase_like; cd04725 207559007267 active site 207559007268 dimer interface [polypeptide binding]; other site 207559007269 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 207559007270 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 207559007271 catalytic site [active] 207559007272 G-X2-G-X-G-K; other site 207559007273 Domain of unknown function (DUF370); Region: DUF370; cl00898 207559007274 hypothetical protein; Provisional; Region: PRK11820 207559007275 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 207559007276 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 207559007277 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 207559007278 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 207559007279 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 207559007280 FeS/SAM binding site; other site 207559007281 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 207559007282 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 207559007283 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 207559007284 NlpC/P60 family; Region: NLPC_P60; cl11438 207559007285 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 207559007286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559007287 Family description; Region: UvrD_C_2; cl15862 207559007288 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 207559007289 Tetramer interface [polypeptide binding]; other site 207559007290 active site 207559007291 FMN-binding site [chemical binding]; other site 207559007292 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 207559007293 Ligand Binding Site [chemical binding]; other site 207559007294 shikimate kinase; Reviewed; Region: aroK; PRK00131 207559007295 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 207559007296 ADP binding site [chemical binding]; other site 207559007297 magnesium binding site [ion binding]; other site 207559007298 putative shikimate binding site; other site 207559007299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007300 putative substrate translocation pore; other site 207559007301 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 207559007302 aminotransferase; Validated; Region: PRK08175 207559007303 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 207559007304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559007305 homodimer interface [polypeptide binding]; other site 207559007306 catalytic residue [active] 207559007307 homoserine dehydrogenase; Provisional; Region: PRK06349 207559007308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007309 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 207559007310 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 207559007311 Sulfatase; Region: Sulfatase; cl10460 207559007312 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 207559007313 MltA specific insert domain; Region: MltA; cl08398 207559007314 3D domain; Region: 3D; cl01439 207559007315 Cache domain; Region: Cache_2; cl07034 207559007316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559007317 Cache domain; Region: Cache_2; cl07034 207559007318 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 207559007319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007321 dimer interface [polypeptide binding]; other site 207559007322 putative CheW interface [polypeptide binding]; other site 207559007323 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 207559007324 active site 207559007325 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 207559007326 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 207559007327 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 207559007328 catalytic residues [active] 207559007329 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 207559007330 elongation factor G; Reviewed; Region: PRK12740 207559007331 G1 box; other site 207559007332 putative GEF interaction site [polypeptide binding]; other site 207559007333 GTP/Mg2+ binding site [chemical binding]; other site 207559007334 Switch I region; other site 207559007335 G2 box; other site 207559007336 G3 box; other site 207559007337 Switch II region; other site 207559007338 G4 box; other site 207559007339 G5 box; other site 207559007340 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 207559007341 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 207559007342 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 207559007343 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 207559007344 dimer interface [polypeptide binding]; other site 207559007345 pyridoxal binding site [chemical binding]; other site 207559007346 ATP binding site [chemical binding]; other site 207559007347 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 207559007348 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 207559007349 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 207559007350 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559007351 catalytic residue [active] 207559007352 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 207559007353 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 207559007354 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 207559007355 Rubredoxin; Region: Rubredoxin; pfam00301 207559007356 iron binding site [ion binding]; other site 207559007357 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 207559007358 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 207559007359 MOFRL family; Region: MOFRL; pfam05161 207559007360 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 207559007361 IHF dimer interface [polypeptide binding]; other site 207559007362 IHF - DNA interface [nucleotide binding]; other site 207559007363 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 207559007364 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 207559007365 TPR repeat; Region: TPR_11; pfam13414 207559007366 binding surface 207559007367 TPR motif; other site 207559007368 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 207559007369 PilZ domain; Region: PilZ; cl01260 207559007370 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 207559007371 TPR motif; other site 207559007372 binding surface 207559007373 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 207559007374 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007375 ATP binding site [chemical binding]; other site 207559007376 Mg2+ binding site [ion binding]; other site 207559007377 G-X-G motif; other site 207559007378 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559007379 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559007380 Walker A/P-loop; other site 207559007381 ATP binding site [chemical binding]; other site 207559007382 Q-loop/lid; other site 207559007383 ABC transporter signature motif; other site 207559007384 Walker B; other site 207559007385 D-loop; other site 207559007386 H-loop/switch region; other site 207559007387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007388 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 207559007389 substrate binding pocket [chemical binding]; other site 207559007390 membrane-bound complex binding site; other site 207559007391 hinge residues; other site 207559007392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559007393 dimer interface [polypeptide binding]; other site 207559007394 conserved gate region; other site 207559007395 putative PBP binding loops; other site 207559007396 ABC-ATPase subunit interface; other site 207559007397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559007398 dimer interface [polypeptide binding]; other site 207559007399 conserved gate region; other site 207559007400 putative PBP binding loops; other site 207559007401 ABC-ATPase subunit interface; other site 207559007402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007403 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 207559007404 putative ADP-binding pocket [chemical binding]; other site 207559007405 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 207559007406 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559007407 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559007408 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 207559007409 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007410 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 207559007411 dimerization interface [polypeptide binding]; other site 207559007412 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007413 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 207559007414 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 207559007415 dimer interface [polypeptide binding]; other site 207559007416 phosphorylation site [posttranslational modification] 207559007417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007418 ATP binding site [chemical binding]; other site 207559007419 Mg2+ binding site [ion binding]; other site 207559007420 G-X-G motif; other site 207559007421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007422 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007423 active site 207559007424 phosphorylation site [posttranslational modification] 207559007425 intermolecular recognition site; other site 207559007426 dimerization interface [polypeptide binding]; other site 207559007427 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 207559007428 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 207559007429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559007430 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 207559007431 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 207559007432 catalytic residues [active] 207559007433 catalytic nucleophile [active] 207559007434 Recombinase; Region: Recombinase; pfam07508 207559007435 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 207559007436 chromosome segregation protein; Provisional; Region: PRK02224 207559007437 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 207559007438 dimerization interface [polypeptide binding]; other site 207559007439 putative DNA binding site [nucleotide binding]; other site 207559007440 putative Zn2+ binding site [ion binding]; other site 207559007441 Predicted permease; Region: DUF318; pfam03773 207559007442 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 207559007443 DGC domain; Region: DGC; cl01742 207559007444 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 207559007445 catalytic residues [active] 207559007446 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559007447 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 207559007448 active site residue [active] 207559007449 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 207559007450 active site residue [active] 207559007451 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 207559007452 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559007453 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559007454 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 207559007455 dimerization interface [polypeptide binding]; other site 207559007456 putative DNA binding site [nucleotide binding]; other site 207559007457 putative Zn2+ binding site [ion binding]; other site 207559007458 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 207559007459 Membrane transport protein; Region: Mem_trans; cl09117 207559007460 Low molecular weight phosphatase family; Region: LMWPc; cl00105 207559007461 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007462 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 207559007463 active site 207559007464 BRO family, N-terminal domain; Region: Bro-N; cl10591 207559007465 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 207559007466 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559007467 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 207559007468 putative dimer interface [polypeptide binding]; other site 207559007469 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559007470 Restriction endonuclease; Region: Mrr_cat; cl00516 207559007471 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 207559007472 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 207559007473 catalytic residues [active] 207559007474 catalytic nucleophile [active] 207559007475 Presynaptic Site I dimer interface [polypeptide binding]; other site 207559007476 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 207559007477 Synaptic Flat tetramer interface [polypeptide binding]; other site 207559007478 Synaptic Site I dimer interface [polypeptide binding]; other site 207559007479 DNA binding site [nucleotide binding] 207559007480 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 207559007481 DNA-binding interface [nucleotide binding]; DNA binding site 207559007482 BRO family, N-terminal domain; Region: Bro-N; cl10591 207559007483 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 207559007484 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 207559007485 Catalytic site; other site 207559007486 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 207559007487 Uncharacterized conserved protein [Function unknown]; Region: COG1284 207559007488 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 207559007489 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 207559007490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007492 dimer interface [polypeptide binding]; other site 207559007493 putative CheW interface [polypeptide binding]; other site 207559007494 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cd00522 207559007495 octamerization interface [polypeptide binding]; other site 207559007496 diferric-oxygen binding site [ion binding]; other site 207559007497 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 207559007498 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 207559007499 Catalytic site [active] 207559007500 GTP-binding protein LepA; Provisional; Region: PRK05433 207559007501 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 207559007502 G1 box; other site 207559007503 putative GEF interaction site [polypeptide binding]; other site 207559007504 GTP/Mg2+ binding site [chemical binding]; other site 207559007505 Switch I region; other site 207559007506 G2 box; other site 207559007507 G3 box; other site 207559007508 Switch II region; other site 207559007509 G4 box; other site 207559007510 G5 box; other site 207559007511 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 207559007512 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 207559007513 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 207559007514 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 207559007515 dimer interface [polypeptide binding]; other site 207559007516 Low molecular weight phosphatase family; Region: LMWPc; cd00115 207559007517 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 207559007518 active site 207559007519 two-component response regulator; Provisional; Region: PRK14084 207559007520 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007521 active site 207559007522 phosphorylation site [posttranslational modification] 207559007523 intermolecular recognition site; other site 207559007524 dimerization interface [polypeptide binding]; other site 207559007525 LytTr DNA-binding domain; Region: LytTR; cl04498 207559007526 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559007527 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 207559007528 AMP-binding enzyme; Region: AMP-binding; cl15778 207559007529 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559007530 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007531 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007532 active site 207559007533 phosphorylation site [posttranslational modification] 207559007534 intermolecular recognition site; other site 207559007535 dimerization interface [polypeptide binding]; other site 207559007536 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559007537 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 207559007538 Walker A motif; other site 207559007539 ATP binding site [chemical binding]; other site 207559007540 Walker B motif; other site 207559007541 arginine finger; other site 207559007542 Helix-turn-helix domains; Region: HTH; cl00088 207559007543 PAS fold; Region: PAS_4; pfam08448 207559007544 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 207559007545 PAS domain; Region: PAS_9; pfam13426 207559007546 putative active site [active] 207559007547 heme pocket [chemical binding]; other site 207559007548 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 207559007549 dimer interface [polypeptide binding]; other site 207559007550 phosphorylation site [posttranslational modification] 207559007551 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007552 ATP binding site [chemical binding]; other site 207559007553 Mg2+ binding site [ion binding]; other site 207559007554 G-X-G motif; other site 207559007555 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 207559007556 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 207559007557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559007558 putative substrate translocation pore; other site 207559007559 AMMECR1; Region: AMMECR1; cl00911 207559007560 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 207559007561 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 207559007562 ligand binding site [chemical binding]; other site 207559007563 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559007564 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559007565 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 207559007566 dimer interface [polypeptide binding]; other site 207559007567 phosphorylation site [posttranslational modification] 207559007568 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007569 ATP binding site [chemical binding]; other site 207559007570 Mg2+ binding site [ion binding]; other site 207559007571 G-X-G motif; other site 207559007572 LysE type translocator; Region: LysE; cl00565 207559007573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 207559007574 Helix-turn-helix domains; Region: HTH; cl00088 207559007575 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 207559007576 substrate binding pocket [chemical binding]; other site 207559007577 dimerization interface [polypeptide binding]; other site 207559007578 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 207559007579 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 207559007580 active site 207559007581 substrate binding site [chemical binding]; other site 207559007582 cosubstrate binding site; other site 207559007583 catalytic site [active] 207559007584 MOSC domain; Region: MOSC; pfam03473 207559007585 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559007586 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 207559007587 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 207559007588 active site 207559007589 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 207559007590 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 207559007591 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007592 HIGH motif; other site 207559007593 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 207559007594 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 207559007595 active site 207559007596 KMSKS motif; other site 207559007597 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 207559007598 tRNA binding surface [nucleotide binding]; other site 207559007599 anticodon binding site; other site 207559007600 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 207559007601 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 207559007602 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 207559007603 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 207559007604 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 207559007605 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 207559007606 putative active site [active] 207559007607 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007608 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 207559007609 catalytic residues [active] 207559007610 Transposase domain (DUF772); Region: DUF772; pfam05598 207559007611 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 207559007612 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 207559007613 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 207559007614 EamA-like transporter family; Region: EamA; cl01037 207559007615 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559007616 EamA-like transporter family; Region: EamA; cl01037 207559007617 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 207559007618 dimerization interface [polypeptide binding]; other site 207559007619 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 207559007620 PAS domain; Region: PAS_9; pfam13426 207559007621 putative active site [active] 207559007622 heme pocket [chemical binding]; other site 207559007623 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007624 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007625 dimer interface [polypeptide binding]; other site 207559007626 putative CheW interface [polypeptide binding]; other site 207559007627 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 207559007628 Helix-turn-helix domains; Region: HTH; cl00088 207559007629 Winged helix-turn helix; Region: HTH_29; pfam13551 207559007630 Helix-turn-helix domains; Region: HTH; cl00088 207559007631 Integrase core domain; Region: rve; cl01316 207559007632 Domain of unknown function (DUF697); Region: DUF697; cl12064 207559007633 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 207559007634 active site 207559007635 catalytic residues [active] 207559007636 DNA binding site [nucleotide binding] 207559007637 Int/Topo IB signature motif; other site 207559007638 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 207559007639 Fic/DOC family; Region: Fic; cl00960 207559007640 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559007641 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559007642 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; cl16911 207559007643 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007644 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559007645 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 207559007646 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559007647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 207559007648 Transposase; Region: DDE_Tnp_ISL3; pfam01610 207559007649 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 207559007650 active site 207559007651 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 207559007652 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 207559007653 GDP-Fucose binding site [chemical binding]; other site 207559007654 Caenorhabditis protein of unknown function, DUF268; Region: DUF268; pfam03269 207559007655 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 207559007656 active site 207559007657 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 207559007658 S-adenosylmethionine binding site [chemical binding]; other site 207559007659 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 207559007660 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 207559007661 trimer interface [polypeptide binding]; other site 207559007662 active site 207559007663 substrate binding site [chemical binding]; other site 207559007664 CoA binding site [chemical binding]; other site 207559007665 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; cl16911 207559007666 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007667 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 207559007668 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; cl16911 207559007669 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 207559007670 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559007671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007672 NAD(P) binding site [chemical binding]; other site 207559007673 active site 207559007674 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 207559007675 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 207559007676 active site 207559007677 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 207559007678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559007679 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 207559007680 putative ADP-binding pocket [chemical binding]; other site 207559007681 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559007682 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 207559007683 active site 207559007684 dimer interface [polypeptide binding]; other site 207559007685 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 207559007686 Ligand Binding Site [chemical binding]; other site 207559007687 Molecular Tunnel; other site 207559007688 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 207559007689 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 207559007690 S-adenosylmethionine binding site [chemical binding]; other site 207559007691 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; cl16911 207559007692 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; cl16911 207559007693 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 207559007694 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 207559007695 Walker A/P-loop; other site 207559007696 ATP binding site [chemical binding]; other site 207559007697 Q-loop/lid; other site 207559007698 ABC transporter signature motif; other site 207559007699 Walker B; other site 207559007700 D-loop; other site 207559007701 H-loop/switch region; other site 207559007702 ABC-2 type transporter; Region: ABC2_membrane; cl11417 207559007703 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 207559007704 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 207559007705 NADP binding site [chemical binding]; other site 207559007706 active site 207559007707 putative substrate binding site [chemical binding]; other site 207559007708 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 207559007709 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 207559007710 NADP-binding site; other site 207559007711 homotetramer interface [polypeptide binding]; other site 207559007712 substrate binding site [chemical binding]; other site 207559007713 homodimer interface [polypeptide binding]; other site 207559007714 active site 207559007715 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 207559007716 RelB antitoxin; Region: RelB; cl01171 207559007717 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 207559007718 DNA-binding interface [nucleotide binding]; DNA binding site 207559007719 transposase/IS protein; Provisional; Region: PRK09183 207559007720 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 207559007721 Walker A motif; other site 207559007722 ATP binding site [chemical binding]; other site 207559007723 Walker B motif; other site 207559007724 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559007725 Helix-turn-helix domains; Region: HTH; cl00088 207559007726 Integrase core domain; Region: rve; cl01316 207559007727 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 207559007728 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 207559007729 Fic family protein [Function unknown]; Region: COG3177 207559007730 Fic/DOC family; Region: Fic; cl00960 207559007731 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559007732 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559007733 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 207559007734 metal ion-dependent adhesion site (MIDAS); other site 207559007735 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559007736 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559007737 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 207559007738 Walker A motif; other site 207559007739 ATP binding site [chemical binding]; other site 207559007740 Walker B motif; other site 207559007741 arginine finger; other site 207559007742 ERF superfamily; Region: ERF; pfam04404 207559007743 Domain of unknown function (DUF927); Region: DUF927; cl12098 207559007744 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 207559007745 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 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 Response regulator receiver domain; Region: Response_reg; pfam00072 207559007754 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007755 active site 207559007756 phosphorylation site [posttranslational modification] 207559007757 intermolecular recognition site; other site 207559007758 dimerization interface [polypeptide binding]; other site 207559007759 Cupin domain; Region: Cupin_2; cl09118 207559007760 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 207559007761 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 207559007762 Substrate binding site; other site 207559007763 Cupin domain; Region: Cupin_2; cl09118 207559007764 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559007765 heme-binding residues [chemical binding]; other site 207559007766 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 207559007767 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 207559007768 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 207559007769 putative molybdopterin cofactor binding site; other site 207559007770 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559007771 4Fe-4S binding domain; Region: Fer4; cl02805 207559007772 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 207559007773 Polysulphide reductase, NrfD; Region: NrfD; cl01295 207559007774 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559007775 Flagellar protein YcgR; Region: YcgR_2; pfam12945 207559007776 PilZ domain; Region: PilZ; cl01260 207559007777 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 207559007778 RNA/DNA hybrid binding site [nucleotide binding]; other site 207559007779 active site 207559007780 Repair protein; Region: Repair_PSII; cl01535 207559007781 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 207559007782 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 207559007783 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 207559007784 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 207559007785 4Fe-4S binding domain; Region: Fer4; cl02805 207559007786 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 207559007787 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 207559007788 active site 207559007789 substrate binding site [chemical binding]; other site 207559007790 metal binding site [ion binding]; metal-binding site 207559007791 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 207559007792 HflK protein; Region: hflK; TIGR01933 207559007793 HflC protein; Region: hflC; TIGR01932 207559007794 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 207559007795 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559007796 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 207559007797 Catalytic site [active] 207559007798 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559007799 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 207559007800 substrate binding pocket [chemical binding]; other site 207559007801 membrane-bound complex binding site; other site 207559007802 hinge residues; other site 207559007803 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007804 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 207559007805 putative active site [active] 207559007806 heme pocket [chemical binding]; other site 207559007807 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 207559007808 dimer interface [polypeptide binding]; other site 207559007809 phosphorylation site [posttranslational modification] 207559007810 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007811 ATP binding site [chemical binding]; other site 207559007812 Mg2+ binding site [ion binding]; other site 207559007813 G-X-G motif; other site 207559007814 PAS domain; Region: PAS_9; pfam13426 207559007815 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007816 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 207559007817 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 207559007818 dimer interface [polypeptide binding]; other site 207559007819 phosphorylation site [posttranslational modification] 207559007820 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559007821 ATP binding site [chemical binding]; other site 207559007822 Mg2+ binding site [ion binding]; other site 207559007823 G-X-G motif; other site 207559007824 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559007825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559007826 active site 207559007827 phosphorylation site [posttranslational modification] 207559007828 intermolecular recognition site; other site 207559007829 dimerization interface [polypeptide binding]; other site 207559007830 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 207559007831 Walker A motif; other site 207559007832 ATP binding site [chemical binding]; other site 207559007833 Walker B motif; other site 207559007834 arginine finger; other site 207559007835 Helix-turn-helix domains; Region: HTH; cl00088 207559007836 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 207559007837 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 207559007838 Walker A/P-loop; other site 207559007839 ATP binding site [chemical binding]; other site 207559007840 Q-loop/lid; other site 207559007841 ABC transporter signature motif; other site 207559007842 Walker B; other site 207559007843 D-loop; other site 207559007844 H-loop/switch region; other site 207559007845 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 207559007846 Predicted methyltransferase [General function prediction only]; Region: COG3897 207559007847 nickel responsive regulator; Provisional; Region: PRK04460 207559007848 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 207559007849 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 207559007850 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 207559007851 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK05683 207559007852 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559007853 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 207559007854 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 207559007855 Walker A motif; other site 207559007856 ATP binding site [chemical binding]; other site 207559007857 Walker B motif; other site 207559007858 conserved hypothetical protein; Region: glmL_fam; TIGR01319 207559007859 arginine finger; other site 207559007860 Helix-turn-helix domains; Region: HTH; cl00088 207559007861 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 207559007862 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 207559007863 binding surface 207559007864 TPR motif; other site 207559007865 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 207559007866 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 207559007867 binding surface 207559007868 TPR motif; other site 207559007869 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 207559007870 putative ligand binding pocket/active site [active] 207559007871 putative metal binding site [ion binding]; other site 207559007872 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 207559007873 active site 207559007874 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 207559007875 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 207559007876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559007877 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 207559007878 dihydroorotase; Validated; Region: pyrC; PRK09357 207559007879 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 207559007880 active site 207559007881 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 207559007882 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 207559007883 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559007884 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559007885 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 207559007886 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 207559007887 FeS/SAM binding site; other site 207559007888 Cache domain; Region: Cache_1; pfam02743 207559007889 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 207559007890 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559007891 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559007892 dimer interface [polypeptide binding]; other site 207559007893 putative CheW interface [polypeptide binding]; other site 207559007894 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 207559007895 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 207559007896 active site 207559007897 DNA binding site [nucleotide binding] 207559007898 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 207559007899 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 207559007900 Catalytic site [active] 207559007901 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 207559007902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 207559007903 Helix-turn-helix domains; Region: HTH; cl00088 207559007904 Helix-turn-helix domains; Region: HTH; cl00088 207559007905 Domain of unknown function DUF; Region: DUF204; pfam02659 207559007906 Domain of unknown function DUF; Region: DUF204; pfam02659 207559007907 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 207559007908 active site clefts [active] 207559007909 zinc binding site [ion binding]; other site 207559007910 dimer interface [polypeptide binding]; other site 207559007911 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 207559007912 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 207559007913 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 207559007914 S-adenosylmethionine binding site [chemical binding]; other site 207559007915 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 207559007916 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 207559007917 peptide chain release factor 1; Validated; Region: prfA; PRK00591 207559007918 RF-1 domain; Region: RF-1; cl02875 207559007919 RF-1 domain; Region: RF-1; cl02875 207559007920 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 207559007921 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 207559007922 S-adenosylmethionine binding site [chemical binding]; other site 207559007923 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 207559007924 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 207559007925 putative transposase OrfB; Reviewed; Region: PHA02517 207559007926 Integrase core domain; Region: rve; cl01316 207559007927 Integrase core domain; Region: rve_3; cl15866 207559007928 elongation factor Tu; Reviewed; Region: PRK00049 207559007929 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 207559007930 G1 box; other site 207559007931 GEF interaction site [polypeptide binding]; other site 207559007932 GTP/Mg2+ binding site [chemical binding]; other site 207559007933 Switch I region; other site 207559007934 G2 box; other site 207559007935 G3 box; other site 207559007936 Switch II region; other site 207559007937 G4 box; other site 207559007938 G5 box; other site 207559007939 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 207559007940 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 207559007941 Antibiotic Binding Site [chemical binding]; other site 207559007942 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 207559007943 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 207559007944 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 207559007945 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 207559007946 putative homodimer interface [polypeptide binding]; other site 207559007947 KOW motif; Region: KOW; cl00354 207559007948 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 207559007949 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 207559007950 23S rRNA interface [nucleotide binding]; other site 207559007951 L7/L12 interface [polypeptide binding]; other site 207559007952 putative thiostrepton binding site; other site 207559007953 L25 interface [polypeptide binding]; other site 207559007954 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 207559007955 mRNA/rRNA interface [nucleotide binding]; other site 207559007956 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 207559007957 23S rRNA interface [nucleotide binding]; other site 207559007958 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 207559007959 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 207559007960 core dimer interface [polypeptide binding]; other site 207559007961 peripheral dimer interface [polypeptide binding]; other site 207559007962 L10 interface [polypeptide binding]; other site 207559007963 L11 interface [polypeptide binding]; other site 207559007964 putative EF-Tu interaction site [polypeptide binding]; other site 207559007965 putative EF-G interaction site [polypeptide binding]; other site 207559007966 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; cl04593 207559007967 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 207559007968 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 207559007969 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 207559007970 RPB11 interaction site [polypeptide binding]; other site 207559007971 RPB12 interaction site [polypeptide binding]; other site 207559007972 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 207559007973 RPB3 interaction site [polypeptide binding]; other site 207559007974 RPB1 interaction site [polypeptide binding]; other site 207559007975 RPB11 interaction site [polypeptide binding]; other site 207559007976 RPB10 interaction site [polypeptide binding]; other site 207559007977 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 207559007978 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 207559007979 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 207559007980 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 207559007981 DNA-directed RNA polymerase, beta'' subunit; Region: rpoC2_cyan; TIGR02388 207559007982 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 207559007983 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559007984 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 207559007985 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 207559007986 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 207559007987 DNA binding site [nucleotide binding] 207559007988 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 207559007989 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 207559007990 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 207559007991 dimerization interface [polypeptide binding]; other site 207559007992 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559007993 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 207559007994 putative active site [active] 207559007995 heme pocket [chemical binding]; other site 207559007996 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 207559007997 dimer interface [polypeptide binding]; other site 207559007998 phosphorylation site [posttranslational modification] 207559007999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008000 ATP binding site [chemical binding]; other site 207559008001 Mg2+ binding site [ion binding]; other site 207559008002 G-X-G motif; other site 207559008003 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 207559008004 TIGR01777 family protein; Region: yfcH 207559008005 putative NAD(P) binding site [chemical binding]; other site 207559008006 putative active site [active] 207559008007 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008009 active site 207559008010 phosphorylation site [posttranslational modification] 207559008011 intermolecular recognition site; other site 207559008012 dimerization interface [polypeptide binding]; other site 207559008013 PAS domain S-box; Region: sensory_box; TIGR00229 207559008014 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 207559008015 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008016 Zn2+ binding site [ion binding]; other site 207559008017 Mg2+ binding site [ion binding]; other site 207559008018 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008020 active site 207559008021 phosphorylation site [posttranslational modification] 207559008022 intermolecular recognition site; other site 207559008023 dimerization interface [polypeptide binding]; other site 207559008024 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 207559008025 Walker A motif; other site 207559008026 ATP binding site [chemical binding]; other site 207559008027 Walker B motif; other site 207559008028 arginine finger; other site 207559008029 Helix-turn-helix domains; Region: HTH; cl00088 207559008030 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 207559008031 catalytic core [active] 207559008032 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 207559008033 Ion transport protein; Region: Ion_trans; pfam00520 207559008034 Ion channel; Region: Ion_trans_2; cl11596 207559008035 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008036 active site 207559008037 phosphorylation site [posttranslational modification] 207559008038 intermolecular recognition site; other site 207559008039 dimerization interface [polypeptide binding]; other site 207559008040 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 207559008041 binding surface 207559008042 TPR motif; other site 207559008043 Tetratricopeptide repeat; Region: TPR_12; pfam13424 207559008044 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 207559008045 binding surface 207559008046 TPR motif; other site 207559008047 TPR repeat; Region: TPR_11; pfam13414 207559008048 LOW PSII ACCUMULATION1; Provisional; Region: LPA1; PLN03098 207559008049 Domain of unknown function DUF39; Region: DUF39; cl14897 207559008050 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 207559008051 Ligand Binding Site [chemical binding]; other site 207559008052 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 207559008053 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 207559008054 adenylosuccinate lyase; Provisional; Region: PRK07492 207559008055 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 207559008056 tetramer interface [polypeptide binding]; other site 207559008057 active site 207559008058 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 207559008059 active site 207559008060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 207559008061 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 207559008062 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 207559008063 ATP cone domain; Region: ATP-cone; pfam03477 207559008064 Class III ribonucleotide reductase; Region: RNR_III; cd01675 207559008065 effector binding site; other site 207559008066 active site 207559008067 Zn binding site [ion binding]; other site 207559008068 glycine loop; other site 207559008069 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559008070 EamA-like transporter family; Region: EamA; cl01037 207559008071 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 207559008072 EamA-like transporter family; Region: EamA; cl01037 207559008073 Cache domain; Region: Cache_1; pfam02743 207559008074 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008075 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008076 dimer interface [polypeptide binding]; other site 207559008077 putative CheW interface [polypeptide binding]; other site 207559008078 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 207559008079 4Fe-4S binding domain; Region: Fer4; cl02805 207559008080 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 207559008081 putative FMN binding site [chemical binding]; other site 207559008082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008083 metal binding site [ion binding]; metal-binding site 207559008084 active site 207559008085 I-site; other site 207559008086 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 207559008087 4Fe-4S binding domain; Region: Fer4; cl02805 207559008088 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559008089 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559008090 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 207559008091 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 207559008092 ligand binding site [chemical binding]; other site 207559008093 flexible hinge region; other site 207559008094 Helix-turn-helix domains; Region: HTH; cl00088 207559008095 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 207559008096 ACS interaction site; other site 207559008097 CODH interaction site; other site 207559008098 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 207559008099 cubane metal cluster (B-cluster) [ion binding]; other site 207559008100 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 207559008101 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 207559008102 P-loop; other site 207559008103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008104 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 207559008105 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 207559008106 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 207559008107 metal binding site [ion binding]; metal-binding site 207559008108 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559008109 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559008110 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559008111 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; cl16911 207559008112 Domain of unknown function DUF21; Region: DUF21; pfam01595 207559008113 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 207559008114 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 207559008115 Transporter associated domain; Region: CorC_HlyC; cl08393 207559008116 PAS domain; Region: PAS_9; pfam13426 207559008117 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 207559008118 PAS domain S-box; Region: sensory_box; TIGR00229 207559008119 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 207559008120 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008121 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 207559008122 dimer interface [polypeptide binding]; other site 207559008123 phosphorylation site [posttranslational modification] 207559008124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008125 ATP binding site [chemical binding]; other site 207559008126 Mg2+ binding site [ion binding]; other site 207559008127 G-X-G motif; other site 207559008128 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559008129 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559008130 dimer interface [polypeptide binding]; other site 207559008131 active site 207559008132 glycine loop; other site 207559008133 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008135 active site 207559008136 phosphorylation site [posttranslational modification] 207559008137 intermolecular recognition site; other site 207559008138 dimerization interface [polypeptide binding]; other site 207559008139 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 207559008140 Walker A motif; other site 207559008141 ATP binding site [chemical binding]; other site 207559008142 Walker B motif; other site 207559008143 arginine finger; other site 207559008144 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 207559008145 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 207559008146 FeS/SAM binding site; other site 207559008147 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 207559008148 D-alanyl-alanine synthetase A; Provisional; Region: PRK14571 207559008149 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559008150 D-alanine--D-alanine ligase; Region: D_ala_D_alaTIGR; TIGR01205 207559008151 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559008152 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 207559008153 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559008154 Coenzyme A binding pocket [chemical binding]; other site 207559008155 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 207559008156 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 207559008157 PAS domain S-box; Region: sensory_box; TIGR00229 207559008158 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 207559008159 putative active site [active] 207559008160 heme pocket [chemical binding]; other site 207559008161 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008162 metal binding site [ion binding]; metal-binding site 207559008163 active site 207559008164 I-site; other site 207559008165 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 207559008166 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 207559008167 Walker A motif; other site 207559008168 ATP binding site [chemical binding]; other site 207559008169 Walker B motif; other site 207559008170 arginine finger; other site 207559008171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 207559008172 D-galactonate transporter; Region: 2A0114; TIGR00893 207559008173 putative substrate translocation pore; other site 207559008174 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559008175 4Fe-4S binding domain; Region: Fer4; cl02805 207559008176 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 207559008177 FeS/SAM binding site; other site 207559008178 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 207559008179 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559008180 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 207559008181 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 207559008182 selenocysteine synthase; Provisional; Region: PRK04311 207559008183 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 207559008184 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 207559008185 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559008186 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 207559008187 NAD binding site [chemical binding]; other site 207559008188 putative substrate binding site 2 [chemical binding]; other site 207559008189 putative substrate binding site 1 [chemical binding]; other site 207559008190 active site 207559008191 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 207559008192 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 207559008193 oligomer interface [polypeptide binding]; other site 207559008194 putative active site [active] 207559008195 metal binding site [ion binding]; metal-binding site 207559008196 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH1; cd08185 207559008197 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 207559008198 putative active site [active] 207559008199 metal binding site [ion binding]; metal-binding site 207559008200 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008201 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 207559008202 Transglycosylase SLT domain; Region: SLT_2; pfam13406 207559008203 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 catalyze...; Region: LT_GEWL; cd00254 207559008204 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559008205 catalytic residue [active] 207559008206 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559008207 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 207559008208 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008209 active site 207559008210 phosphorylation site [posttranslational modification] 207559008211 intermolecular recognition site; other site 207559008212 dimerization interface [polypeptide binding]; other site 207559008213 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559008214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559008215 dimer interface [polypeptide binding]; other site 207559008216 conserved gate region; other site 207559008217 putative PBP binding loops; other site 207559008218 ABC-ATPase subunit interface; other site 207559008219 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 207559008220 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008221 substrate binding pocket [chemical binding]; other site 207559008222 membrane-bound complex binding site; other site 207559008223 hinge residues; other site 207559008224 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559008225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559008226 dimer interface [polypeptide binding]; other site 207559008227 conserved gate region; other site 207559008228 putative PBP binding loops; other site 207559008229 ABC-ATPase subunit interface; other site 207559008230 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 207559008231 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 207559008232 dimerization interface [polypeptide binding]; other site 207559008233 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 207559008234 PAS domain; Region: PAS_9; pfam13426 207559008235 putative active site [active] 207559008236 heme pocket [chemical binding]; other site 207559008237 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008239 dimer interface [polypeptide binding]; other site 207559008240 putative CheW interface [polypeptide binding]; other site 207559008241 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008242 Zn2+ binding site [ion binding]; other site 207559008243 Mg2+ binding site [ion binding]; other site 207559008244 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 207559008245 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008246 Zn2+ binding site [ion binding]; other site 207559008247 Mg2+ binding site [ion binding]; other site 207559008248 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559008249 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 207559008250 trimerization site [polypeptide binding]; other site 207559008251 active site 207559008252 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 207559008253 NifU-like domain; Region: NifU; cl00484 207559008254 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 207559008255 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 207559008256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559008257 catalytic residue [active] 207559008258 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 207559008259 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 207559008260 dimer interface [polypeptide binding]; other site 207559008261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008262 catalytic residue [active] 207559008263 serine O-acetyltransferase; Region: cysE; TIGR01172 207559008264 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 207559008265 trimer interface [polypeptide binding]; other site 207559008266 active site 207559008267 substrate binding site [chemical binding]; other site 207559008268 CoA binding site [chemical binding]; other site 207559008269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 207559008270 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 207559008271 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 207559008272 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 207559008273 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 207559008274 B12 binding site [chemical binding]; other site 207559008275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008276 metal binding site [ion binding]; metal-binding site 207559008277 active site 207559008278 I-site; other site 207559008279 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 207559008280 homodimer interface [polypeptide binding]; other site 207559008281 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 207559008282 active site pocket [active] 207559008283 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 207559008284 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 207559008285 FMN binding site [chemical binding]; other site 207559008286 active site 207559008287 catalytic residues [active] 207559008288 substrate binding site [chemical binding]; other site 207559008289 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 207559008290 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559008291 active site 207559008292 metal binding site [ion binding]; metal-binding site 207559008293 homotetramer interface [polypeptide binding]; other site 207559008294 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 207559008295 putative dimer interface [polypeptide binding]; other site 207559008296 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 207559008297 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 207559008298 putative dimer interface [polypeptide binding]; other site 207559008299 Trm112p-like protein; Region: Trm112p; cl01066 207559008300 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 207559008301 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 207559008302 Peptidase family U32; Region: Peptidase_U32; cl03113 207559008303 PAS domain S-box; Region: sensory_box; TIGR00229 207559008304 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 207559008305 sensory histidine kinase CreC; Provisional; Region: PRK11100 207559008306 histidine kinase; Provisional; Region: PRK13557 207559008307 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008308 active site 207559008309 phosphorylation site [posttranslational modification] 207559008310 intermolecular recognition site; other site 207559008311 dimerization interface [polypeptide binding]; other site 207559008312 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008314 active site 207559008315 phosphorylation site [posttranslational modification] 207559008316 intermolecular recognition site; other site 207559008317 dimerization interface [polypeptide binding]; other site 207559008318 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 207559008319 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 207559008320 Walker A motif; other site 207559008321 ATP binding site [chemical binding]; other site 207559008322 Walker B motif; other site 207559008323 arginine finger; other site 207559008324 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 207559008325 DNA binding site [nucleotide binding] 207559008326 active site 207559008327 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 207559008328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008329 active site 207559008330 phosphorylation site [posttranslational modification] 207559008331 intermolecular recognition site; other site 207559008332 dimerization interface [polypeptide binding]; other site 207559008333 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559008334 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 207559008335 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 207559008336 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 207559008337 active site 207559008338 C-terminal domain interface [polypeptide binding]; other site 207559008339 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 207559008340 active site 207559008341 N-terminal domain interface [polypeptide binding]; other site 207559008342 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 207559008343 dimer interface [polypeptide binding]; other site 207559008344 putative PBP binding regions; other site 207559008345 ABC-ATPase subunit interface; other site 207559008346 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 207559008347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008348 Walker A/P-loop; other site 207559008349 ATP binding site [chemical binding]; other site 207559008350 Q-loop/lid; other site 207559008351 ABC transporter signature motif; other site 207559008352 Walker B; other site 207559008353 D-loop; other site 207559008354 H-loop/switch region; other site 207559008355 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 207559008356 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 207559008357 putative ligand binding residues [chemical binding]; other site 207559008358 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559008359 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 207559008360 hypothetical protein; Provisional; Region: PRK10281 207559008361 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 207559008362 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 207559008363 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 207559008364 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 207559008365 Helix-turn-helix domains; Region: HTH; cl00088 207559008366 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559008367 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559008368 PAS domain S-box; Region: sensory_box; TIGR00229 207559008369 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 207559008370 putative active site [active] 207559008371 heme pocket [chemical binding]; other site 207559008372 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 207559008373 PAS fold; Region: PAS_3; pfam08447 207559008374 putative active site [active] 207559008375 heme pocket [chemical binding]; other site 207559008376 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559008377 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008378 ATP binding site [chemical binding]; other site 207559008379 Mg2+ binding site [ion binding]; other site 207559008380 G-X-G motif; other site 207559008381 histidine kinase; Provisional; Region: PRK13557 207559008382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 207559008383 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 207559008384 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559008385 Zn2+ binding site [ion binding]; other site 207559008386 Mg2+ binding site [ion binding]; other site 207559008387 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559008388 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 207559008389 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559008390 GTP binding site; other site 207559008391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008392 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 207559008393 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 207559008394 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 207559008395 NAD(P) binding site [chemical binding]; other site 207559008396 catalytic residues [active] 207559008397 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 207559008398 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 207559008399 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 207559008400 Transglycosylase; Region: Transgly; cl07896 207559008401 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 207559008402 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 207559008403 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 207559008404 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 207559008405 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559008406 active site 207559008407 NAD binding site [chemical binding]; other site 207559008408 metal binding site [ion binding]; metal-binding site 207559008409 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 207559008410 Helix-turn-helix domains; Region: HTH; cl00088 207559008411 Acetokinase family; Region: Acetate_kinase; cl01029 207559008412 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559008413 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 207559008414 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 207559008415 putative valine binding site [chemical binding]; other site 207559008416 dimer interface [polypeptide binding]; other site 207559008417 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 207559008418 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 207559008419 active site residue [active] 207559008420 Adenosylhomocysteinase; Provisional; Region: PTZ00075 207559008421 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 207559008422 oligomerization interface [polypeptide binding]; other site 207559008423 active site 207559008424 NAD+ binding site [chemical binding]; other site 207559008425 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 207559008426 dimerization interface [polypeptide binding]; other site 207559008427 putative DNA binding site [nucleotide binding]; other site 207559008428 putative Zn2+ binding site [ion binding]; other site 207559008429 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 207559008430 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 207559008431 S-adenosylmethionine binding site [chemical binding]; other site 207559008432 Protein of unknown function (DUF721); Region: DUF721; cl02324 207559008433 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 207559008434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559008435 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 207559008436 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559008437 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 207559008438 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; cl12031 207559008439 Cupin domain; Region: Cupin_2; cl09118 207559008440 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559008441 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 207559008442 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559008443 Cyclophilin-like; Region: Cyclophil_like; cl00950 207559008444 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; cl15306 207559008445 substrate binding pocket [chemical binding]; other site 207559008446 membrane-bound complex binding site; other site 207559008447 hinge residues; other site 207559008448 FliW protein; Region: FliW; cl00740 207559008449 Global regulator protein family; Region: CsrA; cl00670 207559008450 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 207559008451 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 207559008452 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 207559008453 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559008454 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 207559008455 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559008456 FlgN protein; Region: FlgN; cl09176 207559008457 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 207559008458 Rod binding protein; Region: Rod-binding; cl01626 207559008459 Peptidase family M23; Region: Peptidase_M23; pfam01551 207559008460 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 207559008461 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 207559008462 Flagellar L-ring protein; Region: FlgH; cl00905 207559008463 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 207559008464 SAF-like; Region: SAF_2; pfam13144 207559008465 SAF domain; Region: SAF; cl00555 207559008466 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 207559008467 Flagella basal body rod protein; Region: Flg_bb_rod; cl16924 207559008468 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559008469 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 207559008470 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 207559008471 ribosome maturation protein RimP; Reviewed; Region: PRK00092 207559008472 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 207559008473 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 207559008474 Sm1 motif; other site 207559008475 D1 - D2 interaction site; other site 207559008476 D3 - B interaction site; other site 207559008477 Hfq - Hfq interaction site; other site 207559008478 RNA binding pocket [nucleotide binding]; other site 207559008479 Sm2 motif; other site 207559008480 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 207559008481 NusA N-terminal domain; Region: NusA_N; pfam08529 207559008482 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 207559008483 RNA binding site [nucleotide binding]; other site 207559008484 homodimer interface [polypeptide binding]; other site 207559008485 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 207559008486 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 207559008487 G-X-X-G motif; other site 207559008488 hypothetical protein; Reviewed; Region: PRK00024 207559008489 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 207559008490 putative RNA binding cleft [nucleotide binding]; other site 207559008491 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008492 translation initiation factor IF-2; Region: IF-2; TIGR00487 207559008493 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 207559008494 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 207559008495 G1 box; other site 207559008496 putative GEF interaction site [polypeptide binding]; other site 207559008497 GTP/Mg2+ binding site [chemical binding]; other site 207559008498 Switch I region; other site 207559008499 G2 box; other site 207559008500 G3 box; other site 207559008501 Switch II region; other site 207559008502 G4 box; other site 207559008503 G5 box; other site 207559008504 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 207559008505 Translation-initiation factor 2; Region: IF-2; pfam11987 207559008506 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 207559008507 Protein of unknown function (DUF503); Region: DUF503; cl00669 207559008508 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559008509 DHH family; Region: DHH; pfam01368 207559008510 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 207559008511 RNA binding site [nucleotide binding]; other site 207559008512 active site 207559008513 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 207559008514 16S/18S rRNA binding site [nucleotide binding]; other site 207559008515 S13e-L30e interaction site [polypeptide binding]; other site 207559008516 25S rRNA binding site [nucleotide binding]; other site 207559008517 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 207559008518 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 207559008519 RNase E interface [polypeptide binding]; other site 207559008520 trimer interface [polypeptide binding]; other site 207559008521 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 207559008522 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 207559008523 RNase E interface [polypeptide binding]; other site 207559008524 trimer interface [polypeptide binding]; other site 207559008525 active site 207559008526 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 207559008527 putative nucleic acid binding region [nucleotide binding]; other site 207559008528 G-X-X-G motif; other site 207559008529 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 207559008530 RNA binding site [nucleotide binding]; other site 207559008531 domain interface; other site 207559008532 GTPase RsgA; Reviewed; Region: PRK01889 207559008533 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 207559008534 GTPase/Zn-binding domain interface [polypeptide binding]; other site 207559008535 GTP/Mg2+ binding site [chemical binding]; other site 207559008536 G4 box; other site 207559008537 G5 box; other site 207559008538 G1 box; other site 207559008539 Switch I region; other site 207559008540 G2 box; other site 207559008541 G3 box; other site 207559008542 Switch II region; other site 207559008543 Predicted acetyltransferase [General function prediction only]; Region: COG3153 207559008544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 207559008545 Coenzyme A binding pocket [chemical binding]; other site 207559008546 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 207559008547 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 207559008548 G1 box; other site 207559008549 putative GEF interaction site [polypeptide binding]; other site 207559008550 GTP/Mg2+ binding site [chemical binding]; other site 207559008551 Switch I region; other site 207559008552 G2 box; other site 207559008553 G3 box; other site 207559008554 Switch II region; other site 207559008555 G4 box; other site 207559008556 G5 box; other site 207559008557 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 207559008558 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 207559008559 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 207559008560 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 207559008561 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 207559008562 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 207559008563 peptide binding site [polypeptide binding]; other site 207559008564 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 207559008565 AzlC protein; Region: AzlC; cl00570 207559008566 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 207559008567 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 207559008568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008569 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 207559008570 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 207559008571 Helix-turn-helix domains; Region: HTH; cl00088 207559008572 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 207559008573 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 207559008574 inhibitor-cofactor binding pocket; inhibition site 207559008575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559008576 catalytic residue [active] 207559008577 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 207559008578 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 207559008579 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 207559008580 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 207559008581 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 207559008582 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 207559008583 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559008584 heme-binding residues [chemical binding]; other site 207559008585 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; cl16911 207559008586 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 207559008587 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 207559008588 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 207559008589 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 207559008590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008591 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 207559008592 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 207559008593 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 207559008594 substrate binding pocket [chemical binding]; other site 207559008595 chain length determination region; other site 207559008596 substrate-Mg2+ binding site; other site 207559008597 catalytic residues [active] 207559008598 aspartate-rich region 1; other site 207559008599 active site lid residues [active] 207559008600 aspartate-rich region 2; other site 207559008601 HDOD domain; Region: HDOD; pfam08668 207559008602 PAS fold; Region: PAS_4; pfam08448 207559008603 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008604 metal binding site [ion binding]; metal-binding site 207559008605 active site 207559008606 I-site; other site 207559008607 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 207559008608 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 207559008609 dimerization interface [polypeptide binding]; other site 207559008610 ATP binding site [chemical binding]; other site 207559008611 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 207559008612 dimerization interface [polypeptide binding]; other site 207559008613 ATP binding site [chemical binding]; other site 207559008614 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 207559008615 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 207559008616 non-heme iron binding site [ion binding]; other site 207559008617 dimer interface [polypeptide binding]; other site 207559008618 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 207559008619 non-heme iron binding site [ion binding]; other site 207559008620 dimer interface [polypeptide binding]; other site 207559008621 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 207559008622 Rubredoxin; Region: Rubredoxin; pfam00301 207559008623 iron binding site [ion binding]; other site 207559008624 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 207559008625 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 207559008626 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559008627 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 207559008628 PAS domain; Region: PAS_9; pfam13426 207559008629 putative active site [active] 207559008630 heme pocket [chemical binding]; other site 207559008631 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 207559008632 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 207559008633 Walker A motif; other site 207559008634 ATP binding site [chemical binding]; other site 207559008635 Walker B motif; other site 207559008636 arginine finger; other site 207559008637 Helix-turn-helix domains; Region: HTH; cl00088 207559008638 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 207559008639 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 207559008640 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 207559008641 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 207559008642 P loop nucleotide binding; other site 207559008643 switch II; other site 207559008644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008645 4Fe-4S binding domain; Region: Fer4; cl02805 207559008646 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 207559008647 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 207559008648 switch II; other site 207559008649 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008650 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 207559008651 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 207559008652 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 207559008653 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 207559008654 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 207559008655 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 207559008656 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559008657 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 207559008658 putative active site [active] 207559008659 heme pocket [chemical binding]; other site 207559008660 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 207559008661 dimer interface [polypeptide binding]; other site 207559008662 phosphorylation site [posttranslational modification] 207559008663 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008664 ATP binding site [chemical binding]; other site 207559008665 Mg2+ binding site [ion binding]; other site 207559008666 G-X-G motif; other site 207559008667 acetyl-CoA synthetase; Provisional; Region: PRK00174 207559008668 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 207559008669 AMP-binding enzyme; Region: AMP-binding; cl15778 207559008670 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 207559008671 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 207559008672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559008673 CoA-ligase; Region: Ligase_CoA; cl02894 207559008674 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559008675 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 207559008676 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559008677 DsrE/DsrF-like family; Region: DrsE; cl00672 207559008678 CheD chemotactic sensory transduction; Region: CheD; cl00810 207559008679 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 207559008680 IHF dimer interface [polypeptide binding]; other site 207559008681 IHF - DNA interface [nucleotide binding]; other site 207559008682 Protein of unknown function (DUF523); Region: DUF523; cl00733 207559008683 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 207559008684 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 207559008685 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559008686 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 207559008687 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 207559008688 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 207559008689 2-isopropylmalate synthase; Validated; Region: PRK00915 207559008690 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 207559008691 active site 207559008692 catalytic residues [active] 207559008693 metal binding site [ion binding]; metal-binding site 207559008694 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 207559008695 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 207559008696 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 207559008697 substrate binding site [chemical binding]; other site 207559008698 ligand binding site [chemical binding]; other site 207559008699 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 207559008700 substrate binding site [chemical binding]; other site 207559008701 Protein of unknown function DUF89; Region: DUF89; cl15397 207559008702 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 207559008703 tartrate dehydrogenase; Provisional; Region: PRK08194 207559008704 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559008705 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 207559008706 substrate binding pocket [chemical binding]; other site 207559008707 membrane-bound complex binding site; other site 207559008708 hinge residues; other site 207559008709 PspC domain; Region: PspC; cl00864 207559008710 Phage shock protein B; Region: PspB; cl05946 207559008711 phage shock protein A; Region: phageshock_pspA; TIGR02977 207559008712 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 207559008713 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 207559008714 Walker A motif; other site 207559008715 ATP binding site [chemical binding]; other site 207559008716 Walker B motif; other site 207559008717 arginine finger; other site 207559008718 Helix-turn-helix domains; Region: HTH; cl00088 207559008719 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 207559008720 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 207559008721 dimer interface [polypeptide binding]; other site 207559008722 putative functional site; other site 207559008723 putative MPT binding site; other site 207559008724 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008725 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 207559008726 substrate binding site [chemical binding]; other site 207559008727 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 207559008728 HDOD domain; Region: HDOD; pfam08668 207559008729 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559008730 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 207559008731 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 207559008732 PAS fold; Region: PAS; pfam00989 207559008733 PAS domain S-box; Region: sensory_box; TIGR00229 207559008734 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 207559008735 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559008736 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 207559008737 putative active site [active] 207559008738 heme pocket [chemical binding]; other site 207559008739 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 207559008740 dimer interface [polypeptide binding]; other site 207559008741 phosphorylation site [posttranslational modification] 207559008742 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559008743 ATP binding site [chemical binding]; other site 207559008744 Mg2+ binding site [ion binding]; other site 207559008745 G-X-G motif; other site 207559008746 Response regulator receiver domain; Region: Response_reg; pfam00072 207559008747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008748 active site 207559008749 phosphorylation site [posttranslational modification] 207559008750 intermolecular recognition site; other site 207559008751 dimerization interface [polypeptide binding]; other site 207559008752 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559008753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559008754 active site 207559008755 phosphorylation site [posttranslational modification] 207559008756 intermolecular recognition site; other site 207559008757 dimerization interface [polypeptide binding]; other site 207559008758 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 207559008759 Walker A motif; other site 207559008760 ATP binding site [chemical binding]; other site 207559008761 Walker B motif; other site 207559008762 arginine finger; other site 207559008763 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 207559008764 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 207559008765 dimer interface [polypeptide binding]; other site 207559008766 PYR/PP interface [polypeptide binding]; other site 207559008767 TPP binding site [chemical binding]; other site 207559008768 substrate binding site [chemical binding]; other site 207559008769 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 207559008770 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 207559008771 Domain of unknown function; Region: EKR; cl11037 207559008772 4Fe-4S binding domain; Region: Fer4; cl02805 207559008773 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 207559008774 TPP-binding site [chemical binding]; other site 207559008775 dimer interface [polypeptide binding]; other site 207559008776 L-lactate permease; Region: Lactate_perm; cl00701 207559008777 FAD binding domain; Region: FAD_binding_4; pfam01565 207559008778 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 207559008779 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559008780 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 207559008781 Cysteine-rich domain; Region: CCG; pfam02754 207559008782 Cysteine-rich domain; Region: CCG; pfam02754 207559008783 phosphate acetyltransferase; Reviewed; Region: PRK05632 207559008784 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008785 DRTGG domain; Region: DRTGG; cl12147 207559008786 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 207559008787 Acetokinase family; Region: Acetate_kinase; cl01029 207559008788 acetate kinase; Region: ackA; TIGR00016 207559008789 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 207559008790 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559008791 DRTGG domain; Region: DRTGG; cl12147 207559008792 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 207559008793 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 207559008794 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 207559008795 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559008796 Cysteine-rich domain; Region: CCG; pfam02754 207559008797 Cysteine-rich domain; Region: CCG; pfam02754 207559008798 Cache domain; Region: Cache_2; cl07034 207559008799 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 207559008800 dimerization interface [polypeptide binding]; other site 207559008801 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008803 dimer interface [polypeptide binding]; other site 207559008804 putative CheW interface [polypeptide binding]; other site 207559008805 Uncharacterized conserved protein [Function unknown]; Region: COG2006 207559008806 Domain of unknown function (DUF362); Region: DUF362; pfam04015 207559008807 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 207559008808 active site residue [active] 207559008809 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 207559008810 diiron binding motif [ion binding]; other site 207559008811 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 207559008812 trimer interface [polypeptide binding]; other site 207559008813 active site 207559008814 substrate binding site [chemical binding]; other site 207559008815 CoA binding site [chemical binding]; other site 207559008816 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 207559008817 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 207559008818 putative active site [active] 207559008819 putative metal binding site [ion binding]; other site 207559008820 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 207559008821 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 207559008822 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 207559008823 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 207559008824 FeS/SAM binding site; other site 207559008825 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 207559008826 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 207559008827 S-adenosylmethionine binding site [chemical binding]; other site 207559008828 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 207559008829 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 207559008830 active site 207559008831 homodimer interface [polypeptide binding]; other site 207559008832 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559008833 NeuB family; Region: NeuB; cl00496 207559008834 SAF domain; Region: SAF; cl00555 207559008835 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559008836 ligand binding site; other site 207559008837 tetramer interface; other site 207559008838 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 207559008839 Cache domain; Region: Cache_2; cl07034 207559008840 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 207559008841 dimerization interface [polypeptide binding]; other site 207559008842 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008843 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008844 dimer interface [polypeptide binding]; other site 207559008845 putative CheW interface [polypeptide binding]; other site 207559008846 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 207559008847 G1 box; other site 207559008848 GTP/Mg2+ binding site [chemical binding]; other site 207559008849 Switch I region; other site 207559008850 G3 box; other site 207559008851 Switch II region; other site 207559008852 G4 box; other site 207559008853 G5 box; other site 207559008854 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 207559008855 putative hexamer interface [polypeptide binding]; other site 207559008856 putative hexagonal pore; other site 207559008857 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 207559008858 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559008859 putative hexamer interface [polypeptide binding]; other site 207559008860 putative hexagonal pore; other site 207559008861 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559008862 putative hexamer interface [polypeptide binding]; other site 207559008863 putative hexagonal pore; other site 207559008864 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 207559008865 SLBB domain; Region: SLBB; pfam10531 207559008866 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 207559008867 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559008868 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559008869 active site 207559008870 NAD binding site [chemical binding]; other site 207559008871 metal binding site [ion binding]; metal-binding site 207559008872 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559008873 Hexamer interface [polypeptide binding]; other site 207559008874 Putative hexagonal pore residue; other site 207559008875 ethanolamine utilization protein, PduT homolog; Region: eut_PduT; TIGR02526 207559008876 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 207559008877 putative hexamer interface [polypeptide binding]; other site 207559008878 putative hexagonal pore; other site 207559008879 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 207559008880 putative hexamer interface [polypeptide binding]; other site 207559008881 putative hexagonal pore; other site 207559008882 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 207559008883 Hexamer/Pentamer interface [polypeptide binding]; other site 207559008884 central pore; other site 207559008885 ethanolamine utilization protein; Region: eut_hyp; TIGR02536 207559008886 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 207559008887 Cell division protein FtsA; Region: FtsA; cl11496 207559008888 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 207559008889 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559008890 Propanediol utilisation protein PduL; Region: PduL; pfam06130 207559008891 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 207559008892 Hexamer interface [polypeptide binding]; other site 207559008893 Putative hexagonal pore residue; other site 207559008894 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559008895 putative catalytic cysteine [active] 207559008896 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008897 Hexamer interface [polypeptide binding]; other site 207559008898 Hexagonal pore residue; other site 207559008899 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 207559008900 4Fe-4S binding domain; Region: Fer4; cl02805 207559008901 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 207559008902 pyruvate formate-lyase; Region: PFL2-3; TIGR01774 207559008903 dimer interface [polypeptide binding]; other site 207559008904 active site 207559008905 glycine loop; other site 207559008906 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 207559008907 putative catalytic cysteine [active] 207559008908 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008909 Hexamer interface [polypeptide binding]; other site 207559008910 Hexagonal pore residue; other site 207559008911 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 207559008912 Hexamer interface [polypeptide binding]; other site 207559008913 Hexagonal pore residue; other site 207559008914 EamA-like transporter family; Region: EamA; cl01037 207559008915 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 207559008916 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559008917 DNA binding residues [nucleotide binding] 207559008918 drug binding residues [chemical binding]; other site 207559008919 dimer interface [polypeptide binding]; other site 207559008920 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 207559008921 Cache domain; Region: Cache_1; pfam02743 207559008922 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 207559008923 dimerization interface [polypeptide binding]; other site 207559008924 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559008925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008926 dimer interface [polypeptide binding]; other site 207559008927 putative CheW interface [polypeptide binding]; other site 207559008928 Cache domain; Region: Cache_1; pfam02743 207559008929 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 207559008930 dimerization interface [polypeptide binding]; other site 207559008931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559008932 dimer interface [polypeptide binding]; other site 207559008933 putative CheW interface [polypeptide binding]; other site 207559008934 YceI-like domain; Region: YceI; cl01001 207559008935 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 207559008936 aromatic amino acid transport protein; Region: araaP; TIGR00837 207559008937 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; cl16911 207559008938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 207559008939 BCCT family transporter; Region: BCCT; cl00569 207559008940 NMT1-like family; Region: NMT1_2; cl15260 207559008941 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 207559008942 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 207559008943 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559008944 metal binding site [ion binding]; metal-binding site 207559008945 active site 207559008946 I-site; other site 207559008947 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 207559008948 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559008949 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 207559008950 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 207559008951 ligand binding site [chemical binding]; other site 207559008952 subunit interaction site [polypeptide binding]; other site 207559008953 calcium binding site [ion binding]; other site 207559008954 DsrE/DsrF-like family; Region: DrsE; cl00672 207559008955 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 207559008956 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559008957 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 207559008958 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 207559008959 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 207559008960 active site 207559008961 dimer interface [polypeptide binding]; other site 207559008962 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 207559008963 Ligand Binding Site [chemical binding]; other site 207559008964 Molecular Tunnel; other site 207559008965 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; cl16911 207559008966 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 207559008967 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 207559008968 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 207559008969 Ligand binding site; other site 207559008970 Putative Catalytic site; other site 207559008971 DXD motif; other site 207559008972 Sodium:solute symporter family; Region: SSF; cl00456 207559008973 Protein of unknown function (DUF997); Region: DUF997; cl01614 207559008974 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 207559008975 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 207559008976 Walker A/P-loop; other site 207559008977 ATP binding site [chemical binding]; other site 207559008978 Q-loop/lid; other site 207559008979 ABC transporter signature motif; other site 207559008980 Walker B; other site 207559008981 D-loop; other site 207559008982 H-loop/switch region; other site 207559008983 NMT1-like family; Region: NMT1_2; cl15260 207559008984 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559008985 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559008986 dimer interface [polypeptide binding]; other site 207559008987 conserved gate region; other site 207559008988 putative PBP binding loops; other site 207559008989 ABC-ATPase subunit interface; other site 207559008990 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 207559008991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 207559008992 DNA-binding site [nucleotide binding]; DNA binding site 207559008993 UTRA domain; Region: UTRA; cl01230 207559008994 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 207559008995 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 207559008996 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 207559008997 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 207559008998 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 207559008999 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559009000 Walker A/P-loop; other site 207559009001 ATP binding site [chemical binding]; other site 207559009002 Q-loop/lid; other site 207559009003 ABC transporter signature motif; other site 207559009004 Walker B; other site 207559009005 D-loop; other site 207559009006 H-loop/switch region; other site 207559009007 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559009008 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 207559009009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009010 Walker A/P-loop; other site 207559009011 ATP binding site [chemical binding]; other site 207559009012 Q-loop/lid; other site 207559009013 ABC transporter signature motif; other site 207559009014 Walker B; other site 207559009015 D-loop; other site 207559009016 H-loop/switch region; other site 207559009017 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 207559009018 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 207559009019 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 207559009020 active site 207559009021 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 207559009022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009023 active site 207559009024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009025 Rubrerythrin [Energy production and conversion]; Region: COG1592 207559009026 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 207559009027 binuclear metal center [ion binding]; other site 207559009028 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 207559009029 iron binding site [ion binding]; other site 207559009030 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 207559009031 Helix-turn-helix domains; Region: HTH; cl00088 207559009032 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559009033 HTH-like domain; Region: HTH_21; pfam13276 207559009034 Integrase core domain; Region: rve; cl01316 207559009035 Integrase core domain; Region: rve_3; cl15866 207559009036 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 207559009037 non-specific DNA binding site [nucleotide binding]; other site 207559009038 salt bridge; other site 207559009039 sequence-specific DNA binding site [nucleotide binding]; other site 207559009040 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 207559009041 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 207559009042 Integrase core domain; Region: rve; cl01316 207559009043 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 207559009044 AAA domain; Region: AAA_22; pfam13401 207559009045 recombination factor protein RarA; Reviewed; Region: PRK13342 207559009046 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 207559009047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 207559009048 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 207559009049 IHF dimer interface [polypeptide binding]; other site 207559009050 IHF - DNA interface [nucleotide binding]; other site 207559009051 Protein of unknown function (DUF1018); Region: DUF1018; cl01815 207559009052 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559009053 HTH-like domain; Region: HTH_21; pfam13276 207559009054 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 207559009055 Integrase core domain; Region: rve; cl01316 207559009056 Integrase core domain; Region: rve_3; cl15866 207559009057 Helix-turn-helix domains; Region: HTH; cl00088 207559009058 Helix-turn-helix domains; Region: HTH; cl00088 207559009059 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 207559009060 Integrase core domain; Region: rve; cl01316 207559009061 Integrase core domain; Region: rve_3; cl15866 207559009062 Peptidase M15; Region: Peptidase_M15_3; cl01194 207559009063 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 207559009064 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 207559009065 Protein of unknown function (DUF935); Region: DUF935; pfam06074 207559009066 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 207559009067 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 207559009068 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 207559009069 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 207559009070 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 207559009071 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 207559009072 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 207559009073 Baseplate J-like protein; Region: Baseplate_J; cl01294 207559009074 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 207559009075 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 207559009076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009077 ABC transporter signature motif; other site 207559009078 Walker B; other site 207559009079 D-loop; other site 207559009080 H-loop/switch region; other site 207559009081 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559009082 Coenzyme A binding pocket [chemical binding]; other site 207559009083 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_2; cd08822 207559009084 putative active site [active] 207559009085 putative substrate binding site [chemical binding]; other site 207559009086 putative cosubstrate binding site; other site 207559009087 catalytic site [active] 207559009088 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 207559009089 active site 207559009090 DNA binding site [nucleotide binding] 207559009091 Int/Topo IB signature motif; other site 207559009092 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 207559009093 transposase/IS protein; Provisional; Region: PRK09183 207559009094 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 207559009095 Walker A motif; other site 207559009096 ATP binding site [chemical binding]; other site 207559009097 Walker B motif; other site 207559009098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 207559009099 Helix-turn-helix domains; Region: HTH; cl00088 207559009100 Integrase core domain; Region: rve; cl01316 207559009101 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 207559009102 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559009103 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 207559009104 putative dimer interface [polypeptide binding]; other site 207559009105 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 207559009106 Clp amino terminal domain; Region: Clp_N; pfam02861 207559009107 Clp amino terminal domain; Region: Clp_N; pfam02861 207559009108 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 207559009109 Walker A motif; other site 207559009110 ATP binding site [chemical binding]; other site 207559009111 Walker B motif; other site 207559009112 arginine finger; other site 207559009113 CHD5-like protein; Region: CHD5; pfam04420 207559009114 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 207559009115 Walker A motif; other site 207559009116 ATP binding site [chemical binding]; other site 207559009117 Walker B motif; other site 207559009118 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 207559009119 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 207559009120 putative active site [active] 207559009121 FtsH Extracellular; Region: FtsH_ext; pfam06480 207559009122 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 207559009123 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 207559009124 Walker A motif; other site 207559009125 ATP binding site [chemical binding]; other site 207559009126 Walker B motif; other site 207559009127 arginine finger; other site 207559009128 Peptidase family M41; Region: Peptidase_M41; pfam01434 207559009129 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 207559009130 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 207559009131 catalytic residues [active] 207559009132 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 207559009133 PAS fold; Region: PAS_3; pfam08447 207559009134 putative active site [active] 207559009135 heme pocket [chemical binding]; other site 207559009136 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 207559009137 PAS fold; Region: PAS_3; pfam08447 207559009138 putative active site [active] 207559009139 heme pocket [chemical binding]; other site 207559009140 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 207559009141 PAS domain; Region: PAS_9; pfam13426 207559009142 putative active site [active] 207559009143 heme pocket [chemical binding]; other site 207559009144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559009145 metal binding site [ion binding]; metal-binding site 207559009146 active site 207559009147 I-site; other site 207559009148 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 207559009149 Phosphate-starvation-inducible E; Region: PsiE; cl01264 207559009150 Peptidase family M48; Region: Peptidase_M48; cl12018 207559009151 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 207559009152 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 207559009153 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 207559009154 protein binding site [polypeptide binding]; other site 207559009155 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 207559009156 catalytic residues [active] 207559009157 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 207559009158 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 207559009159 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 207559009160 ATP binding site [chemical binding]; other site 207559009161 putative Mg++ binding site [ion binding]; other site 207559009162 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 207559009163 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559009164 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 207559009165 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 207559009166 Divergent AAA domain; Region: AAA_4; pfam04326 207559009167 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 207559009168 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559009169 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; cl16911 207559009170 HsdM N-terminal domain; Region: HsdM_N; pfam12161 207559009171 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 207559009172 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; cl16911 207559009173 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559009174 ERF superfamily; Region: ERF; pfam04404 207559009175 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 207559009176 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 207559009177 Walker A motif; other site 207559009178 ATP binding site [chemical binding]; other site 207559009179 Walker B motif; other site 207559009180 arginine finger; other site 207559009181 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 207559009182 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 207559009183 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 207559009184 metal ion-dependent adhesion site (MIDAS); other site 207559009185 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 207559009186 Fic family protein [Function unknown]; Region: COG3177 207559009187 Fic/DOC family; Region: Fic; cl00960 207559009188 chromosome segregation protein; Provisional; Region: PRK03918 207559009189 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 207559009190 Mechanosensitive ion channel; Region: MS_channel; pfam00924 207559009191 DNA polymerase I; Provisional; Region: PRK05755 207559009192 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 207559009193 active site 207559009194 metal binding site 1 [ion binding]; metal-binding site 207559009195 putative 5' ssDNA interaction site; other site 207559009196 metal binding site 3; metal-binding site 207559009197 metal binding site 2 [ion binding]; metal-binding site 207559009198 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 207559009199 putative DNA binding site [nucleotide binding]; other site 207559009200 putative metal binding site [ion binding]; other site 207559009201 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559009202 active site 207559009203 substrate binding site [chemical binding]; other site 207559009204 catalytic site [active] 207559009205 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 207559009206 active site 207559009207 DNA binding site [nucleotide binding] 207559009208 catalytic site [active] 207559009209 PUA domain; Region: PUA; cl00607 207559009210 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 207559009211 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 207559009212 putative RNA binding site [nucleotide binding]; other site 207559009213 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; cl16911 207559009214 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 207559009215 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 207559009216 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559009217 catalytic residue [active] 207559009218 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 207559009219 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 207559009220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009221 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 207559009222 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 207559009223 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 207559009224 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 207559009225 Zn2+ binding site [ion binding]; other site 207559009226 Mg2+ binding site [ion binding]; other site 207559009227 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 207559009228 AMP-binding enzyme; Region: AMP-binding; cl15778 207559009229 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 207559009230 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 207559009231 ATP-grasp domain; Region: ATP-grasp_4; cl03087 207559009232 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 207559009233 AIR carboxylase; Region: AIRC; cl00310 207559009234 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 207559009235 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 207559009236 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009237 ATP binding site [chemical binding]; other site 207559009238 Mg2+ binding site [ion binding]; other site 207559009239 G-X-G motif; other site 207559009240 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 207559009241 ATP binding site [chemical binding]; other site 207559009242 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 207559009243 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009245 active site 207559009246 phosphorylation site [posttranslational modification] 207559009247 intermolecular recognition site; other site 207559009248 dimerization interface [polypeptide binding]; other site 207559009249 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 207559009250 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 207559009251 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 207559009252 dimer interface [polypeptide binding]; other site 207559009253 phosphorylation site [posttranslational modification] 207559009254 Histidine kinase-like ATPases; This family includes several ATP-binding 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 207559009255 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 207559009256 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 207559009257 NADP binding site [chemical binding]; other site 207559009258 homopentamer interface [polypeptide binding]; other site 207559009259 substrate binding site [chemical binding]; other site 207559009260 active site 207559009261 Flagellin N-methylase; Region: FliB; cl00497 207559009262 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 207559009263 Catalytic domain of Protein Kinases; Region: PKc; cd00180 207559009264 active site 207559009265 ATP binding site [chemical binding]; other site 207559009266 substrate binding site [chemical binding]; other site 207559009267 activation loop (A-loop); other site 207559009268 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 207559009269 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559009270 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 207559009271 active site 207559009272 metal binding site [ion binding]; metal-binding site 207559009273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009274 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 207559009275 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 207559009276 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 207559009277 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 207559009278 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 207559009279 Helix-turn-helix domains; Region: HTH; cl00088 207559009280 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559009281 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 207559009282 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 207559009283 Helix-turn-helix domains; Region: HTH; cl00088 207559009284 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 207559009285 putative dimerization interface [polypeptide binding]; other site 207559009286 LysE type translocator; Region: LysE; cl00565 207559009287 isocitrate dehydrogenase; Validated; Region: PRK06451 207559009288 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 207559009289 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 207559009290 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 207559009291 substrate binding site [chemical binding]; other site 207559009292 active site 207559009293 catalytic residues [active] 207559009294 heterodimer interface [polypeptide binding]; other site 207559009295 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 207559009296 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 207559009297 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009298 catalytic residue [active] 207559009299 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 monomeric; Region: PRAI; cd00405 207559009300 active site 207559009301 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 207559009302 active site 207559009303 ribulose/triose binding site [chemical binding]; other site 207559009304 phosphate binding site [ion binding]; other site 207559009305 substrate (anthranilate) binding pocket [chemical binding]; other site 207559009306 product (indole) binding pocket [chemical binding]; other site 207559009307 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 207559009308 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 207559009309 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559009310 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559009311 glutamine binding [chemical binding]; other site 207559009312 catalytic triad [active] 207559009313 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 207559009314 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 207559009315 chorismate binding enzyme; Region: Chorismate_bind; cl10555 207559009316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009317 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 207559009318 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 207559009319 hinge; other site 207559009320 active site 207559009321 Chorismate mutase type II; Region: CM_2; cl00693 207559009322 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 207559009323 Prephenate dehydratase; Region: PDT; pfam00800 207559009324 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 207559009325 putative L-Phe binding site [chemical binding]; other site 207559009326 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 207559009327 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]; Region: COG1465 207559009328 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009329 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009330 putative active site; other site 207559009331 catalytic residue [active] 207559009332 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009333 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009334 putative active site; other site 207559009335 catalytic residue [active] 207559009336 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 207559009337 Nitrogen regulatory protein P-II; Region: P-II; cl00412 207559009338 Nitrogen regulatory protein P-II; Region: P-II; smart00938 207559009339 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 207559009340 DHH family; Region: DHH; pfam01368 207559009341 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 207559009342 homotrimer interface [polypeptide binding]; other site 207559009343 Walker A motif; other site 207559009344 GTP binding site [chemical binding]; other site 207559009345 Walker B motif; other site 207559009346 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 207559009347 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 207559009348 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559009349 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009350 Family description; Region: UvrD_C_2; cl15862 207559009351 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 207559009352 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; cl16911 207559009353 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 207559009354 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 207559009355 putative active site; other site 207559009356 catalytic residue [active] 207559009357 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 207559009358 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 207559009359 Cl- selectivity filter; other site 207559009360 Cl- binding residues [ion binding]; other site 207559009361 pore gating glutamate residue; other site 207559009362 dimer interface [polypeptide binding]; other site 207559009363 FOG: CBS domain [General function prediction only]; Region: COG0517 207559009364 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 207559009365 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 207559009366 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 207559009367 active site 207559009368 Riboflavin kinase; Region: Flavokinase; cl03312 207559009369 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 207559009370 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 207559009371 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009372 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009373 dimer interface [polypeptide binding]; other site 207559009374 putative CheW interface [polypeptide binding]; other site 207559009375 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 207559009376 Peptidase family M48; Region: Peptidase_M48; cl12018 207559009377 Helix-turn-helix domains; Region: HTH; cl00088 207559009378 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 207559009379 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 207559009380 molybdopterin cofactor binding site; other site 207559009381 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 207559009382 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 207559009383 molybdopterin cofactor binding site; other site 207559009384 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 207559009385 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 207559009386 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 207559009387 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 207559009388 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 207559009389 active site 207559009390 Int/Topo IB signature motif; other site 207559009391 catalytic residues [active] 207559009392 DNA binding site [nucleotide binding] 207559009393 TOBE domain; Region: TOBE_2; cl01440 207559009394 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 207559009395 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 207559009396 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009398 dimer interface [polypeptide binding]; other site 207559009399 conserved gate region; other site 207559009400 putative PBP binding loops; other site 207559009401 ABC-ATPase subunit interface; other site 207559009402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009403 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 207559009404 Walker A/P-loop; other site 207559009405 ATP binding site [chemical binding]; other site 207559009406 Q-loop/lid; other site 207559009407 ABC transporter signature motif; other site 207559009408 Walker B; other site 207559009409 D-loop; other site 207559009410 H-loop/switch region; other site 207559009411 Helix-turn-helix domains; Region: HTH; cl00088 207559009412 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 207559009413 putative alcohol dehydrogenase; Provisional; Region: PRK09860 207559009414 dimer interface [polypeptide binding]; other site 207559009415 active site 207559009416 metal binding site [ion binding]; metal-binding site 207559009417 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 207559009418 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559009419 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 207559009420 Cysteine-rich domain; Region: CCG; pfam02754 207559009421 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 207559009422 4Fe-4S binding domain; Region: Fer4; cl02805 207559009423 4Fe-4S binding domain; Region: Fer4; cl02805 207559009424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009425 4Fe-4S binding domain; Region: Fer4; cl02805 207559009426 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 207559009427 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 207559009428 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 207559009429 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 207559009430 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 207559009431 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 207559009432 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 207559009433 FAD binding pocket [chemical binding]; other site 207559009434 FAD binding motif [chemical binding]; other site 207559009435 phosphate binding motif [ion binding]; other site 207559009436 beta-alpha-beta structure motif; other site 207559009437 NAD binding pocket [chemical binding]; other site 207559009438 Iron coordination center [ion binding]; other site 207559009439 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 207559009440 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 207559009441 active site 207559009442 NAD binding site [chemical binding]; other site 207559009443 metal binding site [ion binding]; metal-binding site 207559009444 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559009445 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 207559009446 dimer interface [polypeptide binding]; other site 207559009447 phosphorylation site [posttranslational modification] 207559009448 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009449 ATP binding site [chemical binding]; other site 207559009450 Mg2+ binding site [ion binding]; other site 207559009451 G-X-G motif; other site 207559009452 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559009453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009454 active site 207559009455 phosphorylation site [posttranslational modification] 207559009456 intermolecular recognition site; other site 207559009457 dimerization interface [polypeptide binding]; other site 207559009458 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 207559009459 Walker A motif; other site 207559009460 ATP binding site [chemical binding]; other site 207559009461 Walker B motif; other site 207559009462 arginine finger; other site 207559009463 Helix-turn-helix domains; Region: HTH; cl00088 207559009464 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 207559009465 putative MPT binding site; other site 207559009466 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 207559009467 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 207559009468 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 207559009469 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 207559009470 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 207559009471 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 207559009472 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 207559009473 Cysteine-rich domain; Region: CCG; pfam02754 207559009474 Methyltransferase domain; Region: Methyltransf_31; pfam13847 207559009475 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 207559009476 S-adenosylmethionine binding site [chemical binding]; other site 207559009477 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 207559009478 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 207559009479 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 207559009480 FeS/SAM binding site; other site 207559009481 AMP-binding enzyme; Region: AMP-binding; cl15778 207559009482 AMP-binding enzyme; Region: AMP-binding; cl15778 207559009483 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 207559009484 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 207559009485 XdhC Rossmann domain; Region: XdhC_C; pfam13478 207559009486 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 207559009487 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 207559009488 Ligand binding site; other site 207559009489 metal-binding site 207559009490 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 207559009491 Transposase domain (DUF772); Region: DUF772; pfam05598 207559009492 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559009493 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559009494 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 207559009495 catalytic core [active] 207559009496 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 207559009497 aspartate ammonia-lyase; Provisional; Region: PRK13353 207559009498 Aspartase; Region: Aspartase; cd01357 207559009499 active sites [active] 207559009500 tetramer interface [polypeptide binding]; other site 207559009501 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 207559009502 OpgC protein; Region: OpgC_C; cl00792 207559009503 Acyltransferase family; Region: Acyl_transf_3; pfam01757 207559009504 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 207559009505 dimerization interface [polypeptide binding]; other site 207559009506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 207559009507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 207559009508 dimer interface [polypeptide binding]; other site 207559009509 putative CheW interface [polypeptide binding]; other site 207559009510 Domain of unknown function DUF302; Region: DUF302; cl01364 207559009511 NlpE N-terminal domain; Region: NlpE; cl01138 207559009512 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 207559009513 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 207559009514 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 207559009515 NAD(P) binding site [chemical binding]; other site 207559009516 shikimate binding site; other site 207559009517 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 207559009518 ATP phosphoribosyltransferase; Region: HisG; cl15266 207559009519 HisG, C-terminal domain; Region: HisG_C; cl06867 207559009520 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 207559009521 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 207559009522 homodimer interaction site [polypeptide binding]; other site 207559009523 cofactor binding site; other site 207559009524 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 207559009525 intersubunit interface [polypeptide binding]; other site 207559009526 active site 207559009527 Zn2+ binding site [ion binding]; other site 207559009528 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 207559009529 thiamine monophosphate kinase; Provisional; Region: PRK05731 207559009530 ATP binding site [chemical binding]; other site 207559009531 dimerization interface [polypeptide binding]; other site 207559009532 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 207559009533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009534 Family description; Region: UvrD_C_2; cl15862 207559009535 Sulfatase; Region: Sulfatase; cl10460 207559009536 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 207559009537 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 catalyze...; Region: LT_GEWL; cd00254 207559009538 N-acetyl-D-glucosamine binding site [chemical binding]; other site 207559009539 catalytic residue [active] 207559009540 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009541 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009542 putative peptidoglycan binding site; other site 207559009543 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009544 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009545 putative peptidoglycan binding site; other site 207559009546 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 207559009547 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 207559009548 putative peptidoglycan binding site; other site 207559009549 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 207559009550 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 207559009551 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 207559009552 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 207559009553 FliP family; Region: FliP; cl00593 207559009554 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 207559009555 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 207559009556 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 207559009557 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009558 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009559 ligand binding site [chemical binding]; other site 207559009560 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 207559009561 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009562 ligand binding site [chemical binding]; other site 207559009563 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559009564 flagellar motor protein MotP; Reviewed; Region: PRK06926 207559009565 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 207559009566 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 207559009567 catalytic residue [active] 207559009568 GTPase Era; Reviewed; Region: era; PRK00089 207559009569 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 207559009570 G1 box; other site 207559009571 GTP/Mg2+ binding site [chemical binding]; other site 207559009572 Switch I region; other site 207559009573 G2 box; other site 207559009574 Switch II region; other site 207559009575 G3 box; other site 207559009576 G4 box; other site 207559009577 G5 box; other site 207559009578 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 207559009579 Helix-turn-helix domains; Region: HTH; cl00088 207559009580 Winged helix-turn helix; Region: HTH_29; pfam13551 207559009581 Helix-turn-helix domains; Region: HTH; cl00088 207559009582 Integrase core domain; Region: rve; cl01316 207559009583 Sugar fermentation stimulation protein; Region: SfsA; cl00647 207559009584 aspartate aminotransferase; Provisional; Region: PRK05764 207559009585 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 207559009586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009587 homodimer interface [polypeptide binding]; other site 207559009588 catalytic residue [active] 207559009589 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 207559009590 active site 207559009591 dimer interface [polypeptide binding]; other site 207559009592 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 207559009593 dimer interface [polypeptide binding]; other site 207559009594 active site 207559009595 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 207559009596 dimer interface [polypeptide binding]; other site 207559009597 phosphorylation site [posttranslational modification] 207559009598 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009599 ATP binding site [chemical binding]; other site 207559009600 Mg2+ binding site [ion binding]; other site 207559009601 G-X-G motif; other site 207559009602 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 207559009603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009604 active site 207559009605 phosphorylation site [posttranslational modification] 207559009606 intermolecular recognition site; other site 207559009607 dimerization interface [polypeptide binding]; other site 207559009608 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 207559009609 Walker A motif; other site 207559009610 ATP binding site [chemical binding]; other site 207559009611 Walker B motif; other site 207559009612 arginine finger; other site 207559009613 Helix-turn-helix domains; Region: HTH; cl00088 207559009614 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 207559009615 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 207559009616 phosphate binding site [ion binding]; other site 207559009617 putative substrate binding pocket [chemical binding]; other site 207559009618 dimer interface [polypeptide binding]; other site 207559009619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009620 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 207559009621 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 207559009622 ATP binding site [chemical binding]; other site 207559009623 putative Mg++ binding site [ion binding]; other site 207559009624 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 207559009625 nucleotide binding region [chemical binding]; other site 207559009626 ATP-binding site [chemical binding]; other site 207559009627 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 207559009628 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 207559009629 active site 207559009630 substrate binding site [chemical binding]; other site 207559009631 catalytic site [active] 207559009632 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 207559009633 FAD binding domain; Region: FAD_binding_4; pfam01565 207559009634 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009635 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 207559009636 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 207559009637 active site 207559009638 nucleotide binding site [chemical binding]; other site 207559009639 HIGH motif; other site 207559009640 KMSKS motif; other site 207559009641 Flagellin N-methylase; Region: FliB; cl00497 207559009642 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 207559009643 active site 207559009644 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 207559009645 HIGH motif; other site 207559009646 dimer interface [polypeptide binding]; other site 207559009647 KMSKS motif; other site 207559009648 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 207559009649 active site 207559009650 putative substrate binding region [chemical binding]; other site 207559009651 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009653 active site 207559009654 phosphorylation site [posttranslational modification] 207559009655 intermolecular recognition site; other site 207559009656 dimerization interface [polypeptide binding]; other site 207559009657 Ubiquitin-like proteins; Region: UBQ; cl00155 207559009658 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 207559009659 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 207559009660 Ligand Binding Site [chemical binding]; other site 207559009661 TIGR00269 family protein; Region: TIGR00269 207559009662 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 207559009663 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 207559009664 active site 207559009665 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 207559009666 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 207559009667 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 207559009668 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 207559009669 rRNA binding site [nucleotide binding]; other site 207559009670 predicted 30S ribosome binding site; other site 207559009671 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 207559009672 active site 207559009673 metal binding site [ion binding]; metal-binding site 207559009674 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 207559009675 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 207559009676 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 207559009677 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 207559009678 Glutamine amidotransferase class-I; Region: GATase; pfam00117 207559009679 glutamine binding [chemical binding]; other site 207559009680 catalytic triad [active] 207559009681 chorismate binding enzyme; Region: Chorismate_bind; cl10555 207559009682 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 207559009683 homodimer interface [polypeptide binding]; other site 207559009684 substrate-cofactor binding pocket; other site 207559009685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009686 catalytic residue [active] 207559009687 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 207559009688 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559009689 substrate binding pocket [chemical binding]; other site 207559009690 membrane-bound complex binding site; other site 207559009691 hinge residues; other site 207559009692 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 207559009693 active site 207559009694 DNA polymerase IV; Validated; Region: PRK02406 207559009695 DNA binding site [nucleotide binding] 207559009696 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 207559009697 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 207559009698 active site 207559009699 metal binding site [ion binding]; metal-binding site 207559009700 DNA binding site [nucleotide binding] 207559009701 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559009702 Uncharacterized conserved protein [Function unknown]; Region: COG4717 207559009703 Predicted GTPase [General function prediction only]; Region: COG2403 207559009704 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 207559009705 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 207559009706 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 207559009707 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 207559009708 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 207559009709 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 207559009710 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 207559009711 Gram-negative bacterial tonB protein; Region: TonB; cl10048 207559009712 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 207559009713 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009714 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009715 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009716 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 207559009717 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 207559009718 ligand binding site [chemical binding]; other site 207559009719 putative oxidoreductase; Provisional; Region: PRK12831 207559009720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009722 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 207559009723 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 207559009724 FAD binding pocket [chemical binding]; other site 207559009725 FAD binding motif [chemical binding]; other site 207559009726 phosphate binding motif [ion binding]; other site 207559009727 beta-alpha-beta structure motif; other site 207559009728 NAD binding pocket [chemical binding]; other site 207559009729 Iron coordination center [ion binding]; other site 207559009730 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 207559009731 Malic enzyme, N-terminal domain; Region: malic; pfam00390 207559009732 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 207559009733 putative NAD(P) binding site [chemical binding]; other site 207559009734 Fumarase C-terminus; Region: Fumerase_C; cl00795 207559009735 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 207559009736 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 207559009737 putative trimer interface [polypeptide binding]; other site 207559009738 putative CoA binding site [chemical binding]; other site 207559009739 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559009740 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559009741 Sulfate transporter family; Region: Sulfate_transp; cl15842 207559009742 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 207559009743 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 207559009744 TPR repeat; Region: TPR_11; pfam13414 207559009745 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 207559009746 binding surface 207559009747 TPR motif; other site 207559009748 TPR repeat; Region: TPR_11; pfam13414 207559009749 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 207559009750 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 207559009751 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 207559009752 catalytic site [active] 207559009753 subunit interface [polypeptide binding]; other site 207559009754 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559009755 Ligand binding site; other site 207559009756 oligomer interface; other site 207559009757 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 207559009758 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 207559009759 G1 box; other site 207559009760 putative GEF interaction site [polypeptide binding]; other site 207559009761 GTP/Mg2+ binding site [chemical binding]; other site 207559009762 Switch I region; other site 207559009763 G2 box; other site 207559009764 G3 box; other site 207559009765 Switch II region; other site 207559009766 G4 box; other site 207559009767 G5 box; other site 207559009768 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 207559009769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 207559009770 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 207559009771 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 207559009772 dimer interface [polypeptide binding]; other site 207559009773 active site 207559009774 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 207559009775 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 207559009776 Transcriptional regulators [Transcription]; Region: PurR; COG1609 207559009777 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 207559009778 DNA binding site [nucleotide binding] 207559009779 domain linker motif; other site 207559009780 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 207559009781 dimerization interface [polypeptide binding]; other site 207559009782 ligand binding site [chemical binding]; other site 207559009783 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 207559009784 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 207559009785 active site 207559009786 catalytic residues [active] 207559009787 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 207559009788 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 207559009789 Walker A/P-loop; other site 207559009790 ATP binding site [chemical binding]; other site 207559009791 Q-loop/lid; other site 207559009792 ABC transporter signature motif; other site 207559009793 Walker B; other site 207559009794 D-loop; other site 207559009795 H-loop/switch region; other site 207559009796 TOBE domain; Region: TOBE_2; cl01440 207559009797 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009798 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009800 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 207559009801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009802 dimer interface [polypeptide binding]; other site 207559009803 conserved gate region; other site 207559009804 putative PBP binding loops; other site 207559009805 ABC-ATPase subunit interface; other site 207559009806 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 207559009807 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 207559009808 putative acyl-acceptor binding pocket; other site 207559009809 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 207559009810 Protein of unknown function (DUF523); Region: DUF523; cl00733 207559009811 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 207559009812 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 207559009813 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 207559009814 Walker A/P-loop; other site 207559009815 ATP binding site [chemical binding]; other site 207559009816 Q-loop/lid; other site 207559009817 ABC transporter signature motif; other site 207559009818 Walker B; other site 207559009819 D-loop; other site 207559009820 H-loop/switch region; other site 207559009821 TOBE domain; Region: TOBE_2; cl01440 207559009822 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559009823 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009824 dimer interface [polypeptide binding]; other site 207559009825 conserved gate region; other site 207559009826 putative PBP binding loops; other site 207559009827 ABC-ATPase subunit interface; other site 207559009828 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 207559009829 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559009830 dimer interface [polypeptide binding]; other site 207559009831 ABC-ATPase subunit interface; other site 207559009832 putative PBP binding loops; other site 207559009833 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 207559009834 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 207559009835 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 207559009836 metal binding site 2 [ion binding]; metal-binding site 207559009837 putative DNA binding helix; other site 207559009838 metal binding site 1 [ion binding]; metal-binding site 207559009839 dimer interface [polypeptide binding]; other site 207559009840 structural Zn2+ binding site [ion binding]; other site 207559009841 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 207559009842 substrate binding site [chemical binding]; other site 207559009843 nucleotide binding site [chemical binding]; other site 207559009844 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 207559009845 trimer interface [polypeptide binding]; other site 207559009846 active site 207559009847 substrate binding site [chemical binding]; other site 207559009848 CoA binding site [chemical binding]; other site 207559009849 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 207559009850 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 207559009851 active site 207559009852 dimer interface [polypeptide binding]; other site 207559009853 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 207559009854 Ligand Binding Site [chemical binding]; other site 207559009855 Molecular Tunnel; other site 207559009856 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 207559009857 active site 207559009858 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 207559009859 ligand binding site; other site 207559009860 tetramer interface; other site 207559009861 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 207559009862 active site 207559009863 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 207559009864 trimer interface [polypeptide binding]; other site 207559009865 active site 207559009866 substrate binding site [chemical binding]; other site 207559009867 CoA binding site [chemical binding]; other site 207559009868 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 207559009869 NeuB family; Region: NeuB; cl00496 207559009870 SAF domain; Region: SAF; cl00555 207559009871 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 207559009872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559009873 Walker A/P-loop; other site 207559009874 ATP binding site [chemical binding]; other site 207559009875 Q-loop/lid; other site 207559009876 ABC transporter signature motif; other site 207559009877 Walker B; other site 207559009878 D-loop; other site 207559009879 H-loop/switch region; other site 207559009880 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 207559009881 dimerization interface [polypeptide binding]; other site 207559009882 putative DNA binding site [nucleotide binding]; other site 207559009883 putative Zn2+ binding site [ion binding]; other site 207559009884 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 207559009885 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; cl09155 207559009886 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559009887 extended (e) SDRs; Region: SDR_e; cd08946 207559009888 NAD(P) binding site [chemical binding]; other site 207559009889 active site 207559009890 substrate binding site [chemical binding]; other site 207559009891 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 207559009892 Ligand binding site; other site 207559009893 oligomer interface; other site 207559009894 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 207559009895 trimer interface [polypeptide binding]; other site 207559009896 active site 207559009897 substrate binding site [chemical binding]; other site 207559009898 CoA binding site [chemical binding]; other site 207559009899 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 207559009900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009901 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 207559009902 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 207559009903 motif II; other site 207559009904 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 207559009905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559009906 NAD(P) binding site [chemical binding]; other site 207559009907 active site 207559009908 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 207559009909 trimer interface [polypeptide binding]; other site 207559009910 active site 207559009911 substrate binding site [chemical binding]; other site 207559009912 CoA binding site [chemical binding]; other site 207559009913 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 207559009914 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 207559009915 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 207559009916 catalytic residue [active] 207559009917 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 207559009918 substrate binding site; other site 207559009919 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 207559009920 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 207559009921 NAD binding site [chemical binding]; other site 207559009922 homotetramer interface [polypeptide binding]; other site 207559009923 homodimer interface [polypeptide binding]; other site 207559009924 substrate binding site [chemical binding]; other site 207559009925 active site 207559009926 Cupin domain; Region: Cupin_2; cl09118 207559009927 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 207559009928 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 207559009929 inhibitor-cofactor binding pocket; inhibition site 207559009930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 207559009931 catalytic residue [active] 207559009932 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 207559009933 active site 207559009934 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 207559009935 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 207559009936 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 207559009937 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 207559009938 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559009939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 207559009940 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 207559009941 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 207559009942 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559009943 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 207559009944 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 207559009945 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 207559009946 dimer interface [polypeptide binding]; other site 207559009947 putative tRNA-binding site [nucleotide binding]; other site 207559009948 translocation protein TolB; Provisional; Region: tolB; PRK05137 207559009949 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 207559009950 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 207559009951 Cysteine-rich domain; Region: CCG; pfam02754 207559009952 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559009953 heme-binding residues [chemical binding]; other site 207559009954 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 207559009955 Ligand Binding Site [chemical binding]; other site 207559009956 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 207559009957 Ligand Binding Site [chemical binding]; other site 207559009958 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009959 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009960 active site 207559009961 phosphorylation site [posttranslational modification] 207559009962 intermolecular recognition site; other site 207559009963 dimerization interface [polypeptide binding]; other site 207559009964 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009966 active site 207559009967 phosphorylation site [posttranslational modification] 207559009968 intermolecular recognition site; other site 207559009969 dimerization interface [polypeptide binding]; other site 207559009970 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009971 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009972 active site 207559009973 phosphorylation site [posttranslational modification] 207559009974 intermolecular recognition site; other site 207559009975 dimerization interface [polypeptide binding]; other site 207559009976 PAS domain; Region: PAS_9; pfam13426 207559009977 sensory histidine kinase AtoS; Provisional; Region: PRK11360 207559009978 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009979 ATP binding site [chemical binding]; other site 207559009980 Mg2+ binding site [ion binding]; other site 207559009981 G-X-G motif; other site 207559009982 Response regulator receiver domain; Region: Response_reg; pfam00072 207559009983 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 207559009984 active site 207559009985 phosphorylation site [posttranslational modification] 207559009986 intermolecular recognition site; other site 207559009987 dimerization interface [polypeptide binding]; other site 207559009988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 207559009989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559009990 ATP binding site [chemical binding]; other site 207559009991 Mg2+ binding site [ion binding]; other site 207559009992 G-X-G motif; other site 207559009993 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 207559009994 PAS fold; Region: PAS_4; pfam08448 207559009995 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 207559009996 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 207559009997 putative active site [active] 207559009998 heme pocket [chemical binding]; other site 207559009999 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 207559010000 dimer interface [polypeptide binding]; other site 207559010001 phosphorylation site [posttranslational modification] 207559010002 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010003 ATP binding site [chemical binding]; other site 207559010004 Mg2+ binding site [ion binding]; other site 207559010005 G-X-G motif; other site 207559010006 Helix-turn-helix domains; Region: HTH; cl00088 207559010007 Rrf2 family protein; Region: rrf2_super; TIGR00738 207559010008 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 207559010009 dimerization interface [polypeptide binding]; other site 207559010010 putative DNA binding site [nucleotide binding]; other site 207559010011 putative Zn2+ binding site [ion binding]; other site 207559010012 Predicted permeases [General function prediction only]; Region: COG0701 207559010013 Predicted permease; Region: DUF318; pfam03773 207559010014 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559010015 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559010016 dimer interface [polypeptide binding]; other site 207559010017 conserved gate region; other site 207559010018 ABC-ATPase subunit interface; other site 207559010019 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 207559010020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559010021 dimer interface [polypeptide binding]; other site 207559010022 conserved gate region; other site 207559010023 ABC-ATPase subunit interface; other site 207559010024 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559010025 ABC transporter signature motif; other site 207559010026 Walker B; other site 207559010027 D-loop; other site 207559010028 H-loop/switch region; other site 207559010029 Transposase domain (DUF772); Region: DUF772; pfam05598 207559010030 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 207559010031 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 207559010032 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 207559010033 Walker A/P-loop; other site 207559010034 ATP binding site [chemical binding]; other site 207559010035 Q-loop/lid; other site 207559010036 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 207559010037 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 207559010038 substrate binding pocket [chemical binding]; other site 207559010039 membrane-bound complex binding site; other site 207559010040 hinge residues; other site 207559010041 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 207559010042 Helix-turn-helix domains; Region: HTH; cl00088 207559010043 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 207559010044 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 207559010045 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559010046 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 207559010047 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 207559010048 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 207559010049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 207559010050 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 207559010051 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 207559010052 GAF domain; Region: GAF_2; pfam13185 207559010053 GAF domain; Region: GAF; cl15785 207559010054 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 207559010055 PAS domain S-box; Region: sensory_box; TIGR00229 207559010056 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 207559010057 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 207559010058 DNA binding residues [nucleotide binding] 207559010059 dimerization interface [polypeptide binding]; other site 207559010060 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 207559010061 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 207559010062 substrate binding pocket [chemical binding]; other site 207559010063 membrane-bound complex binding site; other site 207559010064 hinge residues; other site 207559010065 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 207559010066 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 207559010067 dimer interface [polypeptide binding]; other site 207559010068 conserved gate region; other site 207559010069 putative PBP binding loops; other site 207559010070 ABC-ATPase subunit interface; other site 207559010071 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 207559010072 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 207559010073 Walker A/P-loop; other site 207559010074 ATP binding site [chemical binding]; other site 207559010075 Q-loop/lid; other site 207559010076 ABC transporter signature motif; other site 207559010077 Walker B; other site 207559010078 D-loop; other site 207559010079 H-loop/switch region; other site 207559010080 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 207559010081 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 207559010082 P-loop; other site 207559010083 Magnesium ion binding site [ion binding]; other site 207559010084 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 207559010085 Magnesium ion binding site [ion binding]; other site 207559010086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 207559010087 metal binding site [ion binding]; metal-binding site 207559010088 active site 207559010089 I-site; other site 207559010090 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 207559010091 heme-binding residues [chemical binding]; other site 207559010092 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 207559010093 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 207559010094 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 207559010095 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; cl16911 207559010096 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 207559010097 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 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 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 207559010102 binding surface 207559010103 TPR motif; other site 207559010104 TPR repeat; Region: TPR_11; pfam13414 207559010105 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 207559010106 TPR repeat; Region: TPR_11; pfam13414 207559010107 binding surface 207559010108 TPR motif; other site 207559010109 NIMA-related protein kinase; Provisional; Region: PTZ00267 207559010110 Flagellin N-methylase; Region: FliB; cl00497 207559010111 Ferredoxin [Energy production and conversion]; Region: COG1146 207559010112 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 207559010113 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 207559010114 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 207559010115 protein binding site [polypeptide binding]; other site 207559010116 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 207559010117 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 207559010118 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 207559010119 putative dimer interface [polypeptide binding]; other site 207559010120 active site pocket [active] 207559010121 putative cataytic base [active] 207559010122 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 207559010123 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 207559010124 Walker A/P-loop; other site 207559010125 ATP binding site [chemical binding]; other site 207559010126 Q-loop/lid; other site 207559010127 ABC transporter signature motif; other site 207559010128 Walker B; other site 207559010129 D-loop; other site 207559010130 H-loop/switch region; other site 207559010131 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 207559010132 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 207559010133 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 207559010134 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 207559010135 Phosphate transporter family; Region: PHO4; cl00396 207559010136 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 207559010137 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 207559010138 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 207559010139 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 207559010140 dimer interface [polypeptide binding]; other site 207559010141 phosphorylation site [posttranslational modification] 207559010142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 207559010143 ATP binding site [chemical binding]; other site 207559010144 Mg2+ binding site [ion binding]; other site 207559010145 G-X-G motif; other site 207559010146 putative peptidase; Provisional; Region: PRK11649