-- dump date 20120504_162357 -- class Genbank::misc_feature -- table misc_feature_note -- id note 176280000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 176280000002 hypothetical protein; Validated; Region: PRK06672 176280000003 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 176280000004 Walker A motif; other site 176280000005 ATP binding site [chemical binding]; other site 176280000006 Walker B motif; other site 176280000007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000008 arginine finger; other site 176280000009 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 176280000010 DnaA box-binding interface [nucleotide binding]; other site 176280000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 176280000012 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 176280000013 putative DNA binding surface [nucleotide binding]; other site 176280000014 dimer interface [polypeptide binding]; other site 176280000015 beta-clamp/clamp loader binding surface; other site 176280000016 beta-clamp/translesion DNA polymerase binding surface; other site 176280000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 176280000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 176280000019 Walker A/P-loop; other site 176280000020 ATP binding site [chemical binding]; other site 176280000021 Q-loop/lid; other site 176280000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000023 ABC transporter signature motif; other site 176280000024 Walker B; other site 176280000025 D-loop; other site 176280000026 H-loop/switch region; other site 176280000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 176280000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280000029 Mg2+ binding site [ion binding]; other site 176280000030 G-X-G motif; other site 176280000031 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 176280000032 anchoring element; other site 176280000033 dimer interface [polypeptide binding]; other site 176280000034 ATP binding site [chemical binding]; other site 176280000035 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 176280000036 active site 176280000037 putative metal-binding site [ion binding]; other site 176280000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 176280000039 DNA gyrase subunit A; Validated; Region: PRK05560 176280000040 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 176280000041 CAP-like domain; other site 176280000042 active site 176280000043 primary dimer interface [polypeptide binding]; other site 176280000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280000050 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 176280000051 putative substrate binding site [chemical binding]; other site 176280000052 putative ATP binding site [chemical binding]; other site 176280000053 seryl-tRNA synthetase; Provisional; Region: PRK05431 176280000054 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 176280000055 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 176280000056 dimer interface [polypeptide binding]; other site 176280000057 active site 176280000058 motif 1; other site 176280000059 motif 2; other site 176280000060 motif 3; other site 176280000061 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 176280000062 putative catalytic site [active] 176280000063 metal binding site A [ion binding]; metal-binding site 176280000064 phosphate binding site [ion binding]; other site 176280000065 metal binding site C [ion binding]; metal-binding site 176280000066 metal binding site B [ion binding]; metal-binding site 176280000067 AzlC protein; Region: AzlC; cl00570 176280000068 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 176280000069 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 176280000070 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 176280000071 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 176280000072 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 176280000073 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 176280000074 DHH family; Region: DHH; pfam01368 176280000075 DHHA1 domain; Region: DHHA1; pfam02272 176280000076 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 176280000077 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 176280000078 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 176280000079 replicative DNA helicase; Region: DnaB; TIGR00665 176280000080 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 176280000081 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 176280000082 Walker A motif; other site 176280000083 ATP binding site [chemical binding]; other site 176280000084 Walker B motif; other site 176280000085 DNA binding loops [nucleotide binding] 176280000086 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 176280000087 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 176280000088 GDP-binding site [chemical binding]; other site 176280000089 ACT binding site; other site 176280000090 IMP binding site; other site 176280000091 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280000092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280000093 active site 176280000094 phosphorylation site [posttranslational modification] 176280000095 intermolecular recognition site; other site 176280000096 dimerization interface [polypeptide binding]; other site 176280000097 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 176280000098 DNA binding site [nucleotide binding] 176280000099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 176280000100 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 176280000101 dimerization interface [polypeptide binding]; other site 176280000102 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 176280000103 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 176280000104 dimer interface [polypeptide binding]; other site 176280000105 phosphorylation site [posttranslational modification] 176280000106 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280000107 ATP binding site [chemical binding]; other site 176280000108 Mg2+ binding site [ion binding]; other site 176280000109 G-X-G motif; other site 176280000110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 176280000111 YycH protein; Region: YycH; pfam07435 176280000112 YycH protein; Region: YycI; cl02015 176280000113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280000114 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 176280000115 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 176280000116 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 176280000117 active site 176280000118 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 176280000119 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280000120 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 176280000121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280000122 Coenzyme A binding pocket [chemical binding]; other site 176280000123 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 176280000124 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 176280000125 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 176280000126 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 176280000127 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 176280000128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280000129 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 176280000130 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 176280000131 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 176280000132 catalytic residues [active] 176280000133 catalytic nucleophile [active] 176280000134 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280000135 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280000136 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280000137 Synaptic Site I dimer interface [polypeptide binding]; other site 176280000138 DNA binding site [nucleotide binding] 176280000139 Recombinase; Region: Recombinase; pfam07508 176280000140 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 176280000141 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 176280000142 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 176280000143 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 176280000144 catalytic residues [active] 176280000145 catalytic nucleophile [active] 176280000146 Recombinase; Region: Recombinase; pfam07508 176280000147 Domain of unknown function (DUF927); Region: DUF927; cl12098 176280000148 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 176280000149 Divergent AAA domain; Region: AAA_4; pfam04326 176280000150 Abortive infection C-terminus; Region: Abi_C; pfam14355 176280000151 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 176280000152 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 176280000153 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 176280000154 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 176280000155 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280000156 Coenzyme A binding pocket [chemical binding]; other site 176280000157 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 176280000158 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 176280000159 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280000160 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 176280000161 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 176280000162 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 176280000163 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 176280000164 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 176280000165 catalytic residues [active] 176280000166 catalytic nucleophile [active] 176280000167 Recombinase; Region: Recombinase; pfam07508 176280000168 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 176280000169 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280000170 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 176280000171 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 176280000172 catalytic residues [active] 176280000173 catalytic nucleophile [active] 176280000174 Recombinase; Region: Recombinase; pfam07508 176280000175 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 176280000176 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 176280000177 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000178 Transposase domain (DUF772); Region: DUF772; cl15789 176280000179 Transposase domain (DUF772); Region: DUF772; cl12084 176280000180 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 176280000181 Integrase core domain; Region: rve; cl01316 176280000182 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 176280000183 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 176280000184 putative DNA binding site [nucleotide binding]; other site 176280000185 putative Zn2+ binding site [ion binding]; other site 176280000186 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 176280000187 ZIP Zinc transporter; Region: Zip; pfam02535 176280000188 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 176280000189 metal-binding site [ion binding] 176280000190 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 176280000191 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 176280000192 metal-binding site [ion binding] 176280000193 Cation efflux family; Region: Cation_efflux; cl00316 176280000194 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 176280000195 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000196 Transposase domain (DUF772); Region: DUF772; cl12084 176280000197 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280000198 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280000199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000200 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 176280000201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000202 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280000203 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 176280000204 Cadmium resistance transporter; Region: Cad; cl04177 176280000205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 176280000206 Integrase core domain; Region: rve; cl01316 176280000207 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 176280000208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000210 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280000211 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 176280000212 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 176280000213 DNA binding residues [nucleotide binding] 176280000214 dimer interface [polypeptide binding]; other site 176280000215 mercury binding site [ion binding]; other site 176280000216 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 176280000217 catalytic residues [active] 176280000218 LysE type translocator; Region: LysE; cl00565 176280000219 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 176280000220 metal-binding site [ion binding] 176280000221 mercuric reductase; Region: MerA; TIGR02053 176280000222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000223 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280000224 alkylmercury lyase; Provisional; Region: PRK13239 176280000225 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 176280000226 Alkylmercury lyase; Region: MerB; pfam03243 176280000227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 176280000228 Integrase core domain; Region: rve; cl01316 176280000229 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 176280000230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 176280000231 Helix-turn-helix domains; Region: HTH; cl00088 176280000232 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 176280000233 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 176280000234 Walker A/P-loop; other site 176280000235 ATP binding site [chemical binding]; other site 176280000236 Q-loop/lid; other site 176280000237 ABC transporter signature motif; other site 176280000238 Walker B; other site 176280000239 D-loop; other site 176280000240 H-loop/switch region; other site 176280000241 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280000242 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 176280000243 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 176280000244 putative NAD(P) binding site [chemical binding]; other site 176280000245 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 176280000246 orotate phosphoribosyltransferase-like protein; Provisional; Region: PRK02277 176280000247 Integrase core domain; Region: rve; cl01316 176280000248 carbamate kinase; Reviewed; Region: PRK12686 176280000249 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 176280000250 putative substrate binding site [chemical binding]; other site 176280000251 nucleotide binding site [chemical binding]; other site 176280000252 nucleotide binding site [chemical binding]; other site 176280000253 homodimer interface [polypeptide binding]; other site 176280000254 ornithine carbamoyltransferase; Provisional; Region: PRK04284 176280000255 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 176280000256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000257 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 176280000258 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 176280000259 ligand binding site [chemical binding]; other site 176280000260 flexible hinge region; other site 176280000261 Helix-turn-helix domains; Region: HTH; cl00088 176280000262 Amino acid permease; Region: AA_permease; cl00524 176280000263 Amidinotransferase; Region: Amidinotransf; cl12043 176280000264 Arginine repressor [Transcription]; Region: ArgR; COG1438 176280000265 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 176280000266 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 176280000267 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 176280000268 Ligand Binding Site [chemical binding]; other site 176280000269 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 176280000270 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 176280000271 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280000272 catalytic residue [active] 176280000273 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000274 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 176280000275 FeS/SAM binding site; other site 176280000276 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 176280000277 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 176280000278 Walker A/P-loop; other site 176280000279 ATP binding site [chemical binding]; other site 176280000280 Q-loop/lid; other site 176280000281 ABC transporter signature motif; other site 176280000282 Walker B; other site 176280000283 D-loop; other site 176280000284 H-loop/switch region; other site 176280000285 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 176280000286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280000287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280000288 active site 176280000289 phosphorylation site [posttranslational modification] 176280000290 intermolecular recognition site; other site 176280000291 dimerization interface [polypeptide binding]; other site 176280000292 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 176280000293 DNA binding site [nucleotide binding] 176280000294 adaptive-response sensory kinase; Validated; Region: PRK09303 176280000295 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 176280000296 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280000297 ATP binding site [chemical binding]; other site 176280000298 Mg2+ binding site [ion binding]; other site 176280000299 G-X-G motif; other site 176280000300 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 176280000301 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 176280000302 putative substrate translocation pore; other site 176280000303 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 176280000304 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 176280000305 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000306 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 176280000307 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 176280000308 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 176280000309 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 176280000310 Protein of unknown function (DUF1541); Region: DUF1541; pfam07563 176280000311 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 176280000312 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280000313 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 176280000314 active site residue [active] 176280000315 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 176280000316 active site residue [active] 176280000317 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 176280000318 CPxP motif; other site 176280000319 DsrE/DsrF-like family; Region: DrsE; cl00672 176280000320 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 176280000321 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 176280000322 putative homotetramer interface [polypeptide binding]; other site 176280000323 putative homodimer interface [polypeptide binding]; other site 176280000324 putative metal binding site [ion binding]; other site 176280000325 putative homodimer-homodimer interface [polypeptide binding]; other site 176280000326 putative allosteric switch controlling residues; other site 176280000327 Low molecular weight phosphatase family; Region: LMWPc; cd00115 176280000328 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 176280000329 active site 176280000330 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 176280000331 arsenical pump membrane protein; Provisional; Region: PRK15445 176280000332 transmembrane helices; other site 176280000333 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 176280000334 dimerization interface [polypeptide binding]; other site 176280000335 putative DNA binding site [nucleotide binding]; other site 176280000336 putative Zn2+ binding site [ion binding]; other site 176280000337 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 176280000338 P loop; other site 176280000339 Nucleotide binding site [chemical binding]; other site 176280000340 arsenite-activated ATPase ArsA; Region: arsA; TIGR00345 176280000341 DTAP/Switch II; other site 176280000342 Switch I; other site 176280000343 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 176280000344 P loop; other site 176280000345 Nucleotide binding site [chemical binding]; other site 176280000346 DTAP/Switch II; other site 176280000347 Switch I; other site 176280000348 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 176280000349 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 176280000350 dimerization interface [polypeptide binding]; other site 176280000351 putative DNA binding site [nucleotide binding]; other site 176280000352 putative Zn2+ binding site [ion binding]; other site 176280000353 Predicted permease; Region: DUF318; cl00487 176280000354 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000355 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000356 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000357 Mechanosensitive ion channel; Region: MS_channel; pfam00924 176280000358 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000359 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 176280000360 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 176280000361 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 176280000362 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 176280000363 FMN binding site [chemical binding]; other site 176280000364 active site 176280000365 catalytic residues [active] 176280000366 substrate binding site [chemical binding]; other site 176280000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000368 Predicted dehydrogenase [General function prediction only]; Region: COG0579 176280000369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000370 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 176280000371 NAD(P) binding site [chemical binding]; other site 176280000372 active site 176280000373 Integrase core domain; Region: rve; cl01316 176280000374 orotate phosphoribosyltransferase-like protein; Provisional; Region: PRK02277 176280000375 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 176280000376 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 176280000377 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 176280000378 putative substrate translocation pore; other site 176280000379 Response regulator receiver domain; Region: Response_reg; pfam00072 176280000380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280000381 active site 176280000382 phosphorylation site [posttranslational modification] 176280000383 intermolecular recognition site; other site 176280000384 dimerization interface [polypeptide binding]; other site 176280000385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 176280000386 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 176280000387 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 176280000388 Histidine kinase; Region: His_kinase; pfam06580 176280000389 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280000390 ATP binding site [chemical binding]; other site 176280000391 Mg2+ binding site [ion binding]; other site 176280000392 G-X-G motif; other site 176280000393 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 176280000394 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 176280000395 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280000396 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280000397 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 176280000398 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280000399 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280000400 legume lectins; Region: lectin_L-type; cl14058 176280000401 homotetramer interaction site [polypeptide binding]; other site 176280000402 homodimer interaction site [polypeptide binding]; other site 176280000403 carbohydrate binding site [chemical binding]; other site 176280000404 metal binding site [ion binding]; metal-binding site 176280000405 G5 domain; Region: G5; pfam07501 176280000406 G5 domain; Region: G5; pfam07501 176280000407 G5 domain; Region: G5; pfam07501 176280000408 G5 domain; Region: G5; pfam07501 176280000409 G5 domain; Region: G5; pfam07501 176280000410 G5 domain; Region: G5; pfam07501 176280000411 G5 domain; Region: G5; pfam07501 176280000412 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 176280000413 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 176280000414 Gram positive anchor; Region: Gram_pos_anchor; cl15427 176280000415 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280000416 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 176280000417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000418 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000419 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 176280000420 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 176280000421 inhibitor-cofactor binding pocket; inhibition site 176280000422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280000423 catalytic residue [active] 176280000424 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 176280000425 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 176280000426 substrate-cofactor binding pocket; other site 176280000427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280000428 catalytic residue [active] 176280000429 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 176280000430 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 176280000431 Staphostatin A; Region: Staphostatin_A; pfam09022 176280000432 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 176280000433 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 176280000434 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 176280000435 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000436 Protein of unknown function, DUF576; Region: DUF576; cl04553 176280000437 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 176280000438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000439 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 176280000440 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 176280000441 Nucleoside recognition; Region: Gate; cl00486 176280000442 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 176280000443 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 176280000444 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 176280000445 intersubunit interface [polypeptide binding]; other site 176280000446 ApbE family; Region: ApbE; cl00643 176280000447 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 176280000448 putative active site [active] 176280000449 putative FMN binding site [chemical binding]; other site 176280000450 putative substrate binding site [chemical binding]; other site 176280000451 putative catalytic residue [active] 176280000452 FMN-binding domain; Region: FMN_bind; cl01081 176280000453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000454 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 176280000455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280000456 putative substrate translocation pore; other site 176280000457 acetoin reductases; Region: 23BDH; TIGR02415 176280000458 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 176280000459 homotetramer interface [polypeptide binding]; other site 176280000460 NAD binding site [chemical binding]; other site 176280000461 homodimer interface [polypeptide binding]; other site 176280000462 active site 176280000463 substrate binding site [chemical binding]; other site 176280000464 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280000465 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 176280000466 Walker A/P-loop; other site 176280000467 ATP binding site [chemical binding]; other site 176280000468 Q-loop/lid; other site 176280000469 ABC transporter signature motif; other site 176280000470 Walker B; other site 176280000471 D-loop; other site 176280000472 H-loop/switch region; other site 176280000473 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 176280000474 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 176280000475 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 176280000476 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 176280000477 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 176280000478 substrate binding site [chemical binding]; other site 176280000479 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 176280000480 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 176280000481 dimer interface [polypeptide binding]; other site 176280000482 conserved gate region; other site 176280000483 putative PBP binding loops; other site 176280000484 ABC-ATPase subunit interface; other site 176280000485 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 176280000486 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 176280000487 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 176280000488 dimer interface [polypeptide binding]; other site 176280000489 conserved gate region; other site 176280000490 putative PBP binding loops; other site 176280000491 ABC-ATPase subunit interface; other site 176280000492 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 176280000493 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 176280000494 Walker A/P-loop; other site 176280000495 ATP binding site [chemical binding]; other site 176280000496 Q-loop/lid; other site 176280000497 ABC transporter signature motif; other site 176280000498 Walker B; other site 176280000499 D-loop; other site 176280000500 H-loop/switch region; other site 176280000501 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 176280000502 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 176280000503 Walker A/P-loop; other site 176280000504 ATP binding site [chemical binding]; other site 176280000505 Q-loop/lid; other site 176280000506 ABC transporter signature motif; other site 176280000507 Walker B; other site 176280000508 D-loop; other site 176280000509 H-loop/switch region; other site 176280000510 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 176280000511 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280000512 putative substrate translocation pore; other site 176280000513 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000514 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 176280000515 Walker A/P-loop; other site 176280000516 ATP binding site [chemical binding]; other site 176280000517 Q-loop/lid; other site 176280000518 ABC transporter signature motif; other site 176280000519 Walker B; other site 176280000520 D-loop; other site 176280000521 H-loop/switch region; other site 176280000522 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280000523 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 176280000524 Pyruvate formate lyase 1; Region: PFL1; cd01678 176280000525 coenzyme A binding site [chemical binding]; other site 176280000526 active site 176280000527 catalytic residues [active] 176280000528 glycine loop; other site 176280000529 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 176280000530 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 176280000531 FeS/SAM binding site; other site 176280000532 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 176280000533 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 176280000534 metal binding site [ion binding]; metal-binding site 176280000535 dimer interface [polypeptide binding]; other site 176280000536 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 176280000537 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 176280000538 Helix-turn-helix domains; Region: HTH; cl00088 176280000539 Uncharacterized conserved protein [Function unknown]; Region: COG3246 176280000540 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 176280000541 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 176280000542 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; cl12011 176280000543 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 176280000544 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 176280000545 active site 176280000546 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 176280000547 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 176280000548 Walker A/P-loop; other site 176280000549 ATP binding site [chemical binding]; other site 176280000550 Q-loop/lid; other site 176280000551 ABC transporter signature motif; other site 176280000552 Walker B; other site 176280000553 D-loop; other site 176280000554 H-loop/switch region; other site 176280000555 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 176280000556 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 176280000557 dimer interface [polypeptide binding]; other site 176280000558 conserved gate region; other site 176280000559 putative PBP binding loops; other site 176280000560 ABC-ATPase subunit interface; other site 176280000561 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 176280000562 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 176280000563 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 176280000564 dimer interface [polypeptide binding]; other site 176280000565 conserved gate region; other site 176280000566 ABC-ATPase subunit interface; other site 176280000567 Predicted esterase [General function prediction only]; Region: COG0627 176280000568 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 176280000569 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 176280000570 carbamate kinase; Reviewed; Region: PRK12686 176280000571 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 176280000572 putative substrate binding site [chemical binding]; other site 176280000573 nucleotide binding site [chemical binding]; other site 176280000574 nucleotide binding site [chemical binding]; other site 176280000575 homodimer interface [polypeptide binding]; other site 176280000576 ornithine carbamoyltransferase; Provisional; Region: PRK04284 176280000577 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 176280000578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000579 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 176280000580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 176280000581 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280000582 active site 176280000583 metal binding site [ion binding]; metal-binding site 176280000584 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000585 biotin synthase; Validated; Region: PRK06256 176280000586 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 176280000587 FeS/SAM binding site; other site 176280000588 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 176280000589 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 176280000590 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 176280000591 dimer interface [polypeptide binding]; other site 176280000592 active site 176280000593 metal binding site [ion binding]; metal-binding site 176280000594 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 176280000595 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 176280000596 DAK2 domain; Region: Dak2; cl03685 176280000597 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 176280000598 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 176280000599 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 176280000600 putative substrate translocation pore; other site 176280000601 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280000602 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; cl11420 176280000603 Condensation domain; Region: Condensation; pfam00668 176280000604 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 176280000605 AMP-binding enzyme; Region: AMP-binding; cl15778 176280000606 acetoacetyl-CoA synthase; Region: ac_ac_CoA_syn; TIGR01217 176280000607 Phosphopantetheine attachment site; Region: PP-binding; cl09936 176280000608 Condensation domain; Region: Condensation; pfam00668 176280000609 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 176280000610 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 176280000611 AMP-binding enzyme; Region: AMP-binding; cl15778 176280000612 acyl-CoA synthetase; Provisional; Region: PRK13382 176280000613 Phosphopantetheine attachment site; Region: PP-binding; cl09936 176280000614 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 176280000615 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 176280000616 putative NAD(P) binding site [chemical binding]; other site 176280000617 active site 176280000618 putative substrate binding site [chemical binding]; other site 176280000619 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 176280000620 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 176280000621 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280000622 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 176280000623 RecF/RecN/SMC N terminal domain; Region: SMC_N; pfam02463 176280000624 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 176280000625 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 176280000626 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 176280000627 putative substrate translocation pore; other site 176280000628 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 176280000629 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 176280000630 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280000631 Walker A/P-loop; other site 176280000632 ATP binding site [chemical binding]; other site 176280000633 Q-loop/lid; other site 176280000634 ABC transporter signature motif; other site 176280000635 Walker B; other site 176280000636 D-loop; other site 176280000637 H-loop/switch region; other site 176280000638 MepB protein; Region: MepB; cl01985 176280000639 Predicted permeases [General function prediction only]; Region: RarD; COG2962 176280000640 EamA-like transporter family; Region: EamA; cl01037 176280000641 NMT1/THI5 like; Region: NMT1; pfam09084 176280000642 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 176280000643 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; cd00625 176280000644 transmembrane helices; other site 176280000645 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 176280000646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000648 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280000649 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 176280000650 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 176280000651 tetramer interface [polypeptide binding]; other site 176280000652 TPP-binding site [chemical binding]; other site 176280000653 heterodimer interface [polypeptide binding]; other site 176280000654 phosphorylation loop region [posttranslational modification] 176280000655 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 176280000656 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 176280000657 alpha subunit interface [polypeptide binding]; other site 176280000658 TPP binding site [chemical binding]; other site 176280000659 heterodimer interface [polypeptide binding]; other site 176280000660 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 176280000661 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 176280000662 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 176280000663 E3 interaction surface; other site 176280000664 lipoyl attachment site [posttranslational modification]; other site 176280000665 e3 binding domain; Region: E3_binding; pfam02817 176280000666 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 176280000667 iron-sulfur cluster-binding protein; Region: TIGR00273 176280000668 BCCT family transporter; Region: BCCT; cl00569 176280000669 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 176280000670 putative substrate binding pocket [chemical binding]; other site 176280000671 AC domain interface; other site 176280000672 catalytic triad [active] 176280000673 AB domain interface; other site 176280000674 interchain disulfide; other site 176280000675 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 176280000676 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 176280000677 active site residue [active] 176280000678 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 176280000679 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 176280000680 Strictosidine synthase; Region: Str_synth; pfam03088 176280000681 YceI-like domain; Region: YceI; cl01001 176280000682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000683 Predicted dehydrogenase [General function prediction only]; Region: COG0579 176280000684 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280000685 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280000686 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 176280000687 Uncharacterized conserved protein [Function unknown]; Region: COG2128 176280000688 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 176280000689 ATP phosphoribosyltransferase; Region: HisG; cl15266 176280000690 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 176280000691 histidinol dehydrogenase; Region: hisD; TIGR00069 176280000692 NAD binding site [chemical binding]; other site 176280000693 dimerization interface [polypeptide binding]; other site 176280000694 product binding site; other site 176280000695 substrate binding site [chemical binding]; other site 176280000696 zinc binding site [ion binding]; other site 176280000697 catalytic residues [active] 176280000698 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 176280000699 putative active site pocket [active] 176280000700 4-fold oligomerization interface [polypeptide binding]; other site 176280000701 metal binding residues [ion binding]; metal-binding site 176280000702 3-fold/trimer interface [polypeptide binding]; other site 176280000703 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 176280000704 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 176280000705 putative active site [active] 176280000706 oxyanion strand; other site 176280000707 catalytic triad [active] 176280000708 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 176280000709 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 176280000710 catalytic residues [active] 176280000711 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 176280000712 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 176280000713 substrate binding site [chemical binding]; other site 176280000714 glutamase interaction surface [polypeptide binding]; other site 176280000715 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 176280000716 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 176280000717 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 176280000718 N-acetyltransferase; Region: Acetyltransf_2; cl00949 176280000719 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280000720 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 176280000721 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280000722 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280000723 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 176280000724 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 176280000725 Nucleoside recognition; Region: Gate; cl00486 176280000726 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 176280000727 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 176280000728 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 176280000729 UvrB/uvrC motif; Region: UVR; pfam02151 176280000730 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 176280000731 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 176280000732 ADP binding site [chemical binding]; other site 176280000733 phosphagen binding site; other site 176280000734 substrate specificity loop; other site 176280000735 Clp protease ATP binding subunit; Region: clpC; CHL00095 176280000736 Clp amino terminal domain; Region: Clp_N; pfam02861 176280000737 Clp amino terminal domain; Region: Clp_N; pfam02861 176280000738 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 176280000739 Walker A motif; other site 176280000740 ATP binding site [chemical binding]; other site 176280000741 Walker B motif; other site 176280000742 arginine finger; other site 176280000743 UvrB/uvrC motif; Region: UVR; pfam02151 176280000744 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 176280000745 Walker A motif; other site 176280000746 ATP binding site [chemical binding]; other site 176280000747 Walker B motif; other site 176280000748 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 176280000749 DNA repair protein RadA; Provisional; Region: PRK11823 176280000750 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 176280000751 Walker A motif/ATP binding site; other site 176280000752 ATP binding site [chemical binding]; other site 176280000753 Walker B motif; other site 176280000754 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 176280000755 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 176280000756 putative active site [active] 176280000757 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 176280000758 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 176280000759 active site 176280000760 HIGH motif; other site 176280000761 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 176280000762 active site 176280000763 KMSKS motif; other site 176280000764 serine O-acetyltransferase; Region: cysE; TIGR01172 176280000765 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 176280000766 trimer interface [polypeptide binding]; other site 176280000767 active site 176280000768 substrate binding site [chemical binding]; other site 176280000769 CoA binding site [chemical binding]; other site 176280000770 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 176280000771 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 176280000772 active site 176280000773 HIGH motif; other site 176280000774 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 176280000775 KMSKS motif; other site 176280000776 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 176280000777 tRNA binding surface [nucleotide binding]; other site 176280000778 anticodon binding site; other site 176280000779 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 176280000780 dimerization interface [polypeptide binding]; other site 176280000781 active site 176280000782 metal binding site [ion binding]; metal-binding site 176280000783 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 176280000784 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 176280000785 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 176280000786 YacP-like NYN domain; Region: NYN_YacP; cl01491 176280000787 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 176280000788 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 176280000789 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 176280000790 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 176280000791 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 176280000792 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 176280000793 putative homodimer interface [polypeptide binding]; other site 176280000794 KOW motif; Region: KOW; cl00354 176280000795 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 176280000796 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 176280000797 23S rRNA interface [nucleotide binding]; other site 176280000798 L7/L12 interface [polypeptide binding]; other site 176280000799 putative thiostrepton binding site; other site 176280000800 L25 interface [polypeptide binding]; other site 176280000801 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 176280000802 mRNA/rRNA interface [nucleotide binding]; other site 176280000803 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 176280000804 23S rRNA interface [nucleotide binding]; other site 176280000805 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 176280000806 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 176280000807 peripheral dimer interface [polypeptide binding]; other site 176280000808 core dimer interface [polypeptide binding]; other site 176280000809 L10 interface [polypeptide binding]; other site 176280000810 L11 interface [polypeptide binding]; other site 176280000811 putative EF-Tu interaction site [polypeptide binding]; other site 176280000812 putative EF-G interaction site [polypeptide binding]; other site 176280000813 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 176280000814 S-adenosylmethionine binding site [chemical binding]; other site 176280000815 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 176280000816 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 176280000817 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 176280000818 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 176280000819 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 176280000820 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 176280000821 RPB12 interaction site [polypeptide binding]; other site 176280000822 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 176280000823 RPB10 interaction site [polypeptide binding]; other site 176280000824 RPB1 interaction site [polypeptide binding]; other site 176280000825 RPB11 interaction site [polypeptide binding]; other site 176280000826 RPB3 interaction site [polypeptide binding]; other site 176280000827 RPB12 interaction site [polypeptide binding]; other site 176280000828 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 176280000829 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 176280000830 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 176280000831 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 176280000832 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 176280000833 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 176280000834 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 176280000835 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 176280000836 G-loop; other site 176280000837 DNA binding site [nucleotide binding] 176280000838 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 176280000839 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 176280000840 S17 interaction site [polypeptide binding]; other site 176280000841 S8 interaction site; other site 176280000842 16S rRNA interaction site [nucleotide binding]; other site 176280000843 streptomycin interaction site [chemical binding]; other site 176280000844 23S rRNA interaction site [nucleotide binding]; other site 176280000845 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 176280000846 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 176280000847 elongation factor G; Reviewed; Region: PRK00007 176280000848 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 176280000849 G1 box; other site 176280000850 putative GEF interaction site [polypeptide binding]; other site 176280000851 GTP/Mg2+ binding site [chemical binding]; other site 176280000852 Switch I region; other site 176280000853 G2 box; other site 176280000854 G3 box; other site 176280000855 Switch II region; other site 176280000856 G4 box; other site 176280000857 G5 box; other site 176280000858 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 176280000859 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 176280000860 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 176280000861 elongation factor Tu; Reviewed; Region: PRK00049 176280000862 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 176280000863 G1 box; other site 176280000864 GEF interaction site [polypeptide binding]; other site 176280000865 GTP/Mg2+ binding site [chemical binding]; other site 176280000866 Switch I region; other site 176280000867 G2 box; other site 176280000868 G3 box; other site 176280000869 Switch II region; other site 176280000870 G4 box; other site 176280000871 G5 box; other site 176280000872 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 176280000873 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 176280000874 Antibiotic Binding Site [chemical binding]; other site 176280000875 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 176280000876 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 176280000877 metal binding site [ion binding]; metal-binding site 176280000878 dimer interface [polypeptide binding]; other site 176280000879 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280000880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280000881 Coenzyme A binding pocket [chemical binding]; other site 176280000882 ornithine cyclodeaminase; Validated; Region: PRK08618 176280000883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000884 NAD(P) binding pocket [chemical binding]; other site 176280000885 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 176280000886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000887 NAD(P) binding site [chemical binding]; other site 176280000888 active site 176280000889 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 176280000890 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 176280000891 homodimer interface [polypeptide binding]; other site 176280000892 substrate-cofactor binding pocket; other site 176280000893 catalytic residue [active] 176280000894 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 176280000895 substrate binding site; other site 176280000896 dimer interface; other site 176280000897 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 176280000898 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 176280000899 NAD(P) binding site [chemical binding]; other site 176280000900 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280000901 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 176280000902 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 176280000903 motif II; other site 176280000904 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 176280000905 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 176280000906 active site 176280000907 non-prolyl cis peptide bond; other site 176280000908 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 176280000909 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 176280000910 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 176280000911 putative NAD(P) binding site [chemical binding]; other site 176280000912 active site 176280000913 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 176280000914 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 176280000915 Substrate-binding site [chemical binding]; other site 176280000916 Substrate specificity [chemical binding]; other site 176280000917 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 176280000918 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 176280000919 Substrate-binding site [chemical binding]; other site 176280000920 Substrate specificity [chemical binding]; other site 176280000921 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 176280000922 nucleoside/Zn binding site; other site 176280000923 dimer interface [polypeptide binding]; other site 176280000924 catalytic motif [active] 176280000925 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 176280000926 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 176280000927 active site 176280000928 motif I; other site 176280000929 motif II; other site 176280000930 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280000931 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 176280000932 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280000933 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 176280000934 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280000935 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280000936 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280000937 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 176280000938 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 176280000939 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 176280000940 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 176280000941 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 176280000942 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 176280000943 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 176280000944 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 176280000945 active site 176280000946 trimer interface [polypeptide binding]; other site 176280000947 allosteric site; other site 176280000948 active site lid [active] 176280000949 hexamer (dimer of trimers) interface [polypeptide binding]; other site 176280000950 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 176280000951 active site 176280000952 dimer interface [polypeptide binding]; other site 176280000953 magnesium binding site [ion binding]; other site 176280000954 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 176280000955 tetramer interface [polypeptide binding]; other site 176280000956 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 176280000957 active site 176280000958 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 176280000959 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 176280000960 motif II; other site 176280000961 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 176280000962 AMP-binding enzyme; Region: AMP-binding; pfam00501 176280000963 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 176280000964 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 176280000965 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 176280000966 dimer interface [polypeptide binding]; other site 176280000967 active site 176280000968 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 176280000969 dimer interface [polypeptide binding]; other site 176280000970 substrate binding site [chemical binding]; other site 176280000971 ATP binding site [chemical binding]; other site 176280000972 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 176280000973 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 176280000974 active site 176280000975 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 176280000976 ligand binding site [chemical binding]; other site 176280000977 active site 176280000978 UGI interface [polypeptide binding]; other site 176280000979 catalytic site [active] 176280000980 Protein of unknown function (DUF423); Region: DUF423; cl01008 176280000981 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 176280000982 Amino acid permease; Region: AA_permease; cl00524 176280000983 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 176280000984 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 176280000985 Chlorite dismutase; Region: Chlor_dismutase; cl01280 176280000986 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 176280000987 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 176280000988 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 176280000989 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 176280000990 mevalonate kinase; Region: mevalon_kin; TIGR00549 176280000991 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 176280000992 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 176280000993 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 176280000994 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 176280000995 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 176280000996 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 176280000997 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 176280000998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280000999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001000 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280001001 Predicted transcriptional regulator [Transcription]; Region: COG1959 176280001002 Helix-turn-helix domains; Region: HTH; cl00088 176280001003 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 176280001004 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 176280001005 active site 176280001006 catalytic tetrad [active] 176280001007 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 176280001008 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280001009 Coenzyme A binding pocket [chemical binding]; other site 176280001010 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 176280001011 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 176280001012 Zn2+ binding site [ion binding]; other site 176280001013 Mg2+ binding site [ion binding]; other site 176280001014 YwhD family; Region: YwhD; pfam08741 176280001015 Protein of unknown function DUF111; Region: DUF111; cl03398 176280001016 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 176280001017 AIR carboxylase; Region: AIRC; cl00310 176280001018 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 176280001019 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 176280001020 Ligand Binding Site [chemical binding]; other site 176280001021 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 176280001022 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 176280001023 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 176280001024 NAD binding site [chemical binding]; other site 176280001025 substrate binding site [chemical binding]; other site 176280001026 catalytic Zn binding site [ion binding]; other site 176280001027 tetramer interface [polypeptide binding]; other site 176280001028 structural Zn binding site [ion binding]; other site 176280001029 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 176280001030 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 176280001031 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 176280001032 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 176280001033 active site 176280001034 HIGH motif; other site 176280001035 KMSK motif region; other site 176280001036 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 176280001037 tRNA binding surface [nucleotide binding]; other site 176280001038 anticodon binding site; other site 176280001039 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 176280001040 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 176280001041 minor groove reading motif; other site 176280001042 helix-hairpin-helix signature motif; other site 176280001043 substrate binding pocket [chemical binding]; other site 176280001044 active site 176280001045 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 176280001046 DNA binding residues [nucleotide binding] 176280001047 dimer interface [polypeptide binding]; other site 176280001048 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 176280001049 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 176280001050 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 176280001051 putative binding site residues; other site 176280001052 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 176280001053 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 176280001054 putative PBP binding regions; other site 176280001055 ABC-ATPase subunit interface; other site 176280001056 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 176280001057 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 176280001058 motif II; other site 176280001059 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 176280001060 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 176280001061 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 176280001062 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 176280001063 Helix-turn-helix domains; Region: HTH; cl00088 176280001064 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 176280001065 Protein of unknown function, DUF606; Region: DUF606; cl01273 176280001066 Protein of unknown function, DUF606; Region: DUF606; cl01273 176280001067 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 176280001068 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 176280001069 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 176280001070 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 176280001071 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 176280001072 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 176280001073 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 176280001074 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 176280001075 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 176280001076 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 176280001077 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 176280001078 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 176280001079 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 176280001080 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 176280001081 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 176280001082 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 176280001083 metal binding site [ion binding]; metal-binding site 176280001084 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 176280001085 ABC-ATPase subunit interface; other site 176280001086 dimer interface [polypeptide binding]; other site 176280001087 putative PBP binding regions; other site 176280001088 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 176280001089 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 176280001090 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 176280001091 Helix-turn-helix domains; Region: HTH; cl00088 176280001092 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 176280001093 FeoA domain; Region: FeoA; cl00838 176280001094 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 176280001095 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 176280001096 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 176280001097 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 176280001098 Walker A/P-loop; other site 176280001099 ATP binding site [chemical binding]; other site 176280001100 Q-loop/lid; other site 176280001101 ABC transporter signature motif; other site 176280001102 Walker B; other site 176280001103 D-loop; other site 176280001104 H-loop/switch region; other site 176280001105 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280001106 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280001107 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 176280001108 active site 176280001109 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 176280001110 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 176280001111 active site 176280001112 nucleotide binding site [chemical binding]; other site 176280001113 HIGH motif; other site 176280001114 KMSKS motif; other site 176280001115 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 176280001116 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 176280001117 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001118 Walker A/P-loop; other site 176280001119 ATP binding site [chemical binding]; other site 176280001120 Q-loop/lid; other site 176280001121 ABC transporter signature motif; other site 176280001122 Walker B; other site 176280001123 D-loop; other site 176280001124 H-loop/switch region; other site 176280001125 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 176280001126 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 176280001127 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 176280001128 Uncharacterized conserved protein [Function unknown]; Region: COG1284 176280001129 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 176280001130 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 176280001131 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 176280001132 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 176280001133 Walker A/P-loop; other site 176280001134 ATP binding site [chemical binding]; other site 176280001135 Q-loop/lid; other site 176280001136 ABC transporter signature motif; other site 176280001137 Walker B; other site 176280001138 D-loop; other site 176280001139 H-loop/switch region; other site 176280001140 Uncharacterized membrane protein [Function unknown]; Region: COG3949 176280001141 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 176280001142 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 176280001143 substrate binding pocket [chemical binding]; other site 176280001144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 176280001145 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280001146 Coenzyme A binding pocket [chemical binding]; other site 176280001147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001148 NAD(P) binding site [chemical binding]; other site 176280001149 active site 176280001150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280001151 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280001152 active site 176280001153 phosphorylation site [posttranslational modification] 176280001154 intermolecular recognition site; other site 176280001155 dimerization interface [polypeptide binding]; other site 176280001156 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 176280001157 DNA binding site [nucleotide binding] 176280001158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 176280001159 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 176280001160 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280001161 ATP binding site [chemical binding]; other site 176280001162 Mg2+ binding site [ion binding]; other site 176280001163 G-X-G motif; other site 176280001164 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280001165 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 176280001166 Walker A/P-loop; other site 176280001167 ATP binding site [chemical binding]; other site 176280001168 Q-loop/lid; other site 176280001169 ABC transporter signature motif; other site 176280001170 Walker B; other site 176280001171 D-loop; other site 176280001172 H-loop/switch region; other site 176280001173 FtsX-like permease family; Region: FtsX; pfam02687 176280001174 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 176280001175 Phosphate transporter family; Region: PHO4; cl00396 176280001176 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 176280001177 putative peptidoglycan binding site; other site 176280001178 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 176280001179 putative peptidoglycan binding site; other site 176280001180 NlpC/P60 family; Region: NLPC_P60; cl11438 176280001181 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 176280001182 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 176280001183 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 176280001184 Helix-turn-helix domains; Region: HTH; cl00088 176280001185 Domain of unknown function DUF28; Region: DUF28; cl00361 176280001186 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 176280001187 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 176280001188 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 176280001189 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 176280001190 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 176280001191 heme-binding site [chemical binding]; other site 176280001192 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 176280001193 FAD binding pocket [chemical binding]; other site 176280001194 FAD binding motif [chemical binding]; other site 176280001195 phosphate binding motif [ion binding]; other site 176280001196 beta-alpha-beta structure motif; other site 176280001197 NAD binding pocket [chemical binding]; other site 176280001198 Heme binding pocket [chemical binding]; other site 176280001199 Protein of unknown function (DUF402); Region: DUF402; cl00979 176280001200 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 176280001201 dimerization interface [polypeptide binding]; other site 176280001202 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 176280001203 sugar efflux transporter; Region: 2A0120; TIGR00899 176280001204 putative substrate translocation pore; other site 176280001205 Protein of unknown function (DUF456); Region: DUF456; cl01069 176280001206 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280001207 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280001208 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 176280001209 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 176280001210 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 176280001211 Bacitracin resistance protein BacA; Region: BacA; cl00858 176280001212 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 176280001213 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 176280001214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001215 Walker A/P-loop; other site 176280001216 ATP binding site [chemical binding]; other site 176280001217 Q-loop/lid; other site 176280001218 ABC transporter signature motif; other site 176280001219 Walker B; other site 176280001220 D-loop; other site 176280001221 H-loop/switch region; other site 176280001222 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 176280001223 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 176280001224 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 176280001225 Walker A/P-loop; other site 176280001226 ATP binding site [chemical binding]; other site 176280001227 Q-loop/lid; other site 176280001228 ABC transporter signature motif; other site 176280001229 Walker B; other site 176280001230 D-loop; other site 176280001231 H-loop/switch region; other site 176280001232 Transcriptional regulators [Transcription]; Region: MarR; COG1846 176280001233 Helix-turn-helix domains; Region: HTH; cl00088 176280001234 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 176280001235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001236 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 176280001237 malate dehydrogenase; Reviewed; Region: PRK06223 176280001238 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 176280001239 NAD(P) binding site [chemical binding]; other site 176280001240 dimer interface [polypeptide binding]; other site 176280001241 tetramer (dimer of dimers) interface [polypeptide binding]; other site 176280001242 substrate binding site [chemical binding]; other site 176280001243 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 176280001244 transmembrane helices; other site 176280001245 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 176280001246 DNA photolyase; Region: DNA_photolyase; pfam00875 176280001247 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 176280001248 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 176280001249 D-galactonate transporter; Region: 2A0114; TIGR00893 176280001250 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 176280001251 putative substrate translocation pore; other site 176280001252 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 176280001253 putative deacylase active site [active] 176280001254 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 176280001255 Helix-turn-helix domains; Region: HTH; cl00088 176280001256 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 176280001257 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 176280001258 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 176280001259 putative substrate binding site [chemical binding]; other site 176280001260 putative ATP binding site [chemical binding]; other site 176280001261 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 176280001262 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 176280001263 active site 176280001264 phosphorylation site [posttranslational modification] 176280001265 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 176280001266 P-loop; other site 176280001267 active site 176280001268 phosphorylation site [posttranslational modification] 176280001269 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280001270 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 176280001271 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 176280001272 active site 176280001273 dimer interface [polypeptide binding]; other site 176280001274 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 176280001275 Domain of unknown function DUF21; Region: DUF21; pfam01595 176280001276 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 176280001277 Transporter associated domain; Region: CorC_HlyC; cl08393 176280001278 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 176280001279 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 176280001280 active site 176280001281 catalytic tetrad [active] 176280001282 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 176280001283 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 176280001284 Ligand binding site; other site 176280001285 Putative Catalytic site; other site 176280001286 DXD motif; other site 176280001287 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 176280001288 dimer interface [polypeptide binding]; other site 176280001289 phosphorylation site [posttranslational modification] 176280001290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280001291 ATP binding site [chemical binding]; other site 176280001292 Mg2+ binding site [ion binding]; other site 176280001293 G-X-G motif; other site 176280001294 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280001295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280001296 active site 176280001297 phosphorylation site [posttranslational modification] 176280001298 intermolecular recognition site; other site 176280001299 dimerization interface [polypeptide binding]; other site 176280001300 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 176280001301 DNA binding site [nucleotide binding] 176280001302 Electron transfer DM13; Region: DM13; cl02735 176280001303 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 176280001304 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 176280001305 active site 176280001306 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 176280001307 Ligand Binding Site [chemical binding]; other site 176280001308 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 176280001309 Glutamine amidotransferase class-I; Region: GATase; pfam00117 176280001310 glutamine binding [chemical binding]; other site 176280001311 catalytic triad [active] 176280001312 chorismate binding enzyme; Region: Chorismate_bind; cl10555 176280001313 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 176280001314 substrate-cofactor binding pocket; other site 176280001315 homodimer interface [polypeptide binding]; other site 176280001316 Aminotransferase class IV; Region: Aminotran_4; pfam01063 176280001317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280001318 catalytic residue [active] 176280001319 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 176280001320 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 176280001321 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 176280001322 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 176280001323 Sulfatase; Region: Sulfatase; cl10460 176280001324 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280001325 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 176280001326 ZIP Zinc transporter; Region: Zip; pfam02535 176280001327 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 176280001328 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 176280001329 Walker A/P-loop; other site 176280001330 ATP binding site [chemical binding]; other site 176280001331 Q-loop/lid; other site 176280001332 ABC transporter signature motif; other site 176280001333 Walker B; other site 176280001334 D-loop; other site 176280001335 H-loop/switch region; other site 176280001336 ABC transporter; Region: ABC_tran_2; pfam12848 176280001337 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 176280001338 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 176280001339 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 176280001340 ATP binding site [chemical binding]; other site 176280001341 putative Mg++ binding site [ion binding]; other site 176280001342 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 176280001343 nucleotide binding region [chemical binding]; other site 176280001344 ATP-binding site [chemical binding]; other site 176280001345 RQC domain; Region: RQC; cl09632 176280001346 HRDC domain; Region: HRDC; cl02578 176280001347 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 176280001348 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 176280001349 Walker A/P-loop; other site 176280001350 ATP binding site [chemical binding]; other site 176280001351 Q-loop/lid; other site 176280001352 ABC transporter signature motif; other site 176280001353 Walker B; other site 176280001354 D-loop; other site 176280001355 H-loop/switch region; other site 176280001356 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 176280001357 dimer interface [polypeptide binding]; other site 176280001358 conserved gate region; other site 176280001359 ABC-ATPase subunit interface; other site 176280001360 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 176280001361 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 176280001362 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 176280001363 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 176280001364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280001365 homodimer interface [polypeptide binding]; other site 176280001366 catalytic residue [active] 176280001367 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280001368 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 176280001369 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 176280001370 putative catalytic cysteine [active] 176280001371 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 176280001372 putative active site [active] 176280001373 metal binding site [ion binding]; metal-binding site 176280001374 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 176280001375 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 176280001376 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; cl11420 176280001377 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 176280001378 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 176280001379 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 176280001380 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 176280001381 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 176280001382 Class I ribonucleotide reductase; Region: RNR_I; cd01679 176280001383 active site 176280001384 dimer interface [polypeptide binding]; other site 176280001385 catalytic residues [active] 176280001386 effector binding site; other site 176280001387 R2 peptide binding site; other site 176280001388 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 176280001389 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 176280001390 dimer interface [polypeptide binding]; other site 176280001391 putative radical transfer pathway; other site 176280001392 diiron center [ion binding]; other site 176280001393 tyrosyl radical; other site 176280001394 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 176280001395 ABC-ATPase subunit interface; other site 176280001396 dimer interface [polypeptide binding]; other site 176280001397 putative PBP binding regions; other site 176280001398 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 176280001399 ABC-ATPase subunit interface; other site 176280001400 dimer interface [polypeptide binding]; other site 176280001401 putative PBP binding regions; other site 176280001402 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 176280001403 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 176280001404 Walker A/P-loop; other site 176280001405 ATP binding site [chemical binding]; other site 176280001406 Q-loop/lid; other site 176280001407 ABC transporter signature motif; other site 176280001408 Walker B; other site 176280001409 D-loop; other site 176280001410 H-loop/switch region; other site 176280001411 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 176280001412 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 176280001413 putative ligand binding residues [chemical binding]; other site 176280001414 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 176280001415 CHY zinc finger; Region: zf-CHY; pfam05495 176280001416 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 176280001417 FAD binding domain; Region: FAD_binding_4; pfam01565 176280001418 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 176280001419 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 176280001420 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 176280001421 Glycerate kinase family; Region: Gly_kinase; cl00841 176280001422 peptidase T; Region: peptidase-T; TIGR01882 176280001423 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 176280001424 metal binding site [ion binding]; metal-binding site 176280001425 dimer interface [polypeptide binding]; other site 176280001426 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 176280001427 Uncharacterized conserved protein [Function unknown]; Region: COG2966 176280001428 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 176280001429 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 176280001430 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 176280001431 metal binding site [ion binding]; metal-binding site 176280001432 active site 176280001433 I-site; other site 176280001434 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 176280001435 Mg++ binding site [ion binding]; other site 176280001436 putative catalytic motif [active] 176280001437 substrate binding site [chemical binding]; other site 176280001438 Uncharacterized conserved protein [Function unknown]; Region: COG1739 176280001439 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 176280001440 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 176280001441 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 176280001442 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001443 putative Mg++ binding site [ion binding]; other site 176280001444 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 176280001445 nucleotide binding region [chemical binding]; other site 176280001446 ATP-binding site [chemical binding]; other site 176280001447 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 176280001448 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 176280001449 active site 176280001450 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 176280001451 30S subunit binding site; other site 176280001452 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 176280001453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001454 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 176280001455 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001456 nucleotide binding region [chemical binding]; other site 176280001457 SEC-C motif; Region: SEC-C; pfam02810 176280001458 peptide chain release factor 2; Provisional; Region: PRK06746 176280001459 RF-1 domain; Region: RF-1; cl02875 176280001460 RF-1 domain; Region: RF-1; cl02875 176280001461 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 176280001462 putative peptidoglycan binding site; other site 176280001463 NlpC/P60 family; Region: NLPC_P60; cl11438 176280001464 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 176280001465 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 176280001466 excinuclease ABC subunit B; Provisional; Region: PRK05298 176280001467 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 176280001468 ATP binding site [chemical binding]; other site 176280001469 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 176280001470 nucleotide binding region [chemical binding]; other site 176280001471 ATP-binding site [chemical binding]; other site 176280001472 Ultra-violet resistance protein B; Region: UvrB; pfam12344 176280001473 UvrB/uvrC motif; Region: UVR; pfam02151 176280001474 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 176280001475 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 176280001476 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 176280001477 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 176280001478 HPr kinase/phosphorylase; Provisional; Region: PRK05428 176280001479 DRTGG domain; Region: DRTGG; cl12147 176280001480 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 176280001481 Hpr binding site; other site 176280001482 active site 176280001483 homohexamer subunit interaction site [polypeptide binding]; other site 176280001484 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 176280001485 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 176280001486 trimer interface [polypeptide binding]; other site 176280001487 active site 176280001488 substrate binding site [chemical binding]; other site 176280001489 CoA binding site [chemical binding]; other site 176280001490 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 176280001491 binding surface 176280001492 TPR motif; other site 176280001493 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 176280001494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001495 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 176280001496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001498 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 176280001499 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 176280001500 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 176280001501 phosphate binding site [ion binding]; other site 176280001502 dimer interface [polypeptide binding]; other site 176280001503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 176280001504 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 176280001505 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 176280001506 oligomer interface [polypeptide binding]; other site 176280001507 active site residues [active] 176280001508 TIGR01777 family protein; Region: yfcH 176280001509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001510 NAD(P) binding site [chemical binding]; other site 176280001511 active site 176280001512 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 176280001513 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 176280001514 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 176280001515 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 176280001516 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 176280001517 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; cd00318 176280001518 Phosphoglycerate kinase; Region: PGK; pfam00162 176280001519 substrate binding site [chemical binding]; other site 176280001520 hinge regions; other site 176280001521 ADP binding site [chemical binding]; other site 176280001522 catalytic site [active] 176280001523 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 176280001524 substrate binding site [chemical binding]; other site 176280001525 dimer interface [polypeptide binding]; other site 176280001526 catalytic triad [active] 176280001527 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 176280001528 Sulfatase; Region: Sulfatase; cl10460 176280001529 enolase; Provisional; Region: eno; PRK00077 176280001530 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 176280001531 dimer interface [polypeptide binding]; other site 176280001532 metal binding site [ion binding]; metal-binding site 176280001533 substrate binding pocket [chemical binding]; other site 176280001534 Preprotein translocase SecG subunit; Region: SecG; cl09123 176280001535 Esterase/lipase [General function prediction only]; Region: COG1647 176280001536 ribonuclease R; Region: RNase_R; TIGR02063 176280001537 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 176280001538 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 176280001539 RNB domain; Region: RNB; pfam00773 176280001540 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 176280001541 RNA binding site [nucleotide binding]; other site 176280001542 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 176280001543 SmpB-tmRNA interface; other site 176280001544 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 176280001545 DNA binding site [nucleotide binding] 176280001546 Int/Topo IB signature motif; other site 176280001547 active site 176280001548 Cation transport protein; Region: TrkH; cl10514 176280001549 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 176280001550 Cation transport protein; Region: TrkH; cl10514 176280001551 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 176280001552 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280001553 active site 176280001554 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 176280001555 metal binding site [ion binding]; metal-binding site 176280001556 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 176280001557 Cation efflux family; Region: Cation_efflux; cl00316 176280001558 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 176280001559 DNA-binding site [nucleotide binding]; DNA binding site 176280001560 RNA-binding motif; other site 176280001561 Protein of unknown function (DUF867); Region: DUF867; cl01713 176280001562 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 176280001563 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 176280001564 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 176280001565 catalytic core [active] 176280001566 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280001567 OsmC-like protein; Region: OsmC; cl00767 176280001568 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 176280001569 active site 176280001570 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 176280001571 catalytic residue [active] 176280001572 dimer interface [polypeptide binding]; other site 176280001573 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 176280001574 putative FMN binding site [chemical binding]; other site 176280001575 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 176280001576 catalytic residues [active] 176280001577 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 176280001578 ArsC family; Region: ArsC; pfam03960 176280001579 putative ArsC-like catalytic residues; other site 176280001580 putative TRX-like catalytic residues [active] 176280001581 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 176280001582 lipoyl attachment site [posttranslational modification]; other site 176280001583 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 176280001584 putative active site [active] 176280001585 putative metal binding site [ion binding]; other site 176280001586 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 176280001587 catalytic residues [active] 176280001588 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 176280001589 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 176280001590 Walker A/P-loop; other site 176280001591 ATP binding site [chemical binding]; other site 176280001592 Q-loop/lid; other site 176280001593 ABC transporter signature motif; other site 176280001594 Walker B; other site 176280001595 D-loop; other site 176280001596 H-loop/switch region; other site 176280001597 NIL domain; Region: NIL; cl09633 176280001598 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 176280001599 dimer interface [polypeptide binding]; other site 176280001600 conserved gate region; other site 176280001601 ABC-ATPase subunit interface; other site 176280001602 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 176280001603 Domain of unknown function (DUF368); Region: DUF368; cl00893 176280001604 FeS assembly ATPase SufC; Region: sufC; TIGR01978 176280001605 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 176280001606 Walker A/P-loop; other site 176280001607 ATP binding site [chemical binding]; other site 176280001608 Q-loop/lid; other site 176280001609 ABC transporter signature motif; other site 176280001610 Walker B; other site 176280001611 D-loop; other site 176280001612 H-loop/switch region; other site 176280001613 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 176280001614 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 176280001615 Aminotransferase class-V; Region: Aminotran_5; pfam00266 176280001616 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 176280001617 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280001618 catalytic residue [active] 176280001619 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 176280001620 trimerization site [polypeptide binding]; other site 176280001621 active site 176280001622 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 176280001623 FeS assembly protein SufB; Region: sufB; TIGR01980 176280001624 Domain of unknown function DUF21; Region: DUF21; pfam01595 176280001625 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 176280001626 Protein of unknown function DUF72; Region: DUF72; cl00777 176280001627 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 176280001628 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 176280001629 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 176280001630 active site 176280001631 metal binding site [ion binding]; metal-binding site 176280001632 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 176280001633 lipoyl synthase; Provisional; Region: PRK05481 176280001634 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 176280001635 FeS/SAM binding site; other site 176280001636 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 176280001637 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 176280001638 Protein of unknown function DUF86; Region: DUF86; cl01031 176280001639 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 176280001640 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 176280001641 active site 176280001642 motif I; other site 176280001643 motif II; other site 176280001644 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 176280001645 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 176280001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001647 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 176280001648 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 176280001649 MBOAT family; Region: MBOAT; cl00738 176280001650 Phosphopantetheine attachment site; Region: PP-binding; cl09936 176280001651 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 176280001652 DltD N-terminal region; Region: DltD_N; pfam04915 176280001653 DltD central region; Region: DltD_M; pfam04918 176280001654 DltD C-terminal region; Region: DltD_C; pfam04914 176280001655 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280001656 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280001657 Transposase domain (DUF772); Region: DUF772; cl15789 176280001658 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280001659 Transposase domain (DUF772); Region: DUF772; cl15789 176280001660 NifU-like domain; Region: NifU; cl00484 176280001661 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 176280001662 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 176280001663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001664 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 176280001665 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 176280001666 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 176280001667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001668 multifunctional aminopeptidase A; Provisional; Region: PRK00913 176280001669 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 176280001670 interface (dimer of trimers) [polypeptide binding]; other site 176280001671 Substrate-binding/catalytic site; other site 176280001672 Zn-binding sites [ion binding]; other site 176280001673 Predicted permease [General function prediction only]; Region: COG2056 176280001674 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 176280001675 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 176280001676 CoenzymeA binding site [chemical binding]; other site 176280001677 subunit interaction site [polypeptide binding]; other site 176280001678 PHB binding site; other site 176280001679 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 176280001680 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 176280001681 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 176280001682 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 176280001683 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 176280001684 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 176280001685 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 176280001686 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 176280001687 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 176280001688 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 176280001689 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 176280001690 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 176280001691 Kinase associated protein B; Region: KapB; pfam08810 176280001692 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 176280001693 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 176280001694 active site 176280001695 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 176280001696 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 176280001697 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 176280001698 putative active site [active] 176280001699 putative FMN binding site [chemical binding]; other site 176280001700 putative substrate binding site [chemical binding]; other site 176280001701 putative catalytic residue [active] 176280001702 Transposase domain (DUF772); Region: DUF772; cl12084 176280001703 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280001704 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 176280001705 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 176280001706 inhibitor-cofactor binding pocket; inhibition site 176280001707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280001708 catalytic residue [active] 176280001709 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 176280001710 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 176280001711 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 176280001712 NAD(P) binding site [chemical binding]; other site 176280001713 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 176280001714 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 176280001715 active site 176280001716 catalytic site [active] 176280001717 metal binding site [ion binding]; metal-binding site 176280001718 argininosuccinate lyase; Provisional; Region: PRK00855 176280001719 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 176280001720 active sites [active] 176280001721 tetramer interface [polypeptide binding]; other site 176280001722 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 176280001723 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 176280001724 ANP binding site [chemical binding]; other site 176280001725 Substrate Binding Site II [chemical binding]; other site 176280001726 Substrate Binding Site I [chemical binding]; other site 176280001727 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 176280001728 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 176280001729 active site 176280001730 dimer interface [polypeptide binding]; other site 176280001731 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 176280001732 dimer interface [polypeptide binding]; other site 176280001733 active site 176280001734 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 176280001735 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 176280001736 Catalytic site [active] 176280001737 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 176280001738 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 176280001739 Catalytic site [active] 176280001740 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 176280001741 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001742 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 176280001743 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 176280001744 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 176280001745 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001747 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 176280001748 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 176280001749 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 176280001750 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280001751 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280001752 coenzyme A disulfide reductase; Provisional; Region: PRK13512 176280001753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001754 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280001755 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 176280001756 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 176280001757 active site 176280001758 motif I; other site 176280001759 motif II; other site 176280001760 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 176280001761 Domain of unknown function DUF59; Region: DUF59; cl00941 176280001762 OpgC protein; Region: OpgC_C; cl00792 176280001763 Acyltransferase family; Region: Acyl_transf_3; pfam01757 176280001764 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 176280001765 catalytic triad [active] 176280001766 catalytic triad [active] 176280001767 oxyanion hole [active] 176280001768 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 176280001769 Clp amino terminal domain; Region: Clp_N; pfam02861 176280001770 Clp amino terminal domain; Region: Clp_N; pfam02861 176280001771 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 176280001772 Walker A motif; other site 176280001773 ATP binding site [chemical binding]; other site 176280001774 Walker B motif; other site 176280001775 arginine finger; other site 176280001776 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 176280001777 Walker A motif; other site 176280001778 ATP binding site [chemical binding]; other site 176280001779 Walker B motif; other site 176280001780 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 176280001781 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280001782 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280001783 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 176280001784 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 176280001785 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 176280001786 dimer interface [polypeptide binding]; other site 176280001787 active site 176280001788 CoA binding pocket [chemical binding]; other site 176280001789 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 176280001790 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 176280001791 dimer interface [polypeptide binding]; other site 176280001792 active site 176280001793 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 176280001794 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 176280001795 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 176280001796 dimer interface [polypeptide binding]; other site 176280001797 conserved gate region; other site 176280001798 putative PBP binding loops; other site 176280001799 ABC-ATPase subunit interface; other site 176280001800 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 176280001801 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 176280001802 dimer interface [polypeptide binding]; other site 176280001803 conserved gate region; other site 176280001804 putative PBP binding loops; other site 176280001805 ABC-ATPase subunit interface; other site 176280001806 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 176280001807 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 176280001808 Walker A/P-loop; other site 176280001809 ATP binding site [chemical binding]; other site 176280001810 Q-loop/lid; other site 176280001811 ABC transporter signature motif; other site 176280001812 Walker B; other site 176280001813 D-loop; other site 176280001814 H-loop/switch region; other site 176280001815 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 176280001816 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 176280001817 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 176280001818 Walker A/P-loop; other site 176280001819 ATP binding site [chemical binding]; other site 176280001820 Q-loop/lid; other site 176280001821 ABC transporter signature motif; other site 176280001822 Walker B; other site 176280001823 D-loop; other site 176280001824 H-loop/switch region; other site 176280001825 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 176280001826 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 176280001827 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 176280001828 peptide binding site [polypeptide binding]; other site 176280001829 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 176280001830 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 176280001831 active site 176280001832 HIGH motif; other site 176280001833 dimer interface [polypeptide binding]; other site 176280001834 KMSKS motif; other site 176280001835 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 176280001836 ArsC family; Region: ArsC; pfam03960 176280001837 putative catalytic residues [active] 176280001838 thiol/disulfide switch; other site 176280001839 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280001840 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280001841 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 176280001842 Competence protein CoiA-like family; Region: CoiA; cl11541 176280001843 oligoendopeptidase F; Region: pepF; TIGR00181 176280001844 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 176280001845 active site 176280001846 Zn binding site [ion binding]; other site 176280001847 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 176280001848 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 176280001849 catalytic residues [active] 176280001850 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 176280001851 apolar tunnel; other site 176280001852 heme binding site [chemical binding]; other site 176280001853 dimerization interface [polypeptide binding]; other site 176280001854 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 176280001855 putative active site [active] 176280001856 putative metal binding residues [ion binding]; other site 176280001857 signature motif; other site 176280001858 putative triphosphate binding site [ion binding]; other site 176280001859 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 176280001860 synthetase active site [active] 176280001861 NTP binding site [chemical binding]; other site 176280001862 metal binding site [ion binding]; metal-binding site 176280001863 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 176280001864 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 176280001865 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 176280001866 active site 176280001867 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 176280001868 MgtE intracellular N domain; Region: MgtE_N; cl15244 176280001869 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 176280001870 Divalent cation transporter; Region: MgtE; cl00786 176280001871 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 176280001872 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 176280001873 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 176280001874 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280001875 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 176280001876 Protein of unknown function (DUF443); Region: DUF443; cl04467 176280001877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 176280001878 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 176280001879 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 176280001880 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 176280001881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001882 Walker A/P-loop; other site 176280001883 ATP binding site [chemical binding]; other site 176280001884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001885 Q-loop/lid; other site 176280001886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001887 ABC transporter signature motif; other site 176280001888 Walker B; other site 176280001889 D-loop; other site 176280001890 H-loop/switch region; other site 176280001891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280001892 Walker A/P-loop; other site 176280001893 ATP binding site [chemical binding]; other site 176280001894 Q-loop/lid; other site 176280001895 ABC transporter signature motif; other site 176280001896 Walker B; other site 176280001897 D-loop; other site 176280001898 H-loop/switch region; other site 176280001899 Helix-turn-helix domains; Region: HTH; cl00088 176280001900 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 176280001901 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; cl02788 176280001902 catalytic residues [active] 176280001903 Transposase IS200 like; Region: Y1_Tnp; cl00848 176280001904 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 176280001905 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 176280001906 NAD binding site [chemical binding]; other site 176280001907 homotetramer interface [polypeptide binding]; other site 176280001908 homodimer interface [polypeptide binding]; other site 176280001909 substrate binding site [chemical binding]; other site 176280001910 active site 176280001911 Domain of unknown function DUF20; Region: UPF0118; cl00465 176280001912 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 176280001913 Putative esterase; Region: Esterase; pfam00756 176280001914 hypothetical protein; Provisional; Region: PRK13679 176280001915 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 176280001916 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 176280001917 putative substrate translocation pore; other site 176280001918 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 176280001919 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 176280001920 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 176280001921 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 176280001922 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 176280001923 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280001924 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 176280001925 YueH-like protein; Region: YueH; pfam14166 176280001926 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 176280001927 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 176280001928 G1 box; other site 176280001929 putative GEF interaction site [polypeptide binding]; other site 176280001930 GTP/Mg2+ binding site [chemical binding]; other site 176280001931 Switch I region; other site 176280001932 G2 box; other site 176280001933 G3 box; other site 176280001934 Switch II region; other site 176280001935 G4 box; other site 176280001936 G5 box; other site 176280001937 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 176280001938 Integral membrane protein TerC family; Region: TerC; cl10468 176280001939 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 176280001940 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 176280001941 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 176280001942 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 176280001943 Cation transport protein; Region: TrkH; cl10514 176280001944 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 176280001945 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 176280001946 active site 176280001947 metal binding site [ion binding]; metal-binding site 176280001948 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 176280001949 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 176280001950 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 176280001951 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 176280001952 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 176280001953 ComK protein; Region: ComK; cl11560 176280001954 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 176280001955 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 176280001956 LysE type translocator; Region: LysE; cl00565 176280001957 TM2 domain; Region: TM2; cl00984 176280001958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280001959 Coenzyme A binding pocket [chemical binding]; other site 176280001960 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280001961 UbiA prenyltransferase family; Region: UbiA; cl00337 176280001962 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 176280001963 chorismate binding enzyme; Region: Chorismate_bind; cl10555 176280001964 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 176280001965 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 176280001966 dimer interface [polypeptide binding]; other site 176280001967 tetramer interface [polypeptide binding]; other site 176280001968 PYR/PP interface [polypeptide binding]; other site 176280001969 TPP binding site [chemical binding]; other site 176280001970 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 176280001971 TPP-binding site; other site 176280001972 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 176280001973 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 176280001974 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 176280001975 substrate binding site [chemical binding]; other site 176280001976 oxyanion hole (OAH) forming residues; other site 176280001977 trimer interface [polypeptide binding]; other site 176280001978 aminotransferase A; Validated; Region: PRK07683 176280001979 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 176280001980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280001981 homodimer interface [polypeptide binding]; other site 176280001982 catalytic residue [active] 176280001983 OpgC protein; Region: OpgC_C; cl00792 176280001984 Transcriptional regulators [Transcription]; Region: MarR; COG1846 176280001985 Helix-turn-helix domains; Region: HTH; cl00088 176280001986 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 176280001987 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 176280001988 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 176280001989 amidase catalytic site [active] 176280001990 Zn binding residues [ion binding]; other site 176280001991 substrate binding site [chemical binding]; other site 176280001992 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 176280001993 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 176280001994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280001995 Coenzyme A binding pocket [chemical binding]; other site 176280001996 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 176280001997 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 176280001998 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280001999 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 176280002000 active site 176280002001 tetramer interface [polypeptide binding]; other site 176280002002 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 176280002003 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 176280002004 Subunit I/III interface [polypeptide binding]; other site 176280002005 Subunit III/IV interface [polypeptide binding]; other site 176280002006 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 176280002007 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 176280002008 D-pathway; other site 176280002009 Putative ubiquinol binding site [chemical binding]; other site 176280002010 Low-spin heme (heme b) binding site [chemical binding]; other site 176280002011 Putative water exit pathway; other site 176280002012 Binuclear center (heme o3/CuB) [ion binding]; other site 176280002013 K-pathway; other site 176280002014 Putative proton exit pathway; other site 176280002015 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 176280002016 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 176280002017 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 176280002018 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 176280002019 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 176280002020 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 176280002021 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 176280002022 homodimer interface [polypeptide binding]; other site 176280002023 NADP binding site [chemical binding]; other site 176280002024 substrate binding site [chemical binding]; other site 176280002025 AIR carboxylase; Region: AIRC; cl00310 176280002026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002027 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 176280002028 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002029 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 176280002030 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 176280002031 ATP binding site [chemical binding]; other site 176280002032 active site 176280002033 substrate binding site [chemical binding]; other site 176280002034 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 176280002035 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 176280002036 putative active site [active] 176280002037 catalytic triad [active] 176280002038 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 176280002039 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 176280002040 dimerization interface [polypeptide binding]; other site 176280002041 ATP binding site [chemical binding]; other site 176280002042 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 176280002043 dimerization interface [polypeptide binding]; other site 176280002044 ATP binding site [chemical binding]; other site 176280002045 amidophosphoribosyltransferase; Provisional; Region: PRK07272 176280002046 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 176280002047 active site 176280002048 tetramer interface [polypeptide binding]; other site 176280002049 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280002050 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 176280002051 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 176280002052 dimerization interface [polypeptide binding]; other site 176280002053 putative ATP binding site [chemical binding]; other site 176280002054 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 176280002055 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 176280002056 active site 176280002057 substrate binding site [chemical binding]; other site 176280002058 cosubstrate binding site; other site 176280002059 catalytic site [active] 176280002060 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 176280002061 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 176280002062 purine monophosphate binding site [chemical binding]; other site 176280002063 dimer interface [polypeptide binding]; other site 176280002064 putative catalytic residues [active] 176280002065 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 176280002066 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 176280002067 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 176280002068 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 176280002069 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002070 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 176280002071 Cobalt transport protein; Region: CbiQ; cl00463 176280002072 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 176280002073 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 176280002074 Walker A/P-loop; other site 176280002075 ATP binding site [chemical binding]; other site 176280002076 Q-loop/lid; other site 176280002077 ABC transporter signature motif; other site 176280002078 Walker B; other site 176280002079 D-loop; other site 176280002080 H-loop/switch region; other site 176280002081 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 176280002082 Walker A/P-loop; other site 176280002083 ATP binding site [chemical binding]; other site 176280002084 Q-loop/lid; other site 176280002085 ABC transporter signature motif; other site 176280002086 Walker B; other site 176280002087 D-loop; other site 176280002088 H-loop/switch region; other site 176280002089 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 176280002090 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 176280002091 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 176280002092 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; cl12011 176280002093 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 176280002094 dimerization domain swap beta strand [polypeptide binding]; other site 176280002095 regulatory protein interface [polypeptide binding]; other site 176280002096 active site 176280002097 regulatory phosphorylation site [posttranslational modification]; other site 176280002098 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 176280002099 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 176280002100 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 176280002101 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 176280002102 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 176280002103 catalytic residues [active] 176280002104 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 176280002105 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 176280002106 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 176280002107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002108 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 176280002109 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 176280002110 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280002111 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 176280002112 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 176280002113 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 176280002114 active site 176280002115 catalytic residues [active] 176280002116 metal binding site [ion binding]; metal-binding site 176280002117 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 176280002118 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 176280002119 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 176280002120 TPP-binding site [chemical binding]; other site 176280002121 tetramer interface [polypeptide binding]; other site 176280002122 heterodimer interface [polypeptide binding]; other site 176280002123 phosphorylation loop region [posttranslational modification] 176280002124 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 176280002125 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 176280002126 alpha subunit interface [polypeptide binding]; other site 176280002127 TPP binding site [chemical binding]; other site 176280002128 heterodimer interface [polypeptide binding]; other site 176280002129 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 176280002130 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 176280002131 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 176280002132 E3 interaction surface; other site 176280002133 lipoyl attachment site [posttranslational modification]; other site 176280002134 e3 binding domain; Region: E3_binding; pfam02817 176280002135 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 176280002136 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 176280002137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002139 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280002140 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 176280002141 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 176280002142 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 176280002143 non-specific DNA binding site [nucleotide binding]; other site 176280002144 salt bridge; other site 176280002145 sequence-specific DNA binding site [nucleotide binding]; other site 176280002146 Cupin domain; Region: Cupin_2; cl09118 176280002147 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 176280002148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280002149 Walker A/P-loop; other site 176280002150 ATP binding site [chemical binding]; other site 176280002151 Q-loop/lid; other site 176280002152 ABC transporter signature motif; other site 176280002153 Walker B; other site 176280002154 D-loop; other site 176280002155 H-loop/switch region; other site 176280002156 TOBE domain; Region: TOBE_2; cl01440 176280002157 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 176280002158 dimer interface [polypeptide binding]; other site 176280002159 conserved gate region; other site 176280002160 putative PBP binding loops; other site 176280002161 ABC-ATPase subunit interface; other site 176280002162 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 176280002163 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 176280002164 dimer interface [polypeptide binding]; other site 176280002165 conserved gate region; other site 176280002166 putative PBP binding loops; other site 176280002167 ABC-ATPase subunit interface; other site 176280002168 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 176280002169 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 176280002170 Serpentine type 7TM GPCR chemoreceptor Srsx; Region: 7TM_GPCR_Srsx; cl10458 176280002171 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 176280002172 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 176280002173 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 176280002174 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 176280002175 active site 176280002176 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 176280002177 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 176280002178 G1 box; other site 176280002179 putative GEF interaction site [polypeptide binding]; other site 176280002180 GTP/Mg2+ binding site [chemical binding]; other site 176280002181 Switch I region; other site 176280002182 G2 box; other site 176280002183 G3 box; other site 176280002184 Switch II region; other site 176280002185 G4 box; other site 176280002186 G5 box; other site 176280002187 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 176280002188 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 176280002189 Transposase domain (DUF772); Region: DUF772; cl12084 176280002190 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280002191 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 176280002192 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 176280002193 pyruvate carboxylase; Reviewed; Region: PRK12999 176280002194 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 176280002195 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002196 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 176280002197 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 176280002198 active site 176280002199 catalytic residues [active] 176280002200 metal binding site [ion binding]; metal-binding site 176280002201 homodimer binding site [polypeptide binding]; other site 176280002202 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 176280002203 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 176280002204 carboxyltransferase (CT) interaction site; other site 176280002205 biotinylation site [posttranslational modification]; other site 176280002206 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 176280002207 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 176280002208 UbiA prenyltransferase family; Region: UbiA; cl00337 176280002209 Protein of unknown function (DUF420); Region: DUF420; cl00989 176280002210 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 176280002211 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 176280002212 Protein of unknown function (DUF964); Region: DUF964; cl01483 176280002213 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 176280002214 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 176280002215 putative active site [active] 176280002216 catalytic site [active] 176280002217 putative metal binding site [ion binding]; other site 176280002218 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 176280002219 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 176280002220 S-adenosylmethionine binding site [chemical binding]; other site 176280002221 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 176280002222 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 176280002223 active site 176280002224 (T/H)XGH motif; other site 176280002225 hypothetical protein; Provisional; Region: PRK13670 176280002226 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 176280002227 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 176280002228 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 176280002229 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280002230 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 176280002231 cellulose synthase; Region: PLN02400 176280002232 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 176280002233 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 176280002234 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 176280002235 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 176280002236 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 176280002237 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 176280002238 dimer interface [polypeptide binding]; other site 176280002239 motif 1; other site 176280002240 active site 176280002241 motif 2; other site 176280002242 motif 3; other site 176280002243 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 176280002244 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 176280002245 putative tRNA-binding site [nucleotide binding]; other site 176280002246 B3/4 domain; Region: B3_4; cl11458 176280002247 tRNA synthetase B5 domain; Region: B5; cl08394 176280002248 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 176280002249 dimer interface [polypeptide binding]; other site 176280002250 motif 1; other site 176280002251 motif 3; other site 176280002252 motif 2; other site 176280002253 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 176280002254 ribonuclease HIII; Provisional; Region: PRK00996 176280002255 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 176280002256 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 176280002257 RNA/DNA hybrid binding site [nucleotide binding]; other site 176280002258 active site 176280002259 Cell division protein ZapA; Region: ZapA; cl01146 176280002260 Colicin V production protein; Region: Colicin_V; cl00567 176280002261 hypothetical protein; Provisional; Region: PRK08609 176280002262 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 176280002263 active site 176280002264 primer binding site [nucleotide binding]; other site 176280002265 NTP binding site [chemical binding]; other site 176280002266 metal binding triad [ion binding]; metal-binding site 176280002267 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 176280002268 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 176280002269 Walker A/P-loop; other site 176280002270 ATP binding site [chemical binding]; other site 176280002271 Q-loop/lid; other site 176280002272 ABC transporter signature motif; other site 176280002273 Walker B; other site 176280002274 D-loop; other site 176280002275 H-loop/switch region; other site 176280002276 BRE1 E3 ubiquitin ligase; Region: BRE1; pfam08647 176280002277 Smr domain; Region: Smr; cl02619 176280002278 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 176280002279 catalytic residues [active] 176280002280 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 176280002281 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 176280002282 GIY-YIG motif/motif A; other site 176280002283 active site 176280002284 catalytic site [active] 176280002285 putative DNA binding site [nucleotide binding]; other site 176280002286 metal binding site [ion binding]; metal-binding site 176280002287 UvrB/uvrC motif; Region: UVR; pfam02151 176280002288 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 176280002289 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 176280002290 putative Iron-sulfur protein interface [polypeptide binding]; other site 176280002291 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 176280002292 proximal heme binding site [chemical binding]; other site 176280002293 distal heme binding site [chemical binding]; other site 176280002294 putative dimer interface [polypeptide binding]; other site 176280002295 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 176280002296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002297 domain; Region: Succ_DH_flav_C; pfam02910 176280002298 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 176280002299 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 176280002300 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 176280002301 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 176280002302 active site 176280002303 dimerization interface [polypeptide binding]; other site 176280002304 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 176280002305 active site 176280002306 metal binding site [ion binding]; metal-binding site 176280002307 homotetramer interface [polypeptide binding]; other site 176280002308 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280002309 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280002310 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280002311 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280002312 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 176280002313 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 176280002314 motif II; other site 176280002315 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280002316 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 176280002317 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 176280002318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 176280002319 MraZ protein; Region: MraZ; pfam02381 176280002320 MraZ protein; Region: MraZ; pfam02381 176280002321 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 176280002322 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; cl12011 176280002323 Septum formation initiator; Region: DivIC; cl11433 176280002324 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 176280002325 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 176280002326 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280002327 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 176280002328 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 176280002329 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 176280002330 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 176280002331 Mg++ binding site [ion binding]; other site 176280002332 putative catalytic motif [active] 176280002333 putative substrate binding site [chemical binding]; other site 176280002334 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 176280002335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002336 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280002337 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 176280002338 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 176280002339 Cell division protein FtsQ; Region: FtsQ; pfam03799 176280002340 cell division protein FtsA; Region: ftsA; TIGR01174 176280002341 Cell division protein FtsA; Region: FtsA; cl11496 176280002342 Cell division protein FtsA; Region: FtsA; cl11496 176280002343 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 176280002344 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 176280002345 nucleotide binding site [chemical binding]; other site 176280002346 SulA interaction site; other site 176280002347 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 176280002348 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 176280002349 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 176280002350 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 176280002351 catalytic residue [active] 176280002352 Protein of unknown function (DUF552); Region: DUF552; cl00775 176280002353 YGGT family; Region: YGGT; cl00508 176280002354 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 176280002355 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 176280002356 RNA binding surface [nucleotide binding]; other site 176280002357 DivIVA protein; Region: DivIVA; pfam05103 176280002358 DivIVA domain; Region: DivI1A_domain; TIGR03544 176280002359 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 176280002360 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 176280002361 HIGH motif; other site 176280002362 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 176280002363 active site 176280002364 KMSKS motif; other site 176280002365 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 176280002366 tRNA binding surface [nucleotide binding]; other site 176280002367 anticodon binding site; other site 176280002368 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 176280002369 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 176280002370 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280002371 active site 176280002372 metal binding site [ion binding]; metal-binding site 176280002373 NlpC/P60 family; Region: NLPC_P60; cl11438 176280002374 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 176280002375 lipoprotein signal peptidase; Provisional; Region: PRK14787 176280002376 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 176280002377 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 176280002378 RNA binding surface [nucleotide binding]; other site 176280002379 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 176280002380 active site 176280002381 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280002382 Permease family; Region: Xan_ur_permease; cl00967 176280002383 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 176280002384 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 176280002385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002386 dihydroorotase; Validated; Region: pyrC; PRK09357 176280002387 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 176280002388 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 176280002389 active site 176280002390 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 176280002391 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 176280002392 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 176280002393 catalytic site [active] 176280002394 subunit interface [polypeptide binding]; other site 176280002395 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 176280002396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 176280002397 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002398 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 176280002399 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002400 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 176280002401 IMP binding site; other site 176280002402 dimer interface [polypeptide binding]; other site 176280002403 interdomain contacts; other site 176280002404 partial ornithine binding site; other site 176280002405 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 176280002406 active site 176280002407 dimer interface [polypeptide binding]; other site 176280002408 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280002409 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 176280002410 dimer interface [polypeptide binding]; other site 176280002411 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 176280002412 Domain of unknown function (DUF814); Region: DUF814; pfam05670 176280002413 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 176280002414 catalytic site [active] 176280002415 G-X2-G-X-G-K; other site 176280002416 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 176280002417 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 176280002418 Flavoprotein; Region: Flavoprotein; cl08021 176280002419 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 176280002420 primosome assembly protein PriA; Validated; Region: PRK05580 176280002421 primosome assembly protein PriA; Validated; Region: PRK05580 176280002422 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 176280002423 ATP binding site [chemical binding]; other site 176280002424 putative Mg++ binding site [ion binding]; other site 176280002425 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 176280002426 nucleotide binding region [chemical binding]; other site 176280002427 ATP-binding site [chemical binding]; other site 176280002428 TM2 domain; Region: TM2; cl00984 176280002429 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 176280002430 active site 176280002431 catalytic residues [active] 176280002432 metal binding site [ion binding]; metal-binding site 176280002433 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 176280002434 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 176280002435 putative active site [active] 176280002436 substrate binding site [chemical binding]; other site 176280002437 putative cosubstrate binding site; other site 176280002438 catalytic site [active] 176280002439 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 176280002440 substrate binding site [chemical binding]; other site 176280002441 16S rRNA methyltransferase B; Provisional; Region: PRK14902 176280002442 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 176280002443 putative RNA binding site [nucleotide binding]; other site 176280002444 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; cl12011 176280002445 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 176280002446 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 176280002447 FeS/SAM binding site; other site 176280002448 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 176280002449 Protein phosphatase 2C; Region: PP2C; pfam00481 176280002450 active site 176280002451 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 176280002452 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 176280002453 active site 176280002454 ATP binding site [chemical binding]; other site 176280002455 substrate binding site [chemical binding]; other site 176280002456 activation loop (A-loop); other site 176280002457 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 176280002458 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 176280002459 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 176280002460 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 176280002461 GTPase RsgA; Reviewed; Region: PRK00098 176280002462 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 176280002463 GTPase/OB domain interface [polypeptide binding]; other site 176280002464 GTPase/Zn-binding domain interface [polypeptide binding]; other site 176280002465 GTP/Mg2+ binding site [chemical binding]; other site 176280002466 G4 box; other site 176280002467 G1 box; other site 176280002468 Switch I region; other site 176280002469 G2 box; other site 176280002470 G3 box; other site 176280002471 Switch II region; other site 176280002472 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 176280002473 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 176280002474 substrate binding site [chemical binding]; other site 176280002475 hexamer interface [polypeptide binding]; other site 176280002476 metal binding site [ion binding]; metal-binding site 176280002477 Thiamine pyrophosphokinase; Region: TPK; cd07995 176280002478 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 176280002479 active site 176280002480 dimerization interface [polypeptide binding]; other site 176280002481 thiamine binding site [chemical binding]; other site 176280002482 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 176280002483 Asp23 family; Region: Asp23; cl00574 176280002484 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 176280002485 DAK2 domain; Region: Dak2; cl03685 176280002486 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 176280002487 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 176280002488 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 176280002489 generic binding surface II; other site 176280002490 ssDNA binding site; other site 176280002491 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 176280002492 ATP binding site [chemical binding]; other site 176280002493 putative Mg++ binding site [ion binding]; other site 176280002494 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 176280002495 nucleotide binding region [chemical binding]; other site 176280002496 ATP-binding site [chemical binding]; other site 176280002497 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 176280002498 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 176280002499 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 176280002500 Acyl transferase domain; Region: Acyl_transf_1; cl08282 176280002501 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 176280002502 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 176280002503 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 176280002504 NAD(P) binding site [chemical binding]; other site 176280002505 homotetramer interface [polypeptide binding]; other site 176280002506 homodimer interface [polypeptide binding]; other site 176280002507 active site 176280002508 Phosphopantetheine attachment site; Region: PP-binding; cl09936 176280002509 ribonuclease III; Reviewed; Region: rnc; PRK00102 176280002510 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 176280002511 dimerization interface [polypeptide binding]; other site 176280002512 active site 176280002513 metal binding site [ion binding]; metal-binding site 176280002514 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 176280002515 dsRNA binding site [nucleotide binding]; other site 176280002516 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280002517 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 176280002518 Walker A/P-loop; other site 176280002519 ATP binding site [chemical binding]; other site 176280002520 Q-loop/lid; other site 176280002521 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 176280002522 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 176280002523 ABC transporter signature motif; other site 176280002524 Walker B; other site 176280002525 D-loop; other site 176280002526 H-loop/switch region; other site 176280002527 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 176280002528 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 176280002529 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 176280002530 P loop; other site 176280002531 GTP binding site [chemical binding]; other site 176280002532 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; cl15358 176280002533 signal recognition particle protein; Provisional; Region: PRK10867 176280002534 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 176280002535 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 176280002536 P loop; other site 176280002537 GTP binding site [chemical binding]; other site 176280002538 Signal peptide binding domain; Region: SRP_SPB; pfam02978 176280002539 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 176280002540 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 176280002541 RimM N-terminal domain; Region: RimM; pfam01782 176280002542 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 176280002543 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 176280002544 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 176280002545 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 176280002546 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 176280002547 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 176280002548 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 176280002549 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 176280002550 GTP/Mg2+ binding site [chemical binding]; other site 176280002551 G4 box; other site 176280002552 G5 box; other site 176280002553 G1 box; other site 176280002554 Switch I region; other site 176280002555 G2 box; other site 176280002556 G3 box; other site 176280002557 Switch II region; other site 176280002558 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 176280002559 RNA/DNA hybrid binding site [nucleotide binding]; other site 176280002560 active site 176280002561 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 176280002562 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280002563 CoA-ligase; Region: Ligase_CoA; pfam00549 176280002564 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 176280002565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002566 CoA-ligase; Region: Ligase_CoA; pfam00549 176280002567 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 176280002568 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 176280002569 DNA topoisomerase I; Validated; Region: PRK05582 176280002570 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 176280002571 active site 176280002572 interdomain interaction site; other site 176280002573 putative metal-binding site [ion binding]; other site 176280002574 nucleotide binding site [chemical binding]; other site 176280002575 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 176280002576 domain I; other site 176280002577 DNA binding groove [nucleotide binding] 176280002578 phosphate binding site [ion binding]; other site 176280002579 domain II; other site 176280002580 domain III; other site 176280002581 nucleotide binding site [chemical binding]; other site 176280002582 catalytic site [active] 176280002583 domain IV; other site 176280002584 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 176280002585 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 176280002586 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 176280002587 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 176280002588 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 176280002589 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 176280002590 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 176280002591 DNA binding site [nucleotide binding] 176280002592 Int/Topo IB signature motif; other site 176280002593 active site 176280002594 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 176280002595 active site 176280002596 HslU subunit interaction site [polypeptide binding]; other site 176280002597 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 176280002598 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 176280002599 Walker A motif; other site 176280002600 ATP binding site [chemical binding]; other site 176280002601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280002602 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 176280002603 transcriptional repressor CodY; Validated; Region: PRK04158 176280002604 CodY GAF-like domain; Region: CodY; pfam06018 176280002605 Helix-turn-helix domains; Region: HTH; cl00088 176280002606 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 176280002607 rRNA interaction site [nucleotide binding]; other site 176280002608 S8 interaction site; other site 176280002609 putative laminin-1 binding site; other site 176280002610 elongation factor Ts; Provisional; Region: tsf; PRK09377 176280002611 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 176280002612 Elongation factor TS; Region: EF_TS; pfam00889 176280002613 Elongation factor TS; Region: EF_TS; pfam00889 176280002614 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 176280002615 putative nucleotide binding site [chemical binding]; other site 176280002616 uridine monophosphate binding site [chemical binding]; other site 176280002617 homohexameric interface [polypeptide binding]; other site 176280002618 ribosome recycling factor; Reviewed; Region: frr; PRK00083 176280002619 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 176280002620 hinge region; other site 176280002621 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 176280002622 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 176280002623 catalytic residue [active] 176280002624 putative FPP diphosphate binding site; other site 176280002625 putative FPP binding hydrophobic cleft; other site 176280002626 dimer interface [polypeptide binding]; other site 176280002627 putative IPP diphosphate binding site; other site 176280002628 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 176280002629 RIP metalloprotease RseP; Region: TIGR00054 176280002630 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 176280002631 active site 176280002632 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 176280002633 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 176280002634 protein binding site [polypeptide binding]; other site 176280002635 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 176280002636 putative substrate binding region [chemical binding]; other site 176280002637 prolyl-tRNA synthetase; Provisional; Region: PRK09194 176280002638 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 176280002639 dimer interface [polypeptide binding]; other site 176280002640 motif 1; other site 176280002641 active site 176280002642 motif 2; other site 176280002643 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 176280002644 putative deacylase active site [active] 176280002645 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 176280002646 active site 176280002647 motif 3; other site 176280002648 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 176280002649 anticodon binding site; other site 176280002650 DNA polymerase III PolC; Validated; Region: polC; PRK00448 176280002651 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 176280002652 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 176280002653 generic binding surface II; other site 176280002654 generic binding surface I; other site 176280002655 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 176280002656 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 176280002657 active site 176280002658 substrate binding site [chemical binding]; other site 176280002659 catalytic site [active] 176280002660 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 176280002661 ribosome maturation protein RimP; Reviewed; Region: PRK00092 176280002662 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 176280002663 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 176280002664 Sm1 motif; other site 176280002665 predicted subunit interaction site [polypeptide binding]; other site 176280002666 RNA binding pocket [nucleotide binding]; other site 176280002667 Sm2 motif; other site 176280002668 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 176280002669 NusA N-terminal domain; Region: NusA_N; pfam08529 176280002670 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 176280002671 RNA binding site [nucleotide binding]; other site 176280002672 homodimer interface [polypeptide binding]; other site 176280002673 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 176280002674 G-X-X-G motif; other site 176280002675 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; cd00279 176280002676 putative RNA binding cleft [nucleotide binding]; other site 176280002677 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 176280002678 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 176280002679 translation initiation factor IF-2; Region: IF-2; TIGR00487 176280002680 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 176280002681 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 176280002682 G1 box; other site 176280002683 putative GEF interaction site [polypeptide binding]; other site 176280002684 GTP/Mg2+ binding site [chemical binding]; other site 176280002685 Switch I region; other site 176280002686 G2 box; other site 176280002687 G3 box; other site 176280002688 Switch II region; other site 176280002689 G4 box; other site 176280002690 G5 box; other site 176280002691 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 176280002692 Translation-initiation factor 2; Region: IF-2; pfam11987 176280002693 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 176280002694 Ribosome-binding factor A; Region: RBFA; cl00542 176280002695 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 176280002696 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 176280002697 RNA binding site [nucleotide binding]; other site 176280002698 active site 176280002699 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 176280002700 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 176280002701 active site 176280002702 Riboflavin kinase; Region: Flavokinase; cl03312 176280002703 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 176280002704 16S/18S rRNA binding site [nucleotide binding]; other site 176280002705 S13e-L30e interaction site [polypeptide binding]; other site 176280002706 25S rRNA binding site [nucleotide binding]; other site 176280002707 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 176280002708 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 176280002709 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 176280002710 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 176280002711 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 176280002712 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 176280002713 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 176280002714 putative nucleic acid binding region [nucleotide binding]; other site 176280002715 G-X-X-G motif; other site 176280002716 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 176280002717 RNA binding site [nucleotide binding]; other site 176280002718 domain interface; other site 176280002719 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 176280002720 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280002721 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 176280002722 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 176280002723 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280002724 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 176280002725 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 176280002726 Helix-turn-helix domains; Region: HTH; cl00088 176280002727 UTRA domain; Region: UTRA; cl01230 176280002728 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 176280002729 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 176280002730 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 176280002731 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 176280002732 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 176280002733 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 176280002734 classical (c) SDRs; Region: SDR_c; cd05233 176280002735 NAD(P) binding site [chemical binding]; other site 176280002736 active site 176280002737 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 176280002738 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 176280002739 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 176280002740 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 176280002741 non-specific DNA binding site [nucleotide binding]; other site 176280002742 salt bridge; other site 176280002743 sequence-specific DNA binding site [nucleotide binding]; other site 176280002744 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 176280002745 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 176280002746 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 176280002747 competence damage-inducible protein A; Provisional; Region: PRK00549 176280002748 MPT binding site; other site 176280002749 recombinase A; Provisional; Region: recA; PRK09354 176280002750 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 176280002751 hexamer interface [polypeptide binding]; other site 176280002752 Walker A motif; other site 176280002753 ATP binding site [chemical binding]; other site 176280002754 Walker B motif; other site 176280002755 phosphodiesterase; Provisional; Region: PRK12704 176280002756 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 176280002757 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 176280002758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 176280002759 putative active site [active] 176280002760 metal binding site [ion binding]; metal-binding site 176280002761 homodimer binding site [polypeptide binding]; other site 176280002762 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 176280002763 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 176280002764 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 176280002765 dimer interface [polypeptide binding]; other site 176280002766 PYR/PP interface [polypeptide binding]; other site 176280002767 TPP binding site [chemical binding]; other site 176280002768 substrate binding site [chemical binding]; other site 176280002769 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 176280002770 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 176280002771 TPP-binding site [chemical binding]; other site 176280002772 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 176280002773 Protein of unknown function (DUF867); Region: DUF867; cl01713 176280002774 Domain of unknown function DUF77; Region: DUF77; cl00307 176280002775 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 176280002776 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 176280002777 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 176280002778 FeS/SAM binding site; other site 176280002779 TRAM domain; Region: TRAM; cl01282 176280002780 Protein of unknown function (DUF964); Region: DUF964; cl01483 176280002781 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 176280002782 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 176280002783 MutS domain I; Region: MutS_I; pfam01624 176280002784 MutS domain II; Region: MutS_II; pfam05188 176280002785 MutS family domain IV; Region: MutS_IV; pfam05190 176280002786 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 176280002787 Walker A/P-loop; other site 176280002788 ATP binding site [chemical binding]; other site 176280002789 Q-loop/lid; other site 176280002790 ABC transporter signature motif; other site 176280002791 Walker B; other site 176280002792 D-loop; other site 176280002793 H-loop/switch region; other site 176280002794 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 176280002795 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280002796 ATP binding site [chemical binding]; other site 176280002797 Mg2+ binding site [ion binding]; other site 176280002798 G-X-G motif; other site 176280002799 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 176280002800 ATP binding site [chemical binding]; other site 176280002801 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 176280002802 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 176280002803 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 176280002804 amphipathic channel; other site 176280002805 Asn-Pro-Ala signature motifs; other site 176280002806 glycerol kinase; Provisional; Region: glpK; PRK00047 176280002807 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 176280002808 N- and C-terminal domain interface [polypeptide binding]; other site 176280002809 active site 176280002810 MgATP binding site [chemical binding]; other site 176280002811 catalytic site [active] 176280002812 metal binding site [ion binding]; metal-binding site 176280002813 glycerol binding site [chemical binding]; other site 176280002814 homotetramer interface [polypeptide binding]; other site 176280002815 homodimer interface [polypeptide binding]; other site 176280002816 FBP binding site [chemical binding]; other site 176280002817 protein IIAGlc interface [polypeptide binding]; other site 176280002818 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 176280002819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002820 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 176280002821 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 176280002822 IPP transferase; Region: IPPT; cl00403 176280002823 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 176280002824 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 176280002825 Sm1 motif; other site 176280002826 D3 - B interaction site; other site 176280002827 D1 - D2 interaction site; other site 176280002828 Hfq - Hfq interaction site; other site 176280002829 RNA binding pocket [nucleotide binding]; other site 176280002830 Sm2 motif; other site 176280002831 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 176280002832 catalytic residues [active] 176280002833 dimer interface [polypeptide binding]; other site 176280002834 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 176280002835 Restriction endonuclease; Region: Mrr_cat; cl00747 176280002836 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 176280002837 G1 box; other site 176280002838 GTP/Mg2+ binding site [chemical binding]; other site 176280002839 Switch I region; other site 176280002840 G2 box; other site 176280002841 G3 box; other site 176280002842 Switch II region; other site 176280002843 G4 box; other site 176280002844 G5 box; other site 176280002845 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 176280002846 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 176280002847 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 176280002848 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 176280002849 DNA binding residues [nucleotide binding] 176280002850 putative dimer interface [polypeptide binding]; other site 176280002851 glutamine synthetase, type I; Region: GlnA; TIGR00653 176280002852 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 176280002853 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 176280002854 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 176280002855 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 176280002856 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 176280002857 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 176280002858 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 176280002859 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 176280002860 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 176280002861 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 176280002862 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280002863 catalytic residue [active] 176280002864 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 176280002865 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 176280002866 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 176280002867 putative active site [active] 176280002868 catalytic site [active] 176280002869 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 176280002870 putative active site [active] 176280002871 catalytic site [active] 176280002872 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 176280002873 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 176280002874 Walker A/P-loop; other site 176280002875 ATP binding site [chemical binding]; other site 176280002876 Q-loop/lid; other site 176280002877 ABC transporter signature motif; other site 176280002878 Walker B; other site 176280002879 D-loop; other site 176280002880 H-loop/switch region; other site 176280002881 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280002882 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 176280002883 Histidine kinase; Region: HisKA_3; pfam07730 176280002884 Histidine kinase-like ATPases; This family includes several ATP-binding 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 176280002885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 176280002886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280002887 active site 176280002888 phosphorylation site [posttranslational modification] 176280002889 intermolecular recognition site; other site 176280002890 dimerization interface [polypeptide binding]; other site 176280002891 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 176280002892 DNA binding residues [nucleotide binding] 176280002893 dimerization interface [polypeptide binding]; other site 176280002894 Staphylococcal nuclease homologues; Region: SNc; smart00318 176280002895 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 176280002896 Catalytic site; other site 176280002897 aspartate kinase; Reviewed; Region: PRK09034 176280002898 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 176280002899 putative catalytic residues [active] 176280002900 putative nucleotide binding site [chemical binding]; other site 176280002901 putative aspartate binding site [chemical binding]; other site 176280002902 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 176280002903 allosteric regulatory residue; other site 176280002904 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 176280002905 homoserine dehydrogenase; Provisional; Region: PRK06349 176280002906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280002907 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 176280002908 threonine synthase; Reviewed; Region: PRK06721 176280002909 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 176280002910 homodimer interface [polypeptide binding]; other site 176280002911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280002912 catalytic residue [active] 176280002913 homoserine kinase; Provisional; Region: PRK01212 176280002914 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 176280002915 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 176280002916 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 176280002917 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 176280002918 active site 176280002919 motif I; other site 176280002920 motif II; other site 176280002921 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280002922 Transposase IS200 like; Region: Y1_Tnp; cl00848 176280002923 Amino acid permease; Region: AA_permease; cl00524 176280002924 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 176280002925 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 176280002926 tetramer interface [polypeptide binding]; other site 176280002927 heme binding pocket [chemical binding]; other site 176280002928 NADPH binding site [chemical binding]; other site 176280002929 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 176280002930 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 176280002931 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 176280002932 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 176280002933 active site 176280002934 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 176280002935 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 176280002936 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 176280002937 Catalytic site [active] 176280002938 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 176280002939 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 176280002940 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 176280002941 TPP-binding site [chemical binding]; other site 176280002942 dimer interface [polypeptide binding]; other site 176280002943 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 176280002944 PYR/PP interface [polypeptide binding]; other site 176280002945 dimer interface [polypeptide binding]; other site 176280002946 TPP binding site [chemical binding]; other site 176280002947 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 176280002948 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 176280002949 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 176280002950 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 176280002951 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 176280002952 active site 176280002953 metal binding site [ion binding]; metal-binding site 176280002954 DNA binding site [nucleotide binding] 176280002955 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 176280002956 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 176280002957 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 176280002958 Walker A/P-loop; other site 176280002959 ATP binding site [chemical binding]; other site 176280002960 Q-loop/lid; other site 176280002961 ABC transporter signature motif; other site 176280002962 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 176280002963 ABC transporter signature motif; other site 176280002964 Walker B; other site 176280002965 D-loop; other site 176280002966 H-loop/switch region; other site 176280002967 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 176280002968 BCCT family transporter; Region: BCCT; cl00569 176280002969 aconitate hydratase; Validated; Region: PRK09277 176280002970 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 176280002971 substrate binding site [chemical binding]; other site 176280002972 ligand binding site [chemical binding]; other site 176280002973 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 176280002974 substrate binding site [chemical binding]; other site 176280002975 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 176280002976 active site 176280002977 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 176280002978 Domain of unknown function (DUF205); Region: DUF205; cl00410 176280002979 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 176280002980 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280002981 ATP binding site [chemical binding]; other site 176280002982 Mg2+ binding site [ion binding]; other site 176280002983 G-X-G motif; other site 176280002984 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 176280002985 anchoring element; other site 176280002986 dimer interface [polypeptide binding]; other site 176280002987 ATP binding site [chemical binding]; other site 176280002988 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 176280002989 active site 176280002990 putative metal-binding site [ion binding]; other site 176280002991 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 176280002992 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 176280002993 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 176280002994 CAP-like domain; other site 176280002995 active site 176280002996 primary dimer interface [polypeptide binding]; other site 176280002997 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280002998 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 176280002999 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 176280003000 CAT RNA binding domain; Region: CAT_RBD; cl03904 176280003001 transcriptional antiterminator BglG; Provisional; Region: PRK09772 176280003002 PRD domain; Region: PRD; cl15445 176280003003 PRD domain; Region: PRD; cl15445 176280003004 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 176280003005 Domain of unknown function DUF20; Region: UPF0118; cl00465 176280003006 Predicted integral membrane protein [Function unknown]; Region: COG0392 176280003007 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 176280003008 Uncharacterized conserved protein [Function unknown]; Region: COG2898 176280003009 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 176280003010 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 176280003011 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 176280003012 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 176280003013 active site 1 [active] 176280003014 dimer interface [polypeptide binding]; other site 176280003015 hexamer interface [polypeptide binding]; other site 176280003016 active site 2 [active] 176280003017 DNA polymerase IV; Reviewed; Region: PRK03103 176280003018 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 176280003019 active site 176280003020 DNA binding site [nucleotide binding] 176280003021 prephenate dehydrogenase; Validated; Region: PRK06545 176280003022 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003023 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 176280003024 anthranilate synthase component I; Provisional; Region: PRK13567 176280003025 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 176280003026 chorismate binding enzyme; Region: Chorismate_bind; cl10555 176280003027 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 176280003028 Glutamine amidotransferase class-I; Region: GATase; pfam00117 176280003029 glutamine binding [chemical binding]; other site 176280003030 catalytic triad [active] 176280003031 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 176280003032 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 176280003033 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 176280003034 active site 176280003035 ribulose/triose binding site [chemical binding]; other site 176280003036 phosphate binding site [ion binding]; other site 176280003037 substrate (anthranilate) binding pocket [chemical binding]; other site 176280003038 product (indole) binding pocket [chemical binding]; other site 176280003039 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 176280003040 active site 176280003041 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 176280003042 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 176280003043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280003044 catalytic residue [active] 176280003045 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 176280003046 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 176280003047 substrate binding site [chemical binding]; other site 176280003048 active site 176280003049 catalytic residues [active] 176280003050 heterodimer interface [polypeptide binding]; other site 176280003051 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 176280003052 potential catalytic triad [active] 176280003053 conserved cys residue [active] 176280003054 FemAB family; Region: FemAB; cl11444 176280003055 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280003056 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 176280003057 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280003058 active site 176280003059 motif I; other site 176280003060 motif II; other site 176280003061 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 176280003062 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 176280003063 Walker A/P-loop; other site 176280003064 ATP binding site [chemical binding]; other site 176280003065 Q-loop/lid; other site 176280003066 ABC transporter signature motif; other site 176280003067 Walker B; other site 176280003068 D-loop; other site 176280003069 H-loop/switch region; other site 176280003070 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 176280003071 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 176280003072 Walker A/P-loop; other site 176280003073 ATP binding site [chemical binding]; other site 176280003074 Q-loop/lid; other site 176280003075 ABC transporter signature motif; other site 176280003076 Walker B; other site 176280003077 D-loop; other site 176280003078 H-loop/switch region; other site 176280003079 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 176280003080 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 176280003081 dimer interface [polypeptide binding]; other site 176280003082 conserved gate region; other site 176280003083 putative PBP binding loops; other site 176280003084 ABC-ATPase subunit interface; other site 176280003085 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 176280003086 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 176280003087 dimer interface [polypeptide binding]; other site 176280003088 conserved gate region; other site 176280003089 putative PBP binding loops; other site 176280003090 ABC-ATPase subunit interface; other site 176280003091 oligoendopeptidase F; Region: pepF; TIGR00181 176280003092 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 176280003093 active site 176280003094 Zn binding site [ion binding]; other site 176280003095 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 176280003096 PhoU domain; Region: PhoU; pfam01895 176280003097 PhoU domain; Region: PhoU; pfam01895 176280003098 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 176280003099 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 176280003100 Walker A/P-loop; other site 176280003101 ATP binding site [chemical binding]; other site 176280003102 Q-loop/lid; other site 176280003103 ABC transporter signature motif; other site 176280003104 Walker B; other site 176280003105 D-loop; other site 176280003106 H-loop/switch region; other site 176280003107 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 176280003108 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 176280003109 dimer interface [polypeptide binding]; other site 176280003110 conserved gate region; other site 176280003111 putative PBP binding loops; other site 176280003112 ABC-ATPase subunit interface; other site 176280003113 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 176280003114 dimer interface [polypeptide binding]; other site 176280003115 conserved gate region; other site 176280003116 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 176280003117 ABC-ATPase subunit interface; other site 176280003118 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 176280003119 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 176280003120 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 176280003121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003122 Walker A/P-loop; other site 176280003123 ATP binding site [chemical binding]; other site 176280003124 Q-loop/lid; other site 176280003125 ABC transporter signature motif; other site 176280003126 Walker B; other site 176280003127 D-loop; other site 176280003128 H-loop/switch region; other site 176280003129 ABC transporter; Region: ABC_tran_2; pfam12848 176280003130 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 176280003131 aspartate kinase; Reviewed; Region: PRK06635 176280003132 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 176280003133 putative nucleotide binding site [chemical binding]; other site 176280003134 putative catalytic residues [active] 176280003135 putative Mg ion binding site [ion binding]; other site 176280003136 putative aspartate binding site [chemical binding]; other site 176280003137 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 176280003138 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 176280003139 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 176280003140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003141 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 176280003142 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 176280003143 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 176280003144 dimer interface [polypeptide binding]; other site 176280003145 active site 176280003146 catalytic residue [active] 176280003147 dihydrodipicolinate reductase; Provisional; Region: PRK00048 176280003148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003149 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 176280003150 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 176280003151 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 176280003152 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 176280003153 active site 176280003154 trimer interface [polypeptide binding]; other site 176280003155 substrate binding site [chemical binding]; other site 176280003156 CoA binding site [chemical binding]; other site 176280003157 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 176280003158 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 176280003159 metal binding site [ion binding]; metal-binding site 176280003160 dimer interface [polypeptide binding]; other site 176280003161 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 176280003162 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 176280003163 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 176280003164 catalytic residue [active] 176280003165 diaminopimelate decarboxylase; Region: lysA; TIGR01048 176280003166 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 176280003167 active site 176280003168 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 176280003169 substrate binding site [chemical binding]; other site 176280003170 catalytic residues [active] 176280003171 dimer interface [polypeptide binding]; other site 176280003172 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 176280003173 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003174 Walker A/P-loop; other site 176280003175 ATP binding site [chemical binding]; other site 176280003176 Q-loop/lid; other site 176280003177 ABC transporter signature motif; other site 176280003178 Walker B; other site 176280003179 D-loop; other site 176280003180 H-loop/switch region; other site 176280003181 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 176280003182 DNA-binding site [nucleotide binding]; DNA binding site 176280003183 RNA-binding motif; other site 176280003184 Acylphosphatase; Region: Acylphosphatase; cl00551 176280003185 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 176280003186 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 176280003187 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 176280003188 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 176280003189 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 176280003190 metal ion-dependent adhesion site (MIDAS); other site 176280003191 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 176280003192 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 176280003193 Walker A motif; other site 176280003194 ATP binding site [chemical binding]; other site 176280003195 Walker B motif; other site 176280003196 arginine finger; other site 176280003197 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 176280003198 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280003199 active site 176280003200 metal binding site [ion binding]; metal-binding site 176280003201 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 176280003202 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 176280003203 E3 interaction surface; other site 176280003204 lipoyl attachment site [posttranslational modification]; other site 176280003205 e3 binding domain; Region: E3_binding; pfam02817 176280003206 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 176280003207 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 176280003208 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 176280003209 TPP-binding site [chemical binding]; other site 176280003210 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 176280003211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 176280003212 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 176280003213 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 176280003214 dimer interface [polypeptide binding]; other site 176280003215 phosphorylation site [posttranslational modification] 176280003216 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280003217 ATP binding site [chemical binding]; other site 176280003218 Mg2+ binding site [ion binding]; other site 176280003219 G-X-G motif; other site 176280003220 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280003221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280003222 active site 176280003223 phosphorylation site [posttranslational modification] 176280003224 intermolecular recognition site; other site 176280003225 dimerization interface [polypeptide binding]; other site 176280003226 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 176280003227 DNA binding site [nucleotide binding] 176280003228 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 176280003229 Helix-turn-helix domains; Region: HTH; cl00088 176280003230 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 176280003231 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 176280003232 MatE; Region: MatE; cl10513 176280003233 MatE; Region: MatE; cl10513 176280003234 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 176280003235 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 176280003236 putative active site [active] 176280003237 putative metal binding site [ion binding]; other site 176280003238 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 176280003239 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 176280003240 dimer interface [polypeptide binding]; other site 176280003241 conserved gate region; other site 176280003242 putative PBP binding loops; other site 176280003243 ABC-ATPase subunit interface; other site 176280003244 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 176280003245 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 176280003246 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 176280003247 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 176280003248 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 176280003249 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 176280003250 Walker A/P-loop; other site 176280003251 ATP binding site [chemical binding]; other site 176280003252 Q-loop/lid; other site 176280003253 ABC transporter signature motif; other site 176280003254 Walker B; other site 176280003255 D-loop; other site 176280003256 H-loop/switch region; other site 176280003257 TOBE domain; Region: TOBE_2; cl01440 176280003258 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 176280003259 active site 176280003260 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 176280003261 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 176280003262 active site 176280003263 homodimer interface [polypeptide binding]; other site 176280003264 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280003265 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280003266 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 176280003267 C-terminal peptidase (prc); Region: prc; TIGR00225 176280003268 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 176280003269 protein binding site [polypeptide binding]; other site 176280003270 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 176280003271 Catalytic dyad [active] 176280003272 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 176280003273 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 176280003274 PTS_IIA, PTS system, glucose/sucrose 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_glc; cl00162 176280003275 HPr interaction site; other site 176280003276 glycerol kinase (GK) interaction site [polypeptide binding]; other site 176280003277 active site 176280003278 phosphorylation site [posttranslational modification] 176280003279 SelR domain; Region: SelR; cl00369 176280003280 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 176280003281 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 176280003282 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 176280003283 folate binding site [chemical binding]; other site 176280003284 NADP+ binding site [chemical binding]; other site 176280003285 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 176280003286 dimerization interface [polypeptide binding]; other site 176280003287 active site 176280003288 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280003289 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 176280003290 Walker A/P-loop; other site 176280003291 ATP binding site [chemical binding]; other site 176280003292 Q-loop/lid; other site 176280003293 ABC transporter signature motif; other site 176280003294 Walker B; other site 176280003295 D-loop; other site 176280003296 H-loop/switch region; other site 176280003297 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 176280003298 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 176280003299 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 176280003300 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 176280003301 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 176280003302 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 176280003303 RNA/DNA hybrid binding site [nucleotide binding]; other site 176280003304 active site 176280003305 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280003306 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 176280003307 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 176280003308 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 176280003309 GA module; Region: GA; cl08325 176280003310 GA module; Region: GA; cl08325 176280003311 GA module; Region: GA; cl08325 176280003312 GA module; Region: GA; cl08325 176280003313 GA module; Region: GA; cl08325 176280003314 GA module; Region: GA; cl08325 176280003315 GA module; Region: GA; cl08325 176280003316 GA module; Region: GA; cl08325 176280003317 GA module; Region: GA; cl08325 176280003318 GA module; Region: GA; cl08325 176280003319 GA module; Region: GA; cl08325 176280003320 GA module; Region: GA; cl08325 176280003321 GA module; Region: GA; cl08325 176280003322 GA module; Region: GA; cl08325 176280003323 GA module; Region: GA; cl08325 176280003324 Uncharacterised Sugar-binding Domain; Region: FIVAR; pfam07554 176280003325 GA module; Region: GA; cl08325 176280003326 GA module; Region: GA; cl08325 176280003327 GA module; Region: GA; cl08325 176280003328 GA module; Region: GA; cl08325 176280003329 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280003330 GA module; Region: GA; cl08325 176280003331 GA module; Region: GA; cl08325 176280003332 GA module; Region: GA; cl08325 176280003333 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280003334 GA module; Region: GA; cl08325 176280003335 GA module; Region: GA; cl08325 176280003336 GA module; Region: GA; cl08325 176280003337 GA module; Region: GA; cl08325 176280003338 GA module; Region: GA; cl08325 176280003339 GA module; Region: GA; cl08325 176280003340 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 176280003341 GA module; Region: GA; cl08325 176280003342 GA module; Region: GA; cl08325 176280003343 GA module; Region: GA; cl08325 176280003344 GA module; Region: GA; cl08325 176280003345 GA module; Region: GA; cl08325 176280003346 GA module; Region: GA; cl08325 176280003347 GA module; Region: GA; cl08325 176280003348 GA module; Region: GA; cl08325 176280003349 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280003350 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280003351 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280003352 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280003353 5'-3' exonuclease; Region: 53EXOc; smart00475 176280003354 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 176280003355 active site 176280003356 metal binding site 1 [ion binding]; metal-binding site 176280003357 putative 5' ssDNA interaction site; other site 176280003358 metal binding site 3; metal-binding site 176280003359 metal binding site 2 [ion binding]; metal-binding site 176280003360 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 176280003361 putative DNA binding site [nucleotide binding]; other site 176280003362 putative metal binding site [ion binding]; other site 176280003363 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 176280003364 Dynamin family; Region: Dynamin_N; pfam00350 176280003365 G1 box; other site 176280003366 GTP/Mg2+ binding site [chemical binding]; other site 176280003367 G2 box; other site 176280003368 Switch I region; other site 176280003369 G3 box; other site 176280003370 Switch II region; other site 176280003371 G4 box; other site 176280003372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003373 Dynamin family; Region: Dynamin_N; pfam00350 176280003374 G1 box; other site 176280003375 GTP/Mg2+ binding site [chemical binding]; other site 176280003376 G2 box; other site 176280003377 Switch I region; other site 176280003378 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003379 G3 box; other site 176280003380 Switch II region; other site 176280003381 GTP/Mg2+ binding site [chemical binding]; other site 176280003382 G4 box; other site 176280003383 G5 box; other site 176280003384 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 176280003385 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 176280003386 putative NAD(P) binding site [chemical binding]; other site 176280003387 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 176280003388 THUMP domain; Region: THUMP; cl12076 176280003389 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; cl12011 176280003390 cell division protein GpsB; Provisional; Region: PRK14127 176280003391 DivIVA domain; Region: DivI1A_domain; TIGR03544 176280003392 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 176280003393 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 176280003394 Recombination protein U; Region: RecU; cl01314 176280003395 Transglycosylase; Region: Transgly; cl07896 176280003396 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 176280003397 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280003398 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 176280003399 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 176280003400 minor groove reading motif; other site 176280003401 helix-hairpin-helix signature motif; other site 176280003402 substrate binding pocket [chemical binding]; other site 176280003403 active site 176280003404 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 176280003405 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 176280003406 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 176280003407 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 176280003408 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 176280003409 putative dimer interface [polypeptide binding]; other site 176280003410 putative anticodon binding site; other site 176280003411 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 176280003412 homodimer interface [polypeptide binding]; other site 176280003413 motif 1; other site 176280003414 motif 2; other site 176280003415 active site 176280003416 motif 3; other site 176280003417 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 176280003418 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 176280003419 active site 176280003420 substrate binding site [chemical binding]; other site 176280003421 catalytic site [active] 176280003422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003423 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003424 nucleotide binding region [chemical binding]; other site 176280003425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003426 Helix-turn-helix domains; Region: HTH; cl00088 176280003427 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 176280003428 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 176280003429 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 176280003430 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 176280003431 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 176280003432 active site 176280003433 NTP binding site [chemical binding]; other site 176280003434 metal binding triad [ion binding]; metal-binding site 176280003435 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 176280003436 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 176280003437 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_5; cd04962 176280003438 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 176280003439 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 176280003440 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 176280003441 Uncharacterized conserved protein [Function unknown]; Region: COG5582 176280003442 UPF0302 domain; Region: UPF0302; pfam08864 176280003443 IDEAL domain; Region: IDEAL; cl07452 176280003444 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 176280003445 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 176280003446 binding surface 176280003447 TPR motif; other site 176280003448 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 176280003449 binding surface 176280003450 TPR motif; other site 176280003451 tetratricopeptide repeat protein; Provisional; Region: PRK11788 176280003452 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 176280003453 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 176280003454 hinge; other site 176280003455 active site 176280003456 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 176280003457 active site 176280003458 dimer interface [polypeptide binding]; other site 176280003459 metal binding site [ion binding]; metal-binding site 176280003460 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 176280003461 Tetramer interface [polypeptide binding]; other site 176280003462 active site 176280003463 FMN-binding site [chemical binding]; other site 176280003464 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 176280003465 active site 176280003466 multimer interface [polypeptide binding]; other site 176280003467 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 176280003468 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 176280003469 substrate binding pocket [chemical binding]; other site 176280003470 chain length determination region; other site 176280003471 substrate-Mg2+ binding site; other site 176280003472 catalytic residues [active] 176280003473 aspartate-rich region 1; other site 176280003474 active site lid residues [active] 176280003475 aspartate-rich region 2; other site 176280003476 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 176280003477 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 176280003478 S-adenosylmethionine binding site [chemical binding]; other site 176280003479 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 176280003480 IHF dimer interface [polypeptide binding]; other site 176280003481 IHF - DNA interface [nucleotide binding]; other site 176280003482 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 176280003483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003484 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 176280003485 GTP-binding protein Der; Reviewed; Region: PRK00093 176280003486 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 176280003487 G1 box; other site 176280003488 GTP/Mg2+ binding site [chemical binding]; other site 176280003489 Switch I region; other site 176280003490 G2 box; other site 176280003491 Switch II region; other site 176280003492 G3 box; other site 176280003493 G4 box; other site 176280003494 G5 box; other site 176280003495 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 176280003496 G1 box; other site 176280003497 GTP/Mg2+ binding site [chemical binding]; other site 176280003498 Switch I region; other site 176280003499 G2 box; other site 176280003500 G3 box; other site 176280003501 Switch II region; other site 176280003502 G4 box; other site 176280003503 G5 box; other site 176280003504 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 176280003505 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 176280003506 RNA binding site [nucleotide binding]; other site 176280003507 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 176280003508 RNA binding site [nucleotide binding]; other site 176280003509 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 176280003510 RNA binding site [nucleotide binding]; other site 176280003511 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 176280003512 RNA binding site [nucleotide binding]; other site 176280003513 cytidylate kinase; Provisional; Region: cmk; PRK00023 176280003514 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 176280003515 CMP-binding site; other site 176280003516 The sites determining sugar specificity; other site 176280003517 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 176280003518 active site 176280003519 homotetramer interface [polypeptide binding]; other site 176280003520 homodimer interface [polypeptide binding]; other site 176280003521 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 176280003522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003524 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; cl00107 176280003525 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 176280003526 ATP binding site [chemical binding]; other site 176280003527 putative Mg++ binding site [ion binding]; other site 176280003528 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 176280003529 nucleotide binding region [chemical binding]; other site 176280003530 ATP-binding site [chemical binding]; other site 176280003531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 176280003532 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 176280003533 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 176280003534 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 176280003535 sensory histidine kinase AtoS; Provisional; Region: PRK11360 176280003536 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 176280003537 dimerization interface [polypeptide binding]; other site 176280003538 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 176280003539 dimer interface [polypeptide binding]; other site 176280003540 phosphorylation site [posttranslational modification] 176280003541 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280003542 ATP binding site [chemical binding]; other site 176280003543 Mg2+ binding site [ion binding]; other site 176280003544 G-X-G motif; other site 176280003545 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280003546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280003547 active site 176280003548 phosphorylation site [posttranslational modification] 176280003549 intermolecular recognition site; other site 176280003550 dimerization interface [polypeptide binding]; other site 176280003551 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 176280003552 DNA binding site [nucleotide binding] 176280003553 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 176280003554 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 176280003555 RNA binding surface [nucleotide binding]; other site 176280003556 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 176280003557 active site 176280003558 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 176280003559 ScpA/B protein; Region: ScpA_ScpB; cl00598 176280003560 Domain of unknown function (DUF309); Region: DUF309; cl00667 176280003561 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 176280003562 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 176280003563 Int/Topo IB signature motif; other site 176280003564 active site 176280003565 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 176280003566 metal binding site 2 [ion binding]; metal-binding site 176280003567 putative DNA binding helix; other site 176280003568 metal binding site 1 [ion binding]; metal-binding site 176280003569 dimer interface [polypeptide binding]; other site 176280003570 structural Zn2+ binding site [ion binding]; other site 176280003571 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 176280003572 dimer interface [polypeptide binding]; other site 176280003573 ADP-ribose binding site [chemical binding]; other site 176280003574 active site 176280003575 nudix motif; other site 176280003576 metal binding site [ion binding]; metal-binding site 176280003577 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 176280003578 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 176280003579 active site 176280003580 catalytic tetrad [active] 176280003581 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 176280003582 classical (c) SDRs; Region: SDR_c; cd05233 176280003583 NAD(P) binding site [chemical binding]; other site 176280003584 active site 176280003585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003586 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 176280003587 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280003588 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 176280003589 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 176280003590 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 176280003591 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 176280003592 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 176280003593 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 176280003594 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 176280003595 Ca binding site [ion binding]; other site 176280003596 active site 176280003597 catalytic site [active] 176280003598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003599 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 176280003600 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 176280003601 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 176280003602 peptidase T-like protein; Region: PepT-like; TIGR01883 176280003603 metal binding site [ion binding]; metal-binding site 176280003604 putative dimer interface [polypeptide binding]; other site 176280003605 Predicted membrane protein [Function unknown]; Region: COG4129 176280003606 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 176280003607 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 176280003608 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 176280003609 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 176280003610 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 176280003611 E3 interaction surface; other site 176280003612 lipoyl attachment site [posttranslational modification]; other site 176280003613 e3 binding domain; Region: E3_binding; pfam02817 176280003614 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 176280003615 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 176280003616 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 176280003617 alpha subunit interface [polypeptide binding]; other site 176280003618 TPP binding site [chemical binding]; other site 176280003619 heterodimer interface [polypeptide binding]; other site 176280003620 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 176280003621 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 176280003622 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 176280003623 tetramer interface [polypeptide binding]; other site 176280003624 TPP-binding site [chemical binding]; other site 176280003625 heterodimer interface [polypeptide binding]; other site 176280003626 phosphorylation loop region [posttranslational modification] 176280003627 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 176280003628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003630 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280003631 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 176280003632 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 176280003633 Walker A/P-loop; other site 176280003634 ATP binding site [chemical binding]; other site 176280003635 Q-loop/lid; other site 176280003636 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 176280003637 Q-loop/lid; other site 176280003638 ABC transporter signature motif; other site 176280003639 Walker B; other site 176280003640 D-loop; other site 176280003641 H-loop/switch region; other site 176280003642 arginine repressor; Provisional; Region: PRK04280 176280003643 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 176280003644 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 176280003645 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 176280003646 substrate binding pocket [chemical binding]; other site 176280003647 chain length determination region; other site 176280003648 substrate-Mg2+ binding site; other site 176280003649 catalytic residues [active] 176280003650 aspartate-rich region 1; other site 176280003651 active site lid residues [active] 176280003652 aspartate-rich region 2; other site 176280003653 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 176280003654 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 176280003655 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 176280003656 generic binding surface II; other site 176280003657 generic binding surface I; other site 176280003658 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 176280003659 putative RNA binding site [nucleotide binding]; other site 176280003660 Protein of unknown function (DUF322); Region: DUF322; cl00574 176280003661 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 176280003662 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 176280003663 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280003664 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 176280003665 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 176280003666 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 176280003667 carboxyltransferase (CT) interaction site; other site 176280003668 biotinylation site [posttranslational modification]; other site 176280003669 acetylornithine aminotransferase; Provisional; Region: PRK04260 176280003670 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 176280003671 inhibitor-cofactor binding pocket; inhibition site 176280003672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280003673 catalytic residue [active] 176280003674 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 176280003675 nucleotide binding site [chemical binding]; other site 176280003676 N-acetyl-L-glutamate binding site [chemical binding]; other site 176280003677 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 176280003678 heterotetramer interface [polypeptide binding]; other site 176280003679 active site pocket [active] 176280003680 cleavage site 176280003681 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 176280003682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280003683 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 176280003684 elongation factor P; Validated; Region: PRK00529 176280003685 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 176280003686 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 176280003687 RNA binding site [nucleotide binding]; other site 176280003688 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 176280003689 RNA binding site [nucleotide binding]; other site 176280003690 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 176280003691 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 176280003692 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 176280003693 active site 176280003694 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 176280003695 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 176280003696 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 176280003697 active site residue [active] 176280003698 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 176280003699 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 176280003700 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 176280003701 tetramer interface [polypeptide binding]; other site 176280003702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280003703 catalytic residue [active] 176280003704 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 176280003705 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 176280003706 tetramer interface [polypeptide binding]; other site 176280003707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280003708 catalytic residue [active] 176280003709 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 176280003710 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 176280003711 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 176280003712 Shikimate kinase; Region: SKI; pfam01202 176280003713 ADP binding site [chemical binding]; other site 176280003714 magnesium binding site [ion binding]; other site 176280003715 putative shikimate binding site; other site 176280003716 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 176280003717 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 176280003718 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 176280003719 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 176280003720 Type II/IV secretion system protein; Region: T2SE; pfam00437 176280003721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003722 Walker A motif; other site 176280003723 ATP binding site [chemical binding]; other site 176280003724 Walker B motif; other site 176280003725 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280003726 Domain of unknown function DUF77; Region: DUF77; cl00307 176280003727 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 176280003728 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 176280003729 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 176280003730 Rhomboid family; Region: Rhomboid; cl11446 176280003731 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 176280003732 binding surface 176280003733 TPR motif; other site 176280003734 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 176280003735 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 176280003736 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 176280003737 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 176280003738 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 176280003739 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280003740 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 176280003741 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 176280003742 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 176280003743 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 176280003744 metal binding site 2 [ion binding]; metal-binding site 176280003745 putative DNA binding helix; other site 176280003746 metal binding site 1 [ion binding]; metal-binding site 176280003747 dimer interface [polypeptide binding]; other site 176280003748 structural Zn2+ binding site [ion binding]; other site 176280003749 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 176280003750 ABC-ATPase subunit interface; other site 176280003751 dimer interface [polypeptide binding]; other site 176280003752 putative PBP binding regions; other site 176280003753 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 176280003754 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 176280003755 endonuclease IV; Provisional; Region: PRK01060 176280003756 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 176280003757 AP (apurinic/apyrimidinic) site pocket; other site 176280003758 DNA interaction; other site 176280003759 Metal-binding active site; metal-binding site 176280003760 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 176280003761 DEAD-like helicases superfamily; Region: DEXDc; smart00487 176280003762 ATP binding site [chemical binding]; other site 176280003763 Mg++ binding site [ion binding]; other site 176280003764 motif III; other site 176280003765 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 176280003766 nucleotide binding region [chemical binding]; other site 176280003767 ATP-binding site [chemical binding]; other site 176280003768 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 176280003769 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 176280003770 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 176280003771 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; cl12011 176280003772 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 176280003773 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 176280003774 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 176280003775 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 176280003776 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 176280003777 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 176280003778 DNA binding residues [nucleotide binding] 176280003779 DNA primase, catalytic core; Region: dnaG; TIGR01391 176280003780 CHC2 zinc finger; Region: zf-CHC2; cl15369 176280003781 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 176280003782 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 176280003783 active site 176280003784 metal binding site [ion binding]; metal-binding site 176280003785 interdomain interaction site; other site 176280003786 Domain of unknown function (DUF299); Region: DUF299; cl00780 176280003787 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_4; cd04617 176280003788 FOG: CBS domain [General function prediction only]; Region: COG0517 176280003789 glycyl-tRNA synthetase; Provisional; Region: PRK04173 176280003790 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 176280003791 motif 1; other site 176280003792 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 176280003793 active site 176280003794 motif 2; other site 176280003795 motif 3; other site 176280003796 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 176280003797 anticodon binding site; other site 176280003798 DNA repair protein RecO; Region: reco; TIGR00613 176280003799 Recombination protein O N terminal; Region: RecO_N; pfam11967 176280003800 Recombination protein O C terminal; Region: RecO_C; pfam02565 176280003801 GTPase Era; Reviewed; Region: era; PRK00089 176280003802 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 176280003803 G1 box; other site 176280003804 GTP/Mg2+ binding site [chemical binding]; other site 176280003805 Switch I region; other site 176280003806 G2 box; other site 176280003807 Switch II region; other site 176280003808 G3 box; other site 176280003809 G4 box; other site 176280003810 G5 box; other site 176280003811 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 176280003812 active site 176280003813 catalytic motif [active] 176280003814 Zn binding site [ion binding]; other site 176280003815 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 176280003816 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 176280003817 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 176280003818 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003819 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 176280003820 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 176280003821 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 176280003822 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 176280003823 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 176280003824 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 176280003825 FeS/SAM binding site; other site 176280003826 RNA methyltransferase, RsmE family; Region: TIGR00046 176280003827 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 176280003828 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 176280003829 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 176280003830 S-adenosylmethionine binding site [chemical binding]; other site 176280003831 chaperone protein DnaJ; Provisional; Region: PRK14280 176280003832 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 176280003833 HSP70 interaction site [polypeptide binding]; other site 176280003834 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 176280003835 substrate binding site [polypeptide binding]; other site 176280003836 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 176280003837 Zn binding sites [ion binding]; other site 176280003838 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 176280003839 dimer interface [polypeptide binding]; other site 176280003840 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 176280003841 heat shock protein GrpE; Provisional; Region: PRK14140 176280003842 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 176280003843 dimer interface [polypeptide binding]; other site 176280003844 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 176280003845 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 176280003846 HrcA protein C terminal domain; Region: HrcA; pfam01628 176280003847 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 176280003848 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 176280003849 FeS/SAM binding site; other site 176280003850 HemN C-terminal region; Region: HemN_C; pfam06969 176280003851 GTP-binding protein LepA; Provisional; Region: PRK05433 176280003852 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 176280003853 G1 box; other site 176280003854 putative GEF interaction site [polypeptide binding]; other site 176280003855 GTP/Mg2+ binding site [chemical binding]; other site 176280003856 Switch I region; other site 176280003857 G2 box; other site 176280003858 G3 box; other site 176280003859 Switch II region; other site 176280003860 G4 box; other site 176280003861 G5 box; other site 176280003862 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 176280003863 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 176280003864 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 176280003865 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 176280003866 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 176280003867 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 176280003868 Competence protein; Region: Competence; cl00471 176280003869 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280003870 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 176280003871 catalytic motif [active] 176280003872 Zn binding site [ion binding]; other site 176280003873 SLBB domain; Region: SLBB; pfam10531 176280003874 comEA protein; Region: comE; TIGR01259 176280003875 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 176280003876 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 176280003877 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 176280003878 S-adenosylmethionine binding site [chemical binding]; other site 176280003879 Domain of unknown function DUF143; Region: DUF143; cl00519 176280003880 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 176280003881 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 176280003882 Zn2+ binding site [ion binding]; other site 176280003883 Mg2+ binding site [ion binding]; other site 176280003884 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 176280003885 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 176280003886 active site 176280003887 (T/H)XGH motif; other site 176280003888 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 176280003889 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 176280003890 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 176280003891 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 176280003892 shikimate binding site; other site 176280003893 NAD(P) binding site [chemical binding]; other site 176280003894 GTPase YqeH; Provisional; Region: PRK13796 176280003895 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 176280003896 GTP/Mg2+ binding site [chemical binding]; other site 176280003897 G4 box; other site 176280003898 G5 box; other site 176280003899 G1 box; other site 176280003900 Switch I region; other site 176280003901 G2 box; other site 176280003902 G3 box; other site 176280003903 Switch II region; other site 176280003904 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 176280003905 active site 176280003906 motif I; other site 176280003907 motif II; other site 176280003908 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 176280003909 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 176280003910 LamB/YcsF family; Region: LamB_YcsF; cl00664 176280003911 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 176280003912 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 176280003913 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280003914 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 176280003915 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 176280003916 carboxyltransferase (CT) interaction site; other site 176280003917 biotinylation site [posttranslational modification]; other site 176280003918 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 176280003919 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 176280003920 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 176280003921 Transposase IS200 like; Region: Y1_Tnp; cl00848 176280003922 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 176280003923 domain; Region: GreA_GreB_N; pfam03449 176280003924 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 176280003925 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 176280003926 Sugar specificity; other site 176280003927 Pyrimidine base specificity; other site 176280003928 ATP-binding site [chemical binding]; other site 176280003929 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 176280003930 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 176280003931 Peptidase family U32; Region: Peptidase_U32; cl03113 176280003932 Peptidase family U32; Region: Peptidase_U32; cl03113 176280003933 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 176280003934 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 176280003935 S-adenosylmethionine binding site [chemical binding]; other site 176280003936 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 176280003937 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 176280003938 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 176280003939 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 176280003940 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 176280003941 motif 1; other site 176280003942 active site 176280003943 motif 2; other site 176280003944 motif 3; other site 176280003945 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 176280003946 DHHA1 domain; Region: DHHA1; pfam02272 176280003947 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 176280003948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280003949 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 176280003950 binding surface 176280003951 TPR motif; other site 176280003952 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 176280003953 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 176280003954 binding surface 176280003955 TPR motif; other site 176280003956 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 176280003957 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 176280003958 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 176280003959 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 176280003960 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280003961 catalytic residue [active] 176280003962 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 176280003963 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 176280003964 Predicted transcriptional regulator [Transcription]; Region: COG1959 176280003965 Helix-turn-helix domains; Region: HTH; cl00088 176280003966 recombination factor protein RarA; Reviewed; Region: PRK13342 176280003967 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 176280003968 Walker A motif; other site 176280003969 ATP binding site [chemical binding]; other site 176280003970 Walker B motif; other site 176280003971 arginine finger; other site 176280003972 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 176280003973 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 176280003974 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 176280003975 putative ATP binding site [chemical binding]; other site 176280003976 putative substrate interface [chemical binding]; other site 176280003977 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 176280003978 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 176280003979 dimer interface [polypeptide binding]; other site 176280003980 anticodon binding site; other site 176280003981 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 176280003982 homodimer interface [polypeptide binding]; other site 176280003983 motif 1; other site 176280003984 active site 176280003985 motif 2; other site 176280003986 GAD domain; Region: GAD; pfam02938 176280003987 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 176280003988 motif 3; other site 176280003989 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 176280003990 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 176280003991 dimer interface [polypeptide binding]; other site 176280003992 motif 1; other site 176280003993 active site 176280003994 motif 2; other site 176280003995 motif 3; other site 176280003996 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 176280003997 anticodon binding site; other site 176280003998 Bacterial SH3 domain; Region: SH3_3; cl02551 176280003999 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 176280004000 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 176280004001 active site 176280004002 metal binding site [ion binding]; metal-binding site 176280004003 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 176280004004 putative active site [active] 176280004005 dimerization interface [polypeptide binding]; other site 176280004006 putative tRNAtyr binding site [nucleotide binding]; other site 176280004007 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 176280004008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 176280004009 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 176280004010 synthetase active site [active] 176280004011 NTP binding site [chemical binding]; other site 176280004012 metal binding site [ion binding]; metal-binding site 176280004013 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 176280004014 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 176280004015 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280004016 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 176280004017 DHH family; Region: DHH; pfam01368 176280004018 DHHA1 domain; Region: DHHA1; pfam02272 176280004019 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 176280004020 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 176280004021 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 176280004022 Protein export membrane protein; Region: SecD_SecF; cl14618 176280004023 Protein export membrane protein; Region: SecD_SecF; cl14618 176280004024 Preprotein translocase subunit; Region: YajC; cl00806 176280004025 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 176280004026 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 176280004027 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 176280004028 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 176280004029 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 176280004030 Walker A motif; other site 176280004031 ATP binding site [chemical binding]; other site 176280004032 Walker B motif; other site 176280004033 arginine finger; other site 176280004034 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 176280004035 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 176280004036 RuvA N terminal domain; Region: RuvA_N; pfam01330 176280004037 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 176280004038 hypothetical protein; Provisional; Region: PRK04435 176280004039 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 176280004040 GTPase CgtA; Reviewed; Region: obgE; PRK12297 176280004041 GTP1/OBG; Region: GTP1_OBG; pfam01018 176280004042 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 176280004043 G1 box; other site 176280004044 GTP/Mg2+ binding site [chemical binding]; other site 176280004045 Switch I region; other site 176280004046 G2 box; other site 176280004047 G3 box; other site 176280004048 Switch II region; other site 176280004049 G4 box; other site 176280004050 G5 box; other site 176280004051 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 176280004052 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 176280004053 Protein of unknown function (DUF464); Region: DUF464; cl01080 176280004054 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 176280004055 rod shape-determining protein MreD; Region: MreD; cl01087 176280004056 rod shape-determining protein MreC; Provisional; Region: PRK13922 176280004057 rod shape-determining protein MreC; Region: MreC; pfam04085 176280004058 hypothetical protein; Reviewed; Region: PRK00024 176280004059 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 176280004060 MPN+ (JAMM) motif; other site 176280004061 Zinc-binding site [ion binding]; other site 176280004062 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 176280004063 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 176280004064 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280004065 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 176280004066 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 176280004067 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 176280004068 active site 176280004069 HIGH motif; other site 176280004070 nucleotide binding site [chemical binding]; other site 176280004071 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 176280004072 active site 176280004073 KMSKS motif; other site 176280004074 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 176280004075 tRNA binding surface [nucleotide binding]; other site 176280004076 anticodon binding site; other site 176280004077 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 176280004078 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 176280004079 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 176280004080 Putative ammonia monooxygenase; Region: AmoA; pfam05145 176280004081 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 176280004082 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 176280004083 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 176280004084 inhibitor-cofactor binding pocket; inhibition site 176280004085 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280004086 catalytic residue [active] 176280004087 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 176280004088 dimer interface [polypeptide binding]; other site 176280004089 active site 176280004090 Schiff base residues; other site 176280004091 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 176280004092 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 176280004093 active site 176280004094 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 176280004095 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 176280004096 domain interfaces; other site 176280004097 active site 176280004098 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 176280004099 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 176280004100 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 176280004101 tRNA; other site 176280004102 putative tRNA binding site [nucleotide binding]; other site 176280004103 putative NADP binding site [chemical binding]; other site 176280004104 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 176280004105 Predicted GTPase [General function prediction only]; Region: COG0218 176280004106 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 176280004107 G1 box; other site 176280004108 GTP/Mg2+ binding site [chemical binding]; other site 176280004109 Switch I region; other site 176280004110 G2 box; other site 176280004111 G3 box; other site 176280004112 Switch II region; other site 176280004113 G4 box; other site 176280004114 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 176280004115 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 176280004116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004117 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 176280004118 trigger factor; Provisional; Region: tig; PRK01490 176280004119 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 176280004120 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 176280004121 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 176280004122 active site 176280004123 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 176280004124 nudix motif; other site 176280004125 ribosomal protein L20; Region: rpl20; CHL00068 176280004126 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 176280004127 23S rRNA binding site [nucleotide binding]; other site 176280004128 L21 binding site [polypeptide binding]; other site 176280004129 L13 binding site [polypeptide binding]; other site 176280004130 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 176280004131 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 176280004132 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 176280004133 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 176280004134 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280004135 Amino acid permease; Region: AA_permease; cl00524 176280004136 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 176280004137 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 176280004138 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 176280004139 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 176280004140 active site 176280004141 dimer interface [polypeptide binding]; other site 176280004142 motif 1; other site 176280004143 motif 2; other site 176280004144 motif 3; other site 176280004145 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 176280004146 anticodon binding site; other site 176280004147 primosomal protein DnaI; Reviewed; Region: PRK08939 176280004148 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 176280004149 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 176280004150 Walker A motif; other site 176280004151 ATP binding site [chemical binding]; other site 176280004152 Walker B motif; other site 176280004153 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 176280004154 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 176280004155 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 176280004156 ATP cone domain; Region: ATP-cone; pfam03477 176280004157 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 176280004158 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 176280004159 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 176280004160 Transposase domain (DUF772); Region: DUF772; cl12084 176280004161 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 176280004162 CoA-binding site [chemical binding]; other site 176280004163 ATP-binding [chemical binding]; other site 176280004164 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 176280004165 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 176280004166 DNA binding site [nucleotide binding] 176280004167 catalytic residue [active] 176280004168 H2TH interface [polypeptide binding]; other site 176280004169 putative catalytic residues [active] 176280004170 turnover-facilitating residue; other site 176280004171 intercalation triad [nucleotide binding]; other site 176280004172 8OG recognition residue [nucleotide binding]; other site 176280004173 putative reading head residues; other site 176280004174 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 176280004175 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 176280004176 DNA polymerase I; Provisional; Region: PRK05755 176280004177 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 176280004178 active site 176280004179 metal binding site 1 [ion binding]; metal-binding site 176280004180 putative 5' ssDNA interaction site; other site 176280004181 metal binding site 3; metal-binding site 176280004182 metal binding site 2 [ion binding]; metal-binding site 176280004183 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 176280004184 putative DNA binding site [nucleotide binding]; other site 176280004185 putative metal binding site [ion binding]; other site 176280004186 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 176280004187 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 176280004188 active site 176280004189 DNA binding site [nucleotide binding] 176280004190 catalytic site [active] 176280004191 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 176280004192 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 176280004193 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 176280004194 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 176280004195 dimer interface [polypeptide binding]; other site 176280004196 phosphorylation site [posttranslational modification] 176280004197 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280004198 ATP binding site [chemical binding]; other site 176280004199 Mg2+ binding site [ion binding]; other site 176280004200 G-X-G motif; other site 176280004201 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280004202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280004203 active site 176280004204 phosphorylation site [posttranslational modification] 176280004205 intermolecular recognition site; other site 176280004206 dimerization interface [polypeptide binding]; other site 176280004207 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 176280004208 DNA binding site [nucleotide binding] 176280004209 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 176280004210 isocitrate dehydrogenase; Validated; Region: PRK07362 176280004211 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 176280004212 dimer interface [polypeptide binding]; other site 176280004213 Citrate synthase; Region: Citrate_synt; pfam00285 176280004214 active site 176280004215 citrylCoA binding site [chemical binding]; other site 176280004216 oxalacetate/citrate binding site [chemical binding]; other site 176280004217 coenzyme A binding site [chemical binding]; other site 176280004218 catalytic triad [active] 176280004219 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 176280004220 pyruvate kinase; Provisional; Region: PRK06354 176280004221 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; cd00288 176280004222 domain interfaces; other site 176280004223 active site 176280004224 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 176280004225 6-phosphofructokinase; Provisional; Region: PRK03202 176280004226 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 176280004227 dimerization interface [polypeptide binding]; other site 176280004228 allosteric effector site; other site 176280004229 active site 176280004230 ADP/pyrophosphate binding site [chemical binding]; other site 176280004231 fructose-1,6-bisphosphate binding site; other site 176280004232 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 176280004233 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 176280004234 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 176280004235 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 176280004236 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 176280004237 Malic enzyme, N-terminal domain; Region: malic; pfam00390 176280004238 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 176280004239 putative NAD(P) binding site [chemical binding]; other site 176280004240 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 176280004241 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 176280004242 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 176280004243 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 176280004244 generic binding surface I; other site 176280004245 generic binding surface II; other site 176280004246 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 176280004247 DHH family; Region: DHH; pfam01368 176280004248 DHHA1 domain; Region: DHHA1; pfam02272 176280004249 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 176280004250 Helix-turn-helix domains; Region: HTH; cl00088 176280004251 DNA-binding site [nucleotide binding]; DNA binding site 176280004252 DRTGG domain; Region: DRTGG; cl12147 176280004253 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 176280004254 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 176280004255 Ligand Binding Site [chemical binding]; other site 176280004256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 176280004257 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 176280004258 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 176280004259 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 176280004260 active site 176280004261 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 176280004262 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 176280004263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004264 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 176280004265 Ligand Binding Site [chemical binding]; other site 176280004266 Acetokinase family; Region: Acetate_kinase; cl01029 176280004267 propionate/acetate kinase; Provisional; Region: PRK12379 176280004268 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; cl12011 176280004269 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 176280004270 dimer interface [polypeptide binding]; other site 176280004271 catalytic triad [active] 176280004272 peroxidatic and resolving cysteines [active] 176280004273 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 176280004274 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 176280004275 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 176280004276 THUMP domain; Region: THUMP; cl12076 176280004277 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 176280004278 Ligand Binding Site [chemical binding]; other site 176280004279 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 176280004280 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 176280004281 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280004282 catalytic residue [active] 176280004283 septation ring formation regulator EzrA; Provisional; Region: PRK04778 176280004284 GAF domain; Region: GAF; cl15785 176280004285 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 176280004286 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 176280004287 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 176280004288 RNA binding surface [nucleotide binding]; other site 176280004289 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 176280004290 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 176280004291 active site 176280004292 catalytic site [active] 176280004293 OsmC-like protein; Region: OsmC; cl00767 176280004294 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 176280004295 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 176280004296 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280004297 catalytic residue [active] 176280004298 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 176280004299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004300 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 176280004301 putative L-serine binding site [chemical binding]; other site 176280004302 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 176280004303 motif II; other site 176280004304 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280004305 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 176280004306 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280004307 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 176280004308 active site turn [active] 176280004309 phosphorylation site [posttranslational modification] 176280004310 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 176280004311 putative acyl-acceptor binding pocket; other site 176280004312 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 176280004313 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 176280004314 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 176280004315 protein binding site [polypeptide binding]; other site 176280004316 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 176280004317 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 176280004318 active site 176280004319 HIGH motif; other site 176280004320 dimer interface [polypeptide binding]; other site 176280004321 KMSKS motif; other site 176280004322 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 176280004323 RNA binding surface [nucleotide binding]; other site 176280004324 Transglycosylase; Region: Transgly; cl07896 176280004325 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 176280004326 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 176280004327 Potassium binding sites [ion binding]; other site 176280004328 Cesium cation binding sites [ion binding]; other site 176280004329 catabolite control protein A; Region: ccpA; TIGR01481 176280004330 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 176280004331 DNA binding site [nucleotide binding] 176280004332 domain linker motif; other site 176280004333 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 176280004334 dimerization interface [polypeptide binding]; other site 176280004335 effector binding site; other site 176280004336 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 176280004337 Chorismate mutase type II; Region: CM_2; cl00693 176280004338 NeuB family; Region: NeuB; cl00496 176280004339 YtxH-like protein; Region: YtxH; cl02079 176280004340 MAEBL; Provisional; Region: PTZ00121 176280004341 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 176280004342 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 176280004343 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 176280004344 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280004345 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 176280004346 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 176280004347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004348 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 176280004349 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 176280004350 putative tRNA-binding site [nucleotide binding]; other site 176280004351 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 176280004352 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 176280004353 catalytic residues [active] 176280004354 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 176280004355 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 176280004356 oligomer interface [polypeptide binding]; other site 176280004357 active site 176280004358 metal binding site [ion binding]; metal-binding site 176280004359 Predicted small secreted protein [Function unknown]; Region: COG5584 176280004360 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; cl12011 176280004361 Phosphotransferase enzyme family; Region: APH; pfam01636 176280004362 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 176280004363 substrate binding site [chemical binding]; other site 176280004364 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 176280004365 homodimer interface [polypeptide binding]; other site 176280004366 substrate-cofactor binding pocket; other site 176280004367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280004368 Aminotransferase class IV; Region: Aminotran_4; pfam01063 176280004369 catalytic residue [active] 176280004370 dipeptidase PepV; Reviewed; Region: PRK07318 176280004371 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 176280004372 active site 176280004373 metal binding site [ion binding]; metal-binding site 176280004374 YtxH-like protein; Region: YtxH; cl02079 176280004375 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 176280004376 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 176280004377 RNA binding surface [nucleotide binding]; other site 176280004378 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 176280004379 active site 176280004380 uracil binding [chemical binding]; other site 176280004381 stage V sporulation protein B; Region: spore_V_B; TIGR02900 176280004382 MatE; Region: MatE; cl10513 176280004383 Predicted flavoproteins [General function prediction only]; Region: COG2081 176280004384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004385 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280004386 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004387 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004388 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004389 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004390 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004391 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004392 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004393 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004394 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004395 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004396 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004397 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004398 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004399 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004400 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004401 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004402 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004403 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004404 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004405 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004406 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004407 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004408 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004409 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004410 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004411 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004412 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004413 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004414 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004415 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004416 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004417 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004418 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 176280004419 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 176280004420 active site residue [active] 176280004421 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 176280004422 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 176280004423 HIGH motif; other site 176280004424 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 176280004425 active site 176280004426 KMSKS motif; other site 176280004427 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 176280004428 tRNA binding surface [nucleotide binding]; other site 176280004429 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 176280004430 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280004431 putative substrate translocation pore; other site 176280004432 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 176280004433 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; cl12011 176280004434 Helix-turn-helix domains; Region: HTH; cl00088 176280004435 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 176280004436 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 176280004437 Proline dehydrogenase; Region: Pro_dh; cl03282 176280004438 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 176280004439 homopentamer interface [polypeptide binding]; other site 176280004440 active site 176280004441 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 176280004442 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 176280004443 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 176280004444 dimerization interface [polypeptide binding]; other site 176280004445 active site 176280004446 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 176280004447 Lumazine binding domain; Region: Lum_binding; pfam00677 176280004448 Lumazine binding domain; Region: Lum_binding; pfam00677 176280004449 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 176280004450 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 176280004451 catalytic motif [active] 176280004452 Zn binding site [ion binding]; other site 176280004453 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 176280004454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 176280004455 hypothetical protein; Provisional; Region: PRK09897 176280004456 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 176280004457 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 176280004458 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 176280004459 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 176280004460 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 176280004461 DNA binding residues [nucleotide binding] 176280004462 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 176280004463 active site 176280004464 intersubunit interactions; other site 176280004465 catalytic residue [active] 176280004466 CrcB-like protein; Region: CRCB; cl09114 176280004467 CrcB-like protein; Region: CRCB; cl09114 176280004468 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280004469 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280004470 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280004471 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280004472 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 176280004473 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 176280004474 active site 176280004475 catalytic tetrad [active] 176280004476 S-adenosylmethionine synthetase; Validated; Region: PRK05250 176280004477 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 176280004478 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 176280004479 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 176280004480 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 176280004481 active site 176280004482 substrate-binding site [chemical binding]; other site 176280004483 metal-binding site [ion binding] 176280004484 ATP binding site [chemical binding]; other site 176280004485 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 176280004486 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 176280004487 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 176280004488 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_8; cd04665 176280004489 nudix motif; other site 176280004490 Domain of unknown function DUF37; Region: DUF37; cl00506 176280004491 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 176280004492 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 176280004493 metal binding site [ion binding]; metal-binding site 176280004494 substrate binding pocket [chemical binding]; other site 176280004495 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 176280004496 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 176280004497 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; cl00630 176280004498 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 176280004499 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 176280004500 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 176280004501 Int/Topo IB signature motif; other site 176280004502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004503 Walker A/P-loop; other site 176280004504 ATP binding site [chemical binding]; other site 176280004505 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 176280004506 CHC2 zinc finger; Region: zf-CHC2; cl15369 176280004507 CHC2 zinc finger; Region: zf-CHC2; cl15369 176280004508 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 176280004509 active site 176280004510 catalytic site [active] 176280004511 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 176280004512 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 176280004513 DNA topoisomerase III; Provisional; Region: PRK07726 176280004514 active site 176280004515 putative interdomain interaction site [polypeptide binding]; other site 176280004516 putative metal-binding site [ion binding]; other site 176280004517 putative nucleotide binding site [chemical binding]; other site 176280004518 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 176280004519 domain I; other site 176280004520 DNA binding groove [nucleotide binding] 176280004521 phosphate binding site [ion binding]; other site 176280004522 domain II; other site 176280004523 domain III; other site 176280004524 nucleotide binding site [chemical binding]; other site 176280004525 catalytic site [active] 176280004526 domain IV; other site 176280004527 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 176280004528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 176280004529 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 176280004530 NlpC/P60 family; Region: NLPC_P60; cl11438 176280004531 AAA-like domain; Region: AAA_10; pfam12846 176280004532 TrbC/VIRB2 family; Region: TrbC; cl01583 176280004533 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 176280004534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004535 Walker A motif; other site 176280004536 ATP binding site [chemical binding]; other site 176280004537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004538 Walker B motif; other site 176280004539 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 176280004540 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 176280004541 Domain of unknown function (DUF771); Region: DUF771; cl09962 176280004542 Protein of unknown function (DUF935); Region: DUF935; cl15409 176280004543 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 176280004544 Phage integrase family; Region: Phage_integrase; pfam00589 176280004545 Int/Topo IB signature motif; other site 176280004546 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 176280004547 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 176280004548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004549 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 176280004550 ferrochelatase; Provisional; Region: PRK12435 176280004551 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 176280004552 C-terminal domain interface [polypeptide binding]; other site 176280004553 active site 176280004554 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 176280004555 active site 176280004556 N-terminal domain interface [polypeptide binding]; other site 176280004557 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 176280004558 substrate binding site [chemical binding]; other site 176280004559 active site 176280004560 Cadmium resistance transporter; Region: Cad; cl04177 176280004561 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 176280004562 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 176280004563 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 176280004564 Walker A/P-loop; other site 176280004565 ATP binding site [chemical binding]; other site 176280004566 Q-loop/lid; other site 176280004567 ABC transporter signature motif; other site 176280004568 Walker B; other site 176280004569 D-loop; other site 176280004570 H-loop/switch region; other site 176280004571 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 176280004572 HIT family signature motif; other site 176280004573 catalytic residue [active] 176280004574 YtxH-like protein; Region: YtxH; cl02079 176280004575 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 176280004576 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 176280004577 PPIC-type PPIASE domain; Region: Rotamase; cl08278 176280004578 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 176280004579 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 176280004580 generic binding surface II; other site 176280004581 generic binding surface I; other site 176280004582 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 176280004583 Zn2+ binding site [ion binding]; other site 176280004584 Mg2+ binding site [ion binding]; other site 176280004585 Uncharacterized conserved protein [Function unknown]; Region: COG4717 176280004586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004587 Walker A/P-loop; other site 176280004588 ATP binding site [chemical binding]; other site 176280004589 Plant specific eukaryotic initiation factor 4B; Region: eIF-4B; pfam06273 176280004590 Peptidase family M48; Region: Peptidase_M48; cl12018 176280004591 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 176280004592 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 176280004593 active site 176280004594 metal binding site [ion binding]; metal-binding site 176280004595 DNA binding site [nucleotide binding] 176280004596 Protein of unknown function (DUF964); Region: DUF964; cl01483 176280004597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 176280004598 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 176280004599 non-specific DNA binding site [nucleotide binding]; other site 176280004600 salt bridge; other site 176280004601 sequence-specific DNA binding site [nucleotide binding]; other site 176280004602 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 176280004603 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280004604 active site 176280004605 phosphorylation site [posttranslational modification] 176280004606 intermolecular recognition site; other site 176280004607 dimerization interface [polypeptide binding]; other site 176280004608 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 176280004609 DNA binding residues [nucleotide binding] 176280004610 dimerization interface [polypeptide binding]; other site 176280004611 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 176280004612 GAF domain; Region: GAF; cl00853 176280004613 Histidine kinase; Region: HisKA_3; pfam07730 176280004614 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280004615 ATP binding site [chemical binding]; other site 176280004616 Mg2+ binding site [ion binding]; other site 176280004617 G-X-G motif; other site 176280004618 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 176280004619 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 176280004620 active site 176280004621 fumarate hydratase; Reviewed; Region: fumC; PRK00485 176280004622 Class II fumarases; Region: Fumarase_classII; cd01362 176280004623 active site 176280004624 tetramer interface [polypeptide binding]; other site 176280004625 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 176280004626 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 176280004627 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 176280004628 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 176280004629 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 176280004630 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 176280004631 Walker A/P-loop; other site 176280004632 ATP binding site [chemical binding]; other site 176280004633 Q-loop/lid; other site 176280004634 ABC transporter signature motif; other site 176280004635 Walker B; other site 176280004636 D-loop; other site 176280004637 H-loop/switch region; other site 176280004638 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 176280004639 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 176280004640 substrate binding pocket [chemical binding]; other site 176280004641 membrane-bound complex binding site; other site 176280004642 hinge residues; other site 176280004643 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 176280004644 dimer interface [polypeptide binding]; other site 176280004645 conserved gate region; other site 176280004646 ABC-ATPase subunit interface; other site 176280004647 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280004648 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 176280004649 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 176280004650 metal binding site 2 [ion binding]; metal-binding site 176280004651 putative DNA binding helix; other site 176280004652 metal binding site 1 [ion binding]; metal-binding site 176280004653 dimer interface [polypeptide binding]; other site 176280004654 structural Zn2+ binding site [ion binding]; other site 176280004655 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 176280004656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004657 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 176280004658 catalytic triad [active] 176280004659 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 176280004660 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 176280004661 inhibitor-cofactor binding pocket; inhibition site 176280004662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280004663 catalytic residue [active] 176280004664 Predicted membrane protein [Function unknown]; Region: COG4129 176280004665 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 176280004666 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 176280004667 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 176280004668 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 176280004669 Walker A/P-loop; other site 176280004670 ATP binding site [chemical binding]; other site 176280004671 Q-loop/lid; other site 176280004672 ABC transporter signature motif; other site 176280004673 Walker B; other site 176280004674 D-loop; other site 176280004675 H-loop/switch region; other site 176280004676 Protein of unknown function (DUF402); Region: DUF402; cl00979 176280004677 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 176280004678 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 176280004679 minor groove reading motif; other site 176280004680 helix-hairpin-helix signature motif; other site 176280004681 substrate binding pocket [chemical binding]; other site 176280004682 active site 176280004683 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 176280004684 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 176280004685 DNA binding and oxoG recognition site [nucleotide binding] 176280004686 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 176280004687 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 176280004688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004689 Walker A/P-loop; other site 176280004690 ATP binding site [chemical binding]; other site 176280004691 Q-loop/lid; other site 176280004692 ABC transporter signature motif; other site 176280004693 Walker B; other site 176280004694 D-loop; other site 176280004695 H-loop/switch region; other site 176280004696 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 176280004697 RecX family; Region: RecX; cl00936 176280004698 Transglycosylase; Region: Transgly; cl07896 176280004699 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 176280004700 proposed catalytic triad [active] 176280004701 conserved cys residue [active] 176280004702 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; cl15367 176280004703 YfkB-like domain; Region: YfkB; pfam08756 176280004704 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 176280004705 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 176280004706 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 176280004707 Low molecular weight phosphatase family; Region: LMWPc; cd00115 176280004708 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 176280004709 active site 176280004710 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 176280004711 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 176280004712 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280004713 active site 176280004714 phosphorylation site [posttranslational modification] 176280004715 intermolecular recognition site; other site 176280004716 dimerization interface [polypeptide binding]; other site 176280004717 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 176280004718 DNA binding residues [nucleotide binding] 176280004719 dimerization interface [polypeptide binding]; other site 176280004720 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 176280004721 Histidine kinase; Region: HisKA_3; pfam07730 176280004722 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280004723 ATP binding site [chemical binding]; other site 176280004724 Mg2+ binding site [ion binding]; other site 176280004725 G-X-G motif; other site 176280004726 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 176280004727 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 176280004728 active site 176280004729 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 176280004730 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 176280004731 catalytic triad [active] 176280004732 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 176280004733 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 176280004734 Ferritin-like domain; Region: Ferritin; pfam00210 176280004735 ferroxidase diiron center [ion binding]; other site 176280004736 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 176280004737 active site 176280004738 substrate binding site [chemical binding]; other site 176280004739 catalytic site [active] 176280004740 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 176280004741 active site 176280004742 DNA polymerase IV; Validated; Region: PRK02406 176280004743 DNA binding site [nucleotide binding] 176280004744 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 176280004745 TRAM domain; Region: TRAM; cl01282 176280004746 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 176280004747 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 176280004748 S-adenosylmethionine binding site [chemical binding]; other site 176280004749 putative lipid kinase; Reviewed; Region: PRK13337 176280004750 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 176280004751 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 176280004752 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 176280004753 GatB domain; Region: GatB_Yqey; cl11497 176280004754 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 176280004755 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; cl11426 176280004756 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 176280004757 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 176280004758 Sodium:solute symporter family; Region: SSF; cl00456 176280004759 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 176280004760 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 176280004761 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 176280004762 nucleotide binding pocket [chemical binding]; other site 176280004763 K-X-D-G motif; other site 176280004764 catalytic site [active] 176280004765 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 176280004766 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 176280004767 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 176280004768 Dimer interface [polypeptide binding]; other site 176280004769 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 176280004770 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004771 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 176280004772 substrate binding site [chemical binding]; other site 176280004773 putative active site [active] 176280004774 dimer interface [polypeptide binding]; other site 176280004775 Trp repressor protein; Region: Trp_repressor; cl01121 176280004776 adenylosuccinate lyase; Provisional; Region: PRK07492 176280004777 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 176280004778 tetramer interface [polypeptide binding]; other site 176280004779 active site 176280004780 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 176280004781 NETI protein; Region: NETI; pfam14044 176280004782 hypothetical protein; Provisional; Region: PRK04164 176280004783 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 176280004784 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 176280004785 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 176280004786 homodimer interface [polypeptide binding]; other site 176280004787 NAD binding pocket [chemical binding]; other site 176280004788 ATP binding pocket [chemical binding]; other site 176280004789 Mg binding site [ion binding]; other site 176280004790 active-site loop [active] 176280004791 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 176280004792 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 176280004793 active site 176280004794 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 176280004795 active site 176280004796 dimer interface [polypeptide binding]; other site 176280004797 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 176280004798 Prephenate dehydratase; Region: PDT; pfam00800 176280004799 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 176280004800 putative L-Phe binding site [chemical binding]; other site 176280004801 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 176280004802 Isochorismatase family; Region: Isochorismatase; pfam00857 176280004803 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 176280004804 catalytic triad [active] 176280004805 conserved cis-peptide bond; other site 176280004806 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 176280004807 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 176280004808 DHHA2 domain; Region: DHHA2; pfam02833 176280004809 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 176280004810 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 176280004811 NAD(P) binding site [chemical binding]; other site 176280004812 catalytic residues [active] 176280004813 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 176280004814 Helix-turn-helix domains; Region: HTH; cl00088 176280004815 Peptidase family M48; Region: Peptidase_M48; cl12018 176280004816 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280004817 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 176280004818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280004819 YolD-like protein; Region: YolD; pfam08863 176280004820 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 176280004821 Phage integrase family; Region: Phage_integrase; pfam00589 176280004822 Int/Topo IB signature motif; other site 176280004823 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 176280004824 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 176280004825 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 176280004826 Int/Topo IB signature motif; other site 176280004827 YolD-like protein; Region: YolD; pfam08863 176280004828 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 176280004829 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 176280004830 active site 176280004831 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 176280004832 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 176280004833 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 176280004834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004835 Walker A/P-loop; other site 176280004836 ATP binding site [chemical binding]; other site 176280004837 Q-loop/lid; other site 176280004838 ABC transporter signature motif; other site 176280004839 Walker B; other site 176280004840 D-loop; other site 176280004841 H-loop/switch region; other site 176280004842 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 176280004843 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 176280004844 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 176280004845 Walker A/P-loop; other site 176280004846 ATP binding site [chemical binding]; other site 176280004847 Q-loop/lid; other site 176280004848 ABC transporter signature motif; other site 176280004849 Walker B; other site 176280004850 D-loop; other site 176280004851 H-loop/switch region; other site 176280004852 Predicted transcriptional regulators [Transcription]; Region: COG1725 176280004853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 176280004854 DNA-binding site [nucleotide binding]; DNA binding site 176280004855 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 176280004856 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 176280004857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 176280004858 catalytic residue [active] 176280004859 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 176280004860 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 176280004861 ring oligomerisation interface [polypeptide binding]; other site 176280004862 ATP/Mg binding site [chemical binding]; other site 176280004863 stacking interactions; other site 176280004864 hinge regions; other site 176280004865 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 176280004866 oligomerisation interface [polypeptide binding]; other site 176280004867 mobile loop; other site 176280004868 roof hairpin; other site 176280004869 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 176280004870 Predicted amidohydrolase [General function prediction only]; Region: COG0388 176280004871 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 176280004872 putative active site [active] 176280004873 catalytic triad [active] 176280004874 putative dimer interface [polypeptide binding]; other site 176280004875 delta-hemolysin; Provisional; Region: PRK14752 176280004876 Accessory gene regulator B; Region: AgrB; cl01873 176280004877 Staphylococcal AgrD protein; Region: AgrD; cl05477 176280004878 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 176280004879 Histidine kinase-like ATPases; This family includes several ATP-binding 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 176280004880 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 176280004881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280004882 active site 176280004883 phosphorylation site [posttranslational modification] 176280004884 intermolecular recognition site; other site 176280004885 dimerization interface [polypeptide binding]; other site 176280004886 LytTr DNA-binding domain; Region: LytTR; cl04498 176280004887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 176280004888 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 176280004889 putative substrate binding site [chemical binding]; other site 176280004890 putative ATP binding site [chemical binding]; other site 176280004891 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 176280004892 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 176280004893 substrate binding [chemical binding]; other site 176280004894 active site 176280004895 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 176280004896 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 176280004897 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 176280004898 DNA binding site [nucleotide binding] 176280004899 domain linker motif; other site 176280004900 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 176280004901 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 176280004902 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 176280004903 CPxP motif; other site 176280004904 YeeE/YedE family (DUF395); Region: DUF395; cl01018 176280004905 putative inner membrane protein; Provisional; Region: PRK11099 176280004906 YeeE/YedE family (DUF395); Region: DUF395; cl01018 176280004907 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 176280004908 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 176280004909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004910 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 176280004911 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004912 Walker A/P-loop; other site 176280004913 ATP binding site [chemical binding]; other site 176280004914 Q-loop/lid; other site 176280004915 ABC transporter signature motif; other site 176280004916 Walker B; other site 176280004917 D-loop; other site 176280004918 H-loop/switch region; other site 176280004919 ABC transporter; Region: ABC_tran_2; pfam12848 176280004920 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 176280004921 peptide chain release factor 2; Region: prfB; TIGR00020 176280004922 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 176280004923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280004924 Walker A/P-loop; other site 176280004925 ATP binding site [chemical binding]; other site 176280004926 Q-loop/lid; other site 176280004927 ABC transporter signature motif; other site 176280004928 Walker B; other site 176280004929 D-loop; other site 176280004930 H-loop/switch region; other site 176280004931 UGMP family protein; Validated; Region: PRK09604 176280004932 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 176280004933 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 176280004934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280004935 Coenzyme A binding pocket [chemical binding]; other site 176280004936 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 176280004937 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 176280004938 Dehydratase family; Region: ILVD_EDD; cl00340 176280004939 6-phosphogluconate dehydratase; Region: edd; TIGR01196 176280004940 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 176280004941 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 176280004942 PYR/PP interface [polypeptide binding]; other site 176280004943 dimer interface [polypeptide binding]; other site 176280004944 TPP binding site [chemical binding]; other site 176280004945 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 176280004946 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 176280004947 TPP-binding site [chemical binding]; other site 176280004948 dimer interface [polypeptide binding]; other site 176280004949 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 176280004950 ketol-acid reductoisomerase; Provisional; Region: PRK05479 176280004951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280004952 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 176280004953 2-isopropylmalate synthase; Validated; Region: PRK00915 176280004954 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 176280004955 active site 176280004956 catalytic residues [active] 176280004957 metal binding site [ion binding]; metal-binding site 176280004958 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 176280004959 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 176280004960 tartrate dehydrogenase; Provisional; Region: PRK08194 176280004961 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 176280004962 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 176280004963 substrate binding site [chemical binding]; other site 176280004964 ligand binding site [chemical binding]; other site 176280004965 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 176280004966 substrate binding site [chemical binding]; other site 176280004967 threonine dehydratase; Validated; Region: PRK08639 176280004968 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 176280004969 tetramer interface [polypeptide binding]; other site 176280004970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280004971 catalytic residue [active] 176280004972 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 176280004973 putative Ile/Val binding site [chemical binding]; other site 176280004974 hypothetical protein; Provisional; Region: PRK04351 176280004975 SprT homologues; Region: SprT; cl01182 176280004976 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 176280004977 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 176280004978 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 176280004979 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 176280004980 RNA binding site [nucleotide binding]; other site 176280004981 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 176280004982 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 176280004983 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 176280004984 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 176280004985 DNA binding residues [nucleotide binding] 176280004986 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280004987 ATP binding site [chemical binding]; other site 176280004988 Mg2+ binding site [ion binding]; other site 176280004989 G-X-G motif; other site 176280004990 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 176280004991 anti sigma factor interaction site; other site 176280004992 regulatory phosphorylation site [posttranslational modification]; other site 176280004993 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 176280004994 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 176280004995 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 176280004996 PemK-like protein; Region: PemK; cl00995 176280004997 alanine racemase; Reviewed; Region: alr; PRK00053 176280004998 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 176280004999 active site 176280005000 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 176280005001 dimer interface [polypeptide binding]; other site 176280005002 substrate binding site [chemical binding]; other site 176280005003 catalytic residues [active] 176280005004 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 176280005005 Bacterial membrane flanked domain; Region: DUF304; cl01348 176280005006 Predicted membrane protein [Function unknown]; Region: COG3428 176280005007 Bacterial PH domain; Region: DUF304; cl01348 176280005008 Bacterial PH domain; Region: DUF304; cl01348 176280005009 Bacterial membrane flanked domain; Region: DUF304; cl01348 176280005010 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 176280005011 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 176280005012 ATP binding site [chemical binding]; other site 176280005013 Mg++ binding site [ion binding]; other site 176280005014 motif III; other site 176280005015 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 176280005016 nucleotide binding region [chemical binding]; other site 176280005017 ATP-binding site [chemical binding]; other site 176280005018 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 176280005019 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 176280005020 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280005021 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 176280005022 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 176280005023 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 176280005024 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 176280005025 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 176280005026 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 176280005027 metal-binding site [ion binding] 176280005028 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 176280005029 putative homotetramer interface [polypeptide binding]; other site 176280005030 putative homodimer interface [polypeptide binding]; other site 176280005031 allosteric switch controlling residues; other site 176280005032 putative metal binding site [ion binding]; other site 176280005033 putative homodimer-homodimer interface [polypeptide binding]; other site 176280005034 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 176280005035 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 176280005036 putative active site [active] 176280005037 catalytic site [active] 176280005038 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 176280005039 putative active site [active] 176280005040 catalytic site [active] 176280005041 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 176280005042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 176280005043 OxaA-like protein precursor; Provisional; Region: PRK02463 176280005044 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 176280005045 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 176280005046 thiamine phosphate binding site [chemical binding]; other site 176280005047 active site 176280005048 pyrophosphate binding site [ion binding]; other site 176280005049 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 176280005050 substrate binding site [chemical binding]; other site 176280005051 multimerization interface [polypeptide binding]; other site 176280005052 ATP binding site [chemical binding]; other site 176280005053 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 176280005054 dimer interface [polypeptide binding]; other site 176280005055 substrate binding site [chemical binding]; other site 176280005056 ATP binding site [chemical binding]; other site 176280005057 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 176280005058 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 176280005059 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 176280005060 dimer interface [polypeptide binding]; other site 176280005061 ssDNA binding site [nucleotide binding]; other site 176280005062 tetramer (dimer of dimers) interface [polypeptide binding]; other site 176280005063 YwpF-like protein; Region: YwpF; pfam14183 176280005064 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 176280005065 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 176280005066 hinge; other site 176280005067 active site 176280005068 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 176280005069 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 176280005070 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 176280005071 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 176280005072 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 176280005073 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 176280005074 alpha subunit interaction interface [polypeptide binding]; other site 176280005075 Walker A motif; other site 176280005076 ATP binding site [chemical binding]; other site 176280005077 Walker B motif; other site 176280005078 inhibitor binding site; inhibition site 176280005079 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 176280005080 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 176280005081 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 176280005082 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 176280005083 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 176280005084 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 176280005085 beta subunit interaction interface [polypeptide binding]; other site 176280005086 Walker A motif; other site 176280005087 ATP binding site [chemical binding]; other site 176280005088 Walker B motif; other site 176280005089 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 176280005090 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 176280005091 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 176280005092 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 176280005093 ATP synthase subunit C; Region: ATP-synt_C; cl00466 176280005094 ATP synthase A chain; Region: ATP-synt_A; cl00413 176280005095 ATP synthase I chain; Region: ATP_synt_I; cl09170 176280005096 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 176280005097 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 176280005098 active site 176280005099 homodimer interface [polypeptide binding]; other site 176280005100 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280005101 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 176280005102 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 176280005103 dimer interface [polypeptide binding]; other site 176280005104 glycine-pyridoxal phosphate binding site [chemical binding]; other site 176280005105 active site 176280005106 folate binding site [chemical binding]; other site 176280005107 Protein of unknown function (DUF436); Region: DUF436; cl01860 176280005108 Low molecular weight phosphatase family; Region: LMWPc; cd00115 176280005109 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 176280005110 active site 176280005111 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 176280005112 SUA5 domain; Region: SUA5; pfam03481 176280005113 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 176280005114 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 176280005115 S-adenosylmethionine binding site [chemical binding]; other site 176280005116 peptide chain release factor 1; Validated; Region: prfA; PRK00591 176280005117 RF-1 domain; Region: RF-1; cl02875 176280005118 RF-1 domain; Region: RF-1; cl02875 176280005119 Thymidine kinase; Region: TK; cl00631 176280005120 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 176280005121 transcription termination factor Rho; Provisional; Region: rho; PRK09376 176280005122 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 176280005123 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 176280005124 RNA binding site [nucleotide binding]; other site 176280005125 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 176280005126 multimer interface [polypeptide binding]; other site 176280005127 Walker A motif; other site 176280005128 ATP binding site [chemical binding]; other site 176280005129 Walker B motif; other site 176280005130 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 176280005131 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 176280005132 NAD binding site [chemical binding]; other site 176280005133 catalytic residues [active] 176280005134 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280005135 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280005136 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 176280005137 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 176280005138 hinge; other site 176280005139 active site 176280005140 hypothetical protein; Provisional; Region: PRK08185 176280005141 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 176280005142 intersubunit interface [polypeptide binding]; other site 176280005143 active site 176280005144 zinc binding site [ion binding]; other site 176280005145 Na+ binding site [ion binding]; other site 176280005146 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 176280005147 CTP synthetase; Validated; Region: pyrG; PRK05380 176280005148 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 176280005149 Catalytic site [active] 176280005150 active site 176280005151 UTP binding site [chemical binding]; other site 176280005152 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 176280005153 active site 176280005154 putative oxyanion hole; other site 176280005155 catalytic triad [active] 176280005156 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 176280005157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280005158 Coenzyme A binding pocket [chemical binding]; other site 176280005159 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 176280005160 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 176280005161 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 176280005162 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 176280005163 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 176280005164 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 176280005165 metal binding site [ion binding]; metal-binding site 176280005166 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 176280005167 Predicted membrane protein [Function unknown]; Region: COG4270 176280005168 Sulfatase; Region: Sulfatase; cl10460 176280005169 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 176280005170 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 176280005171 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 176280005172 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 176280005173 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 176280005174 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 176280005175 intersubunit interface [polypeptide binding]; other site 176280005176 active site 176280005177 catalytic residue [active] 176280005178 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 176280005179 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 176280005180 Ferritin-like domain; Region: Ferritin; pfam00210 176280005181 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 176280005182 dimerization interface [polypeptide binding]; other site 176280005183 DPS ferroxidase diiron center [ion binding]; other site 176280005184 ion pore; other site 176280005185 Protein of unknown function, DUF393; Region: DUF393; cl01136 176280005186 EVE domain; Region: EVE; cl00728 176280005187 EVE domain; Region: EVE; cl00728 176280005188 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 176280005189 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 176280005190 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 176280005191 NAD(P) binding site [chemical binding]; other site 176280005192 putative active site [active] 176280005193 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 176280005194 dimerization interface [polypeptide binding]; other site 176280005195 putative DNA binding site [nucleotide binding]; other site 176280005196 putative Zn2+ binding site [ion binding]; other site 176280005197 Cation efflux family; Region: Cation_efflux; cl00316 176280005198 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 176280005199 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 176280005200 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 176280005201 active site 176280005202 metal binding site [ion binding]; metal-binding site 176280005203 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 176280005204 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 176280005205 active site 176280005206 motif I; other site 176280005207 motif II; other site 176280005208 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 176280005209 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 176280005210 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 176280005211 glutaminase active site [active] 176280005212 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 176280005213 dimer interface [polypeptide binding]; other site 176280005214 active site 176280005215 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 176280005216 dimer interface [polypeptide binding]; other site 176280005217 active site 176280005218 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 176280005219 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 176280005220 active site 176280005221 substrate binding site [chemical binding]; other site 176280005222 metal binding site [ion binding]; metal-binding site 176280005223 YbbR-like protein; Region: YbbR; pfam07949 176280005224 YbbR-like protein; Region: YbbR; pfam07949 176280005225 TIGR00159 family protein; Region: TIGR00159 176280005226 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 176280005227 Signal recognition particle GTPase [Intracellular trafficking and secretion]; Region: FtsY; COG0552 176280005228 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 176280005229 Walker A motif; other site 176280005230 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 176280005231 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 176280005232 putative substrate translocation pore; other site 176280005233 putative transporter; Provisional; Region: PRK10504 176280005234 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; cl11420 176280005235 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 176280005236 Haemolysin-III related; Region: HlyIII; cl03831 176280005237 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 176280005238 substrate binding site; other site 176280005239 dimerization interface; other site 176280005240 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 176280005241 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 176280005242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 176280005243 Nucleoside recognition; Region: Gate; cl00486 176280005244 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 176280005245 ABC-ATPase subunit interface; other site 176280005246 dimer interface [polypeptide binding]; other site 176280005247 putative PBP binding regions; other site 176280005248 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 176280005249 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 176280005250 ABC-ATPase subunit interface; other site 176280005251 dimer interface [polypeptide binding]; other site 176280005252 putative PBP binding regions; other site 176280005253 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 176280005254 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 176280005255 siderophore binding site; other site 176280005256 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 176280005257 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 176280005258 dimer interface [polypeptide binding]; other site 176280005259 active site 176280005260 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 176280005261 substrate binding site [chemical binding]; other site 176280005262 catalytic residue [active] 176280005263 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 176280005264 IucA / IucC family; Region: IucA_IucC; pfam04183 176280005265 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 176280005266 H+ Antiporter protein; Region: 2A0121; TIGR00900 176280005267 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 176280005268 putative substrate translocation pore; other site 176280005269 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 176280005270 IucA / IucC family; Region: IucA_IucC; pfam04183 176280005271 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 176280005272 Protein of unknown function (DUF322); Region: DUF322; cl00574 176280005273 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 176280005274 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 176280005275 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 176280005276 putative NAD(P) binding site [chemical binding]; other site 176280005277 dimer interface [polypeptide binding]; other site 176280005278 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 176280005279 Prostaglandin dehydrogenases; Region: PGDH; cd05288 176280005280 NAD(P) binding site [chemical binding]; other site 176280005281 substrate binding site [chemical binding]; other site 176280005282 dimer interface [polypeptide binding]; other site 176280005283 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 176280005284 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 176280005285 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 176280005286 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 176280005287 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280005288 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 176280005289 P-loop; other site 176280005290 active site 176280005291 phosphorylation site [posttranslational modification] 176280005292 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 176280005293 methionine cluster; other site 176280005294 active site 176280005295 phosphorylation site [posttranslational modification] 176280005296 metal binding site [ion binding]; metal-binding site 176280005297 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 176280005298 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 176280005299 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 176280005300 putative substrate binding site [chemical binding]; other site 176280005301 putative ATP binding site [chemical binding]; other site 176280005302 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 176280005303 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 176280005304 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 176280005305 Helix-turn-helix domains; Region: HTH; cl00088 176280005306 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 176280005307 NAD-dependent deacetylase; Provisional; Region: PRK14138 176280005308 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 176280005309 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 176280005310 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 176280005311 23S rRNA interface [nucleotide binding]; other site 176280005312 L3 interface [polypeptide binding]; other site 176280005313 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 176280005314 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 176280005315 dimerization interface 3.5A [polypeptide binding]; other site 176280005316 active site 176280005317 Cobalt transport protein; Region: CbiQ; cl00463 176280005318 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 176280005319 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 176280005320 Walker A/P-loop; other site 176280005321 ATP binding site [chemical binding]; other site 176280005322 Q-loop/lid; other site 176280005323 ABC transporter signature motif; other site 176280005324 Walker B; other site 176280005325 D-loop; other site 176280005326 H-loop/switch region; other site 176280005327 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 176280005328 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 176280005329 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 176280005330 Walker A/P-loop; other site 176280005331 ATP binding site [chemical binding]; other site 176280005332 Q-loop/lid; other site 176280005333 ABC transporter signature motif; other site 176280005334 Walker B; other site 176280005335 D-loop; other site 176280005336 H-loop/switch region; other site 176280005337 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 176280005338 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 176280005339 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 176280005340 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 176280005341 alphaNTD homodimer interface [polypeptide binding]; other site 176280005342 alphaNTD - beta interaction site [polypeptide binding]; other site 176280005343 alphaNTD - beta' interaction site [polypeptide binding]; other site 176280005344 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 176280005345 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 176280005346 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 176280005347 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 176280005348 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 176280005349 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 176280005350 rRNA binding site [nucleotide binding]; other site 176280005351 predicted 30S ribosome binding site; other site 176280005352 adenylate kinase; Reviewed; Region: adk; PRK00279 176280005353 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 176280005354 AMP-binding site [chemical binding]; other site 176280005355 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 176280005356 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 176280005357 SecY translocase; Region: SecY; pfam00344 176280005358 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 176280005359 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 176280005360 23S rRNA binding site [nucleotide binding]; other site 176280005361 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 176280005362 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 176280005363 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 176280005364 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 176280005365 5S rRNA interface [nucleotide binding]; other site 176280005366 L27 interface [polypeptide binding]; other site 176280005367 23S rRNA interface [nucleotide binding]; other site 176280005368 L5 interface [polypeptide binding]; other site 176280005369 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 176280005370 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 176280005371 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 176280005372 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 176280005373 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 176280005374 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 176280005375 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 176280005376 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 176280005377 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 176280005378 KOW motif; Region: KOW; cl00354 176280005379 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 176280005380 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 176280005381 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 176280005382 23S rRNA interface [nucleotide binding]; other site 176280005383 putative translocon interaction site; other site 176280005384 signal recognition particle (SRP54) interaction site; other site 176280005385 L23 interface [polypeptide binding]; other site 176280005386 trigger factor interaction site; other site 176280005387 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 176280005388 23S rRNA interface [nucleotide binding]; other site 176280005389 5S rRNA interface [nucleotide binding]; other site 176280005390 putative antibiotic binding site [chemical binding]; other site 176280005391 L25 interface [polypeptide binding]; other site 176280005392 L27 interface [polypeptide binding]; other site 176280005393 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 176280005394 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 176280005395 G-X-X-G motif; other site 176280005396 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 176280005397 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 176280005398 putative translocon binding site; other site 176280005399 protein-rRNA interface [nucleotide binding]; other site 176280005400 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 176280005401 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 176280005402 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 176280005403 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 176280005404 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 176280005405 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 176280005406 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 176280005407 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 176280005408 Permease family; Region: Xan_ur_permease; cl00967 176280005409 DNA topoisomerase III; Provisional; Region: PRK07726 176280005410 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 176280005411 active site 176280005412 putative interdomain interaction site [polypeptide binding]; other site 176280005413 putative metal-binding site [ion binding]; other site 176280005414 putative nucleotide binding site [chemical binding]; other site 176280005415 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 176280005416 domain I; other site 176280005417 DNA binding groove [nucleotide binding] 176280005418 phosphate binding site [ion binding]; other site 176280005419 domain II; other site 176280005420 domain III; other site 176280005421 nucleotide binding site [chemical binding]; other site 176280005422 catalytic site [active] 176280005423 domain IV; other site 176280005424 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 176280005425 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 176280005426 Sugar transport protein; Region: Sugar_transport; pfam06800 176280005427 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 176280005428 glucose-1-dehydrogenase; Provisional; Region: PRK08936 176280005429 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 176280005430 NAD binding site [chemical binding]; other site 176280005431 homodimer interface [polypeptide binding]; other site 176280005432 active site 176280005433 Membrane transport protein; Region: Mem_trans; cl09117 176280005434 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 176280005435 Protein export membrane protein; Region: SecD_SecF; cl14618 176280005436 Protein export membrane protein; Region: SecD_SecF; cl14618 176280005437 FemAB family; Region: FemAB; cl11444 176280005438 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280005439 Helix-turn-helix domains; Region: HTH; cl00088 176280005440 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 176280005441 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280005442 putative substrate translocation pore; other site 176280005443 Transposase domain (DUF772); Region: DUF772; cl12084 176280005444 Helix-turn-helix domains; Region: HTH; cl00088 176280005445 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 176280005446 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 176280005447 FeS/SAM binding site; other site 176280005448 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 176280005449 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 176280005450 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 176280005451 GTP binding site; other site 176280005452 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 176280005453 MoaE interaction surface [polypeptide binding]; other site 176280005454 MoeB interaction surface [polypeptide binding]; other site 176280005455 thiocarboxylated glycine; other site 176280005456 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 176280005457 MoaE homodimer interface [polypeptide binding]; other site 176280005458 MoaD interaction [polypeptide binding]; other site 176280005459 active site residues [active] 176280005460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280005461 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 176280005462 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 176280005463 dimer interface [polypeptide binding]; other site 176280005464 putative functional site; other site 176280005465 putative MPT binding site; other site 176280005466 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 176280005467 trimer interface [polypeptide binding]; other site 176280005468 dimer interface [polypeptide binding]; other site 176280005469 putative active site [active] 176280005470 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 176280005471 MPT binding site; other site 176280005472 trimer interface [polypeptide binding]; other site 176280005473 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 176280005474 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 176280005475 ATP binding site [chemical binding]; other site 176280005476 substrate interface [chemical binding]; other site 176280005477 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 176280005478 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280005479 Walker A/P-loop; other site 176280005480 ATP binding site [chemical binding]; other site 176280005481 Q-loop/lid; other site 176280005482 ABC transporter signature motif; other site 176280005483 Walker B; other site 176280005484 D-loop; other site 176280005485 H-loop/switch region; other site 176280005486 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 176280005487 dimer interface [polypeptide binding]; other site 176280005488 conserved gate region; other site 176280005489 putative PBP binding loops; other site 176280005490 ABC-ATPase subunit interface; other site 176280005491 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 176280005492 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 176280005493 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 176280005494 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280005495 Coenzyme A binding pocket [chemical binding]; other site 176280005496 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 176280005497 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 176280005498 active site 176280005499 dimerization interface [polypeptide binding]; other site 176280005500 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 176280005501 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 176280005502 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 176280005503 Urea transporter; Region: UT; cl01829 176280005504 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 176280005505 alpha-gamma subunit interface [polypeptide binding]; other site 176280005506 beta-gamma subunit interface [polypeptide binding]; other site 176280005507 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 176280005508 gamma-beta subunit interface [polypeptide binding]; other site 176280005509 alpha-beta subunit interface [polypeptide binding]; other site 176280005510 urease subunit alpha; Reviewed; Region: ureC; PRK13207 176280005511 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 176280005512 subunit interactions [polypeptide binding]; other site 176280005513 active site 176280005514 flap region; other site 176280005515 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 176280005516 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 176280005517 dimer interface [polypeptide binding]; other site 176280005518 catalytic residues [active] 176280005519 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 176280005520 UreF; Region: UreF; pfam01730 176280005521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280005522 UreD urease accessory protein; Region: UreD; cl00530 176280005523 Helix-turn-helix domains; Region: HTH; cl00088 176280005524 Helix-turn-helix domains; Region: HTH; cl00088 176280005525 Helix-turn-helix domains; Region: HTH; cl00088 176280005526 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 176280005527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 176280005528 NlpC/P60 family; Region: NLPC_P60; cl11438 176280005529 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 176280005530 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005531 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 176280005532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 176280005533 NlpC/P60 family; Region: NLPC_P60; cl11438 176280005534 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 176280005535 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 176280005536 glyoxylate reductase; Reviewed; Region: PRK13243 176280005537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005538 hypothetical protein; Provisional; Region: PRK06753 176280005539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005540 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 176280005541 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 176280005542 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 176280005543 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 176280005544 active site 176280005545 Predicted transcriptional regulator [Transcription]; Region: COG2378 176280005546 Helix-turn-helix domains; Region: HTH; cl00088 176280005547 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 176280005548 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 176280005549 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 176280005550 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 176280005551 putative active site [active] 176280005552 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 176280005553 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 176280005554 active site turn [active] 176280005555 phosphorylation site [posttranslational modification] 176280005556 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280005557 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 176280005558 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 176280005559 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 176280005560 putative active site [active] 176280005561 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280005562 Amino acid permease; Region: AA_permease; cl00524 176280005563 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 176280005564 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280005565 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 176280005566 motif II; other site 176280005567 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 176280005568 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280005569 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 176280005570 active site turn [active] 176280005571 phosphorylation site [posttranslational modification] 176280005572 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 176280005573 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 176280005574 putative active site [active] 176280005575 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280005576 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280005577 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 176280005578 putative hydrophobic ligand binding site [chemical binding]; other site 176280005579 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 176280005580 Flavin Reductases; Region: FlaRed; cl00801 176280005581 oxidoreductase; Provisional; Region: PRK07985 176280005582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005583 NAD(P) binding site [chemical binding]; other site 176280005584 active site 176280005585 amidohydrolase; Region: amidohydrolases; TIGR01891 176280005586 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 176280005587 metal binding site [ion binding]; metal-binding site 176280005588 dimer interface [polypeptide binding]; other site 176280005589 Arginase family; Region: Arginase; cl00306 176280005590 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 176280005591 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 176280005592 tetramer (dimer of dimers) interface [polypeptide binding]; other site 176280005593 active site 176280005594 dimer interface [polypeptide binding]; other site 176280005595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 176280005596 MOSC domain; Region: MOSC; pfam03473 176280005597 3-alpha domain; Region: 3-alpha; pfam03475 176280005598 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 176280005599 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 176280005600 active site 176280005601 catalytic residues [active] 176280005602 ribulokinase; Provisional; Region: PRK04123 176280005603 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 176280005604 putative N- and C-terminal domain interface [polypeptide binding]; other site 176280005605 putative active site [active] 176280005606 putative MgATP binding site [chemical binding]; other site 176280005607 catalytic site [active] 176280005608 metal binding site [ion binding]; metal-binding site 176280005609 carbohydrate binding site [chemical binding]; other site 176280005610 homodimer interface [polypeptide binding]; other site 176280005611 Protein of unknown function (DUF805); Region: DUF805; cl01224 176280005612 Protein of unknown function (DUF805); Region: DUF805; cl01224 176280005613 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 176280005614 active site 176280005615 DNA binding site [nucleotide binding] 176280005616 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 176280005617 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 176280005618 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 176280005619 Helix-turn-helix domains; Region: HTH; cl00088 176280005620 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 176280005621 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 176280005622 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 176280005623 homotetramer interface [polypeptide binding]; other site 176280005624 FMN binding site [chemical binding]; other site 176280005625 homodimer contacts [polypeptide binding]; other site 176280005626 putative active site [active] 176280005627 putative substrate binding site [chemical binding]; other site 176280005628 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 176280005629 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 176280005630 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 176280005631 active site 176280005632 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 176280005633 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 176280005634 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 176280005635 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 176280005636 putative substrate translocation pore; other site 176280005637 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 176280005638 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 176280005639 Helix-turn-helix domains; Region: HTH; cl00088 176280005640 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 176280005641 putative substrate translocation pore; other site 176280005642 Predicted membrane protein [Function unknown]; Region: COG4640 176280005643 Helix-turn-helix domains; Region: HTH; cl00088 176280005644 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 176280005645 putative active site [active] 176280005646 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280005647 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 176280005648 Walker A/P-loop; other site 176280005649 ATP binding site [chemical binding]; other site 176280005650 Q-loop/lid; other site 176280005651 ABC transporter signature motif; other site 176280005652 Walker B; other site 176280005653 D-loop; other site 176280005654 H-loop/switch region; other site 176280005655 FtsX-like permease family; Region: FtsX; pfam02687 176280005656 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280005657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280005658 active site 176280005659 phosphorylation site [posttranslational modification] 176280005660 intermolecular recognition site; other site 176280005661 dimerization interface [polypeptide binding]; other site 176280005662 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 176280005663 DNA binding site [nucleotide binding] 176280005664 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 176280005665 dimerization interface [polypeptide binding]; other site 176280005666 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 176280005667 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280005668 ATP binding site [chemical binding]; other site 176280005669 Mg2+ binding site [ion binding]; other site 176280005670 G-X-G motif; other site 176280005671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005672 Predicted dehydrogenase [General function prediction only]; Region: COG0579 176280005673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 176280005674 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 176280005675 putative ADP-binding pocket [chemical binding]; other site 176280005676 L-lactate permease; Region: Lactate_perm; cl00701 176280005677 glycolate transporter; Provisional; Region: PRK09695 176280005678 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 176280005679 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280005680 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 176280005681 active site 176280005682 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 176280005683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280005684 Coenzyme A binding pocket [chemical binding]; other site 176280005685 Yhfp putative quinone oxidoreductases; Region: MDR_yhfp_like; cd08289 176280005686 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 176280005687 putative NADP binding site [chemical binding]; other site 176280005688 putative dimer interface [polypeptide binding]; other site 176280005689 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280005690 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 176280005691 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 176280005692 Domains similar to the eukaryotic reeler domain and bacterial cohesins; Region: Reeler_cohesin_like; cl14606 176280005693 Bacterial Ig-like domain; Region: Big_5; cl01012 176280005694 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 176280005695 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 176280005696 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 176280005697 active site turn [active] 176280005698 phosphorylation site [posttranslational modification] 176280005699 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280005700 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 176280005701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 176280005702 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 176280005703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 176280005704 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 176280005705 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 176280005706 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 176280005707 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 176280005708 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 176280005709 dimer interface [polypeptide binding]; other site 176280005710 FMN binding site [chemical binding]; other site 176280005711 Helix-turn-helix domains; Region: HTH; cl00088 176280005712 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 176280005713 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 176280005714 putative substrate translocation pore; other site 176280005715 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 176280005716 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280005717 active site 176280005718 phosphorylation site [posttranslational modification] 176280005719 intermolecular recognition site; other site 176280005720 dimerization interface [polypeptide binding]; other site 176280005721 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 176280005722 DNA binding residues [nucleotide binding] 176280005723 dimerization interface [polypeptide binding]; other site 176280005724 sensory histidine kinase AtoS; Provisional; Region: PRK11360 176280005725 Histidine kinase; Region: HisKA_3; pfam07730 176280005726 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280005727 ATP binding site [chemical binding]; other site 176280005728 Mg2+ binding site [ion binding]; other site 176280005729 G-X-G motif; other site 176280005730 GAF domain; Region: GAF; cl00853 176280005731 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 176280005732 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 176280005733 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 176280005734 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 176280005735 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 176280005736 [4Fe-4S] binding site [ion binding]; other site 176280005737 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 176280005738 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 176280005739 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 176280005740 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 176280005741 molybdopterin cofactor binding site; other site 176280005742 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 176280005743 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 176280005744 [2Fe-2S] cluster binding site [ion binding]; other site 176280005745 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 176280005746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005747 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 176280005748 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 176280005749 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 176280005750 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 176280005751 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 176280005752 putative active site [active] 176280005753 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 176280005754 active site 176280005755 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_3; cd08490 176280005756 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 176280005757 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280005758 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280005759 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 176280005760 Coenzyme A binding pocket [chemical binding]; other site 176280005761 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 176280005762 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 176280005763 putative hydrophobic ligand binding site [chemical binding]; other site 176280005764 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 176280005765 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 176280005766 FemAB family; Region: FemAB; cl11444 176280005767 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 176280005768 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 176280005769 Walker A/P-loop; other site 176280005770 ATP binding site [chemical binding]; other site 176280005771 Q-loop/lid; other site 176280005772 ABC transporter signature motif; other site 176280005773 Walker B; other site 176280005774 D-loop; other site 176280005775 H-loop/switch region; other site 176280005776 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 176280005777 dimer interface [polypeptide binding]; other site 176280005778 conserved gate region; other site 176280005779 putative PBP binding loops; other site 176280005780 ABC-ATPase subunit interface; other site 176280005781 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 176280005782 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 176280005783 substrate binding pocket [chemical binding]; other site 176280005784 membrane-bound complex binding site; other site 176280005785 hinge residues; other site 176280005786 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 176280005787 catalytic core [active] 176280005788 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 176280005789 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 176280005790 Cation efflux family; Region: Cation_efflux; cl00316 176280005791 GtrA-like protein; Region: GtrA; cl00971 176280005792 Glycerate kinase family; Region: Gly_kinase; cl00841 176280005793 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 176280005794 putative substrate translocation pore; other site 176280005795 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 176280005796 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 176280005797 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 176280005798 active site 176280005799 metal binding site [ion binding]; metal-binding site 176280005800 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280005801 Amino acid permease; Region: AA_permease; cl00524 176280005802 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 176280005803 Amino acid permease; Region: AA_permease; cl00524 176280005804 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 176280005805 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280005806 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 176280005807 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 176280005808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005809 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 176280005810 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 176280005811 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280005812 putative substrate translocation pore; other site 176280005813 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 176280005814 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 176280005815 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 176280005816 Amino acid permease; Region: AA_permease; cl00524 176280005817 Histidine kinase; Region: His_kinase; pfam06580 176280005818 Histidine kinase-like ATPases; This family includes several ATP-binding 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 176280005819 two-component response regulator; Provisional; Region: PRK14084 176280005820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280005821 active site 176280005822 phosphorylation site [posttranslational modification] 176280005823 intermolecular recognition site; other site 176280005824 dimerization interface [polypeptide binding]; other site 176280005825 LytTr DNA-binding domain; Region: LytTR; cl04498 176280005826 LrgA family; Region: LrgA; cl00608 176280005827 LrgB-like family; Region: LrgB; cl00596 176280005828 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 176280005829 NMT1-like family; Region: NMT1_2; cl15260 176280005830 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 176280005831 dimer interface [polypeptide binding]; other site 176280005832 conserved gate region; other site 176280005833 putative PBP binding loops; other site 176280005834 ABC-ATPase subunit interface; other site 176280005835 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 176280005836 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 176280005837 Walker A/P-loop; other site 176280005838 ATP binding site [chemical binding]; other site 176280005839 Q-loop/lid; other site 176280005840 ABC transporter signature motif; other site 176280005841 Walker B; other site 176280005842 D-loop; other site 176280005843 H-loop/switch region; other site 176280005844 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 176280005845 FOG: CBS domain [General function prediction only]; Region: COG0517 176280005846 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 176280005847 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 176280005848 putative NAD(P) binding site [chemical binding]; other site 176280005849 catalytic Zn binding site [ion binding]; other site 176280005850 Protein of unknown function (DUF419); Region: DUF419; cl15265 176280005851 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280005852 Amino acid permease; Region: AA_permease; cl00524 176280005853 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 176280005854 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 176280005855 substrate binding pocket [chemical binding]; other site 176280005856 catalytic triad [active] 176280005857 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 176280005858 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 176280005859 putative substrate translocation pore; other site 176280005860 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 176280005861 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 176280005862 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 176280005863 Walker A/P-loop; other site 176280005864 ATP binding site [chemical binding]; other site 176280005865 Q-loop/lid; other site 176280005866 ABC transporter signature motif; other site 176280005867 Walker B; other site 176280005868 D-loop; other site 176280005869 H-loop/switch region; other site 176280005870 CAAX protease self-immunity; Region: Abi; cl00558 176280005871 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 176280005872 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 176280005873 active site 176280005874 FMN binding site [chemical binding]; other site 176280005875 substrate binding site [chemical binding]; other site 176280005876 3Fe-4S cluster binding site [ion binding]; other site 176280005877 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 176280005878 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 176280005879 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 176280005880 oligomer interface [polypeptide binding]; other site 176280005881 active site 176280005882 metal binding site [ion binding]; metal-binding site 176280005883 short chain dehydrogenase; Validated; Region: PRK08589 176280005884 classical (c) SDRs; Region: SDR_c; cd05233 176280005885 NAD(P) binding site [chemical binding]; other site 176280005886 active site 176280005887 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 176280005888 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 176280005889 polyphosphate kinase; Provisional; Region: PRK05443 176280005890 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 176280005891 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 176280005892 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 176280005893 putative domain interface [polypeptide binding]; other site 176280005894 putative active site [active] 176280005895 catalytic site [active] 176280005896 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 176280005897 putative domain interface [polypeptide binding]; other site 176280005898 putative active site [active] 176280005899 catalytic site [active] 176280005900 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 176280005901 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 176280005902 metal binding site [ion binding]; metal-binding site 176280005903 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 176280005904 classical (c) SDRs; Region: SDR_c; cd05233 176280005905 NAD(P) binding site [chemical binding]; other site 176280005906 active site 176280005907 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 176280005908 putative active site [active] 176280005909 catalytic site [active] 176280005910 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 176280005911 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 176280005912 ATP binding site [chemical binding]; other site 176280005913 putative Mg++ binding site [ion binding]; other site 176280005914 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 176280005915 nucleotide binding region [chemical binding]; other site 176280005916 ATP-binding site [chemical binding]; other site 176280005917 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 176280005918 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 176280005919 active site 176280005920 8-oxo-dGMP binding site [chemical binding]; other site 176280005921 nudix motif; other site 176280005922 metal binding site [ion binding]; metal-binding site 176280005923 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280005924 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 176280005925 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 176280005926 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 176280005927 active site 176280005928 substrate binding site [chemical binding]; other site 176280005929 metal binding site [ion binding]; metal-binding site 176280005930 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 176280005931 tetramer interface; other site 176280005932 active site 176280005933 gluconate transporter; Region: gntP; TIGR00791 176280005934 GntP family permease; Region: GntP_permease; cl15264 176280005935 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 176280005936 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 176280005937 N- and C-terminal domain interface [polypeptide binding]; other site 176280005938 putative active site [active] 176280005939 catalytic site [active] 176280005940 metal binding site [ion binding]; metal-binding site 176280005941 carbohydrate binding site [chemical binding]; other site 176280005942 ATP binding site [chemical binding]; other site 176280005943 Transcriptional regulators [Transcription]; Region: GntR; COG1802 176280005944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 176280005945 DNA-binding site [nucleotide binding]; DNA binding site 176280005946 FCD domain; Region: FCD; cl11656 176280005947 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 176280005948 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 176280005949 putative substrate translocation pore; other site 176280005950 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 176280005951 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 176280005952 DNA binding residues [nucleotide binding] 176280005953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 176280005954 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 176280005955 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 176280005956 active site 176280005957 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 176280005958 synthetase active site [active] 176280005959 NTP binding site [chemical binding]; other site 176280005960 metal binding site [ion binding]; metal-binding site 176280005961 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 176280005962 Predicted membrane protein [Function unknown]; Region: COG1289 176280005963 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 176280005964 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 176280005965 D-galactonate transporter; Region: 2A0114; TIGR00893 176280005966 putative substrate translocation pore; other site 176280005967 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 176280005968 active site 176280005969 pyrophosphate binding site [ion binding]; other site 176280005970 thiamine phosphate binding site [chemical binding]; other site 176280005971 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 176280005972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005973 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280005974 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 176280005975 thiS-thiF/thiG interaction site; other site 176280005976 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 176280005977 ThiS interaction site; other site 176280005978 putative active site [active] 176280005979 tetramer interface [polypeptide binding]; other site 176280005980 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 176280005981 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 176280005982 ATP binding site [chemical binding]; other site 176280005983 substrate interface [chemical binding]; other site 176280005984 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 176280005985 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 176280005986 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 176280005987 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 176280005988 Uncharacterized membrane protein [Function unknown]; Region: COG3949 176280005989 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 176280005990 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 176280005991 NAD binding site [chemical binding]; other site 176280005992 catalytic residues [active] 176280005993 substrate binding site [chemical binding]; other site 176280005994 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 176280005995 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 176280005996 metal binding site [ion binding]; metal-binding site 176280005997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280005998 Coenzyme A binding pocket [chemical binding]; other site 176280005999 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 176280006000 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_12; cd07255 176280006001 putative metal binding site [ion binding]; other site 176280006002 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 176280006003 active site 176280006004 metal binding site [ion binding]; metal-binding site 176280006005 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 176280006006 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 176280006007 NAD(P) binding site [chemical binding]; other site 176280006008 catalytic residues [active] 176280006009 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 176280006010 dimer interface [polypeptide binding]; other site 176280006011 FMN binding site [chemical binding]; other site 176280006012 D-lactate dehydrogenase; Provisional; Region: PRK12480 176280006013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006014 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 176280006015 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 176280006016 active site 176280006017 motif I; other site 176280006018 motif II; other site 176280006019 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280006020 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 176280006021 active site 176280006022 catalytic site [active] 176280006023 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280006024 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280006025 Coenzyme A binding pocket [chemical binding]; other site 176280006026 Transposase; Region: DEDD_Tnp_IS110; pfam01548 176280006027 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280006028 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 176280006029 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 176280006030 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 176280006031 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 176280006032 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280006033 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 176280006034 N- and C-terminal domain interface [polypeptide binding]; other site 176280006035 D-xylulose kinase; Region: XylB; TIGR01312 176280006036 active site 176280006037 catalytic site [active] 176280006038 metal binding site [ion binding]; metal-binding site 176280006039 xylulose binding site [chemical binding]; other site 176280006040 putative ATP binding site [chemical binding]; other site 176280006041 homodimer interface [polypeptide binding]; other site 176280006042 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 176280006043 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 176280006044 substrate binding site [chemical binding]; other site 176280006045 dimer interface [polypeptide binding]; other site 176280006046 ATP binding site [chemical binding]; other site 176280006047 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 176280006048 Sugar transport protein; Region: Sugar_transport; pfam06800 176280006049 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 176280006050 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 176280006051 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 176280006052 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 176280006053 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 176280006054 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 176280006055 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 176280006056 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 176280006057 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 176280006058 nucleophilic elbow; other site 176280006059 catalytic triad; other site 176280006060 Uncharacterized conserved protein [Function unknown]; Region: COG1284 176280006061 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 176280006062 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 176280006063 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 176280006064 catalytic residues [active] 176280006065 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 176280006066 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 176280006067 catalytic Zn binding site [ion binding]; other site 176280006068 structural Zn binding site [ion binding]; other site 176280006069 NAD(P) binding site [chemical binding]; other site 176280006070 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 176280006071 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 176280006072 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280006073 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 176280006074 active site turn [active] 176280006075 phosphorylation site [posttranslational modification] 176280006076 PTS_IIA, PTS system, glucose/sucrose 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_glc; cd00210 176280006077 HPr interaction site; other site 176280006078 glycerol kinase (GK) interaction site [polypeptide binding]; other site 176280006079 active site 176280006080 phosphorylation site [posttranslational modification] 176280006081 pyruvate oxidase; Provisional; Region: PRK08611 176280006082 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 176280006083 PYR/PP interface [polypeptide binding]; other site 176280006084 tetramer interface [polypeptide binding]; other site 176280006085 dimer interface [polypeptide binding]; other site 176280006086 TPP binding site [chemical binding]; other site 176280006087 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 176280006088 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 176280006089 TPP-binding site [chemical binding]; other site 176280006090 LrgB-like family; Region: LrgB; cl00596 176280006091 LrgA family; Region: LrgA; cl00608 176280006092 Transcriptional regulator [Transcription]; Region: LysR; COG0583 176280006093 Helix-turn-helix domains; Region: HTH; cl00088 176280006094 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 176280006095 putative dimerization interface [polypeptide binding]; other site 176280006096 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 176280006097 NlpC/P60 family; Region: NLPC_P60; cl11438 176280006098 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 176280006099 homodimer interface [polypeptide binding]; other site 176280006100 NAD binding site [chemical binding]; other site 176280006101 catalytic residues [active] 176280006102 substrate binding pocket [chemical binding]; other site 176280006103 flexible flap; other site 176280006104 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 176280006105 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 176280006106 dimer interface [polypeptide binding]; other site 176280006107 active site 176280006108 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 176280006109 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 176280006110 DNA binding site [nucleotide binding] 176280006111 active site 176280006112 Virus attachment protein p12 family; Region: P12; pfam12669 176280006113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006114 ferrous iron transporter FeoB; Region: feoB; TIGR00437 176280006115 FeoA domain; Region: FeoA; cl00838 176280006116 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 176280006117 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 176280006118 Glutamate binding site [chemical binding]; other site 176280006119 homodimer interface [polypeptide binding]; other site 176280006120 NAD binding site [chemical binding]; other site 176280006121 catalytic residues [active] 176280006122 short chain dehydrogenase; Provisional; Region: PRK06701 176280006123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006124 NAD(P) binding site [chemical binding]; other site 176280006125 active site 176280006126 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 176280006127 metal-binding site [ion binding] 176280006128 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 176280006129 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 176280006130 metal-binding site [ion binding] 176280006131 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 176280006132 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 176280006133 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 176280006134 metal-binding site [ion binding] 176280006135 D-lactate dehydrogenase; Validated; Region: PRK08605 176280006136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006137 transaminase; Reviewed; Region: PRK08068 176280006138 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 176280006139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006140 homodimer interface [polypeptide binding]; other site 176280006141 catalytic residue [active] 176280006142 NlpC/P60 family; Region: NLPC_P60; cl11438 176280006143 OpgC protein; Region: OpgC_C; cl00792 176280006144 Acyltransferase family; Region: Acyl_transf_3; pfam01757 176280006145 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 176280006146 catalytic triad [active] 176280006147 catalytic triad [active] 176280006148 oxyanion hole [active] 176280006149 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 176280006150 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 176280006151 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 176280006152 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006153 active site 176280006154 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280006155 Amino acid permease; Region: AA_permease; cl00524 176280006156 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280006157 Phosphotransferase enzyme family; Region: APH; pfam01636 176280006158 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 176280006159 active site 176280006160 ATP binding site [chemical binding]; other site 176280006161 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; cl15691 176280006162 active site 176280006163 ATP binding site [chemical binding]; other site 176280006164 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 176280006165 quinone interaction residues [chemical binding]; other site 176280006166 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 176280006167 active site 176280006168 catalytic residues [active] 176280006169 FMN binding site [chemical binding]; other site 176280006170 substrate binding site [chemical binding]; other site 176280006171 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 176280006172 Predicted membrane protein [Function unknown]; Region: COG4640 176280006173 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 176280006174 Uncharacterized protein containing a Zn-ribbon (DUF2116); Region: DUF2116; cl01683 176280006175 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 176280006176 tetramerization interface [polypeptide binding]; other site 176280006177 active site 176280006178 Pantoate-beta-alanine ligase; Region: PanC; cd00560 176280006179 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 176280006180 active site 176280006181 ATP-binding site [chemical binding]; other site 176280006182 pantoate-binding site; other site 176280006183 HXXH motif; other site 176280006184 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 176280006185 oligomerization interface [polypeptide binding]; other site 176280006186 active site 176280006187 metal binding site [ion binding]; metal-binding site 176280006188 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 176280006189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006190 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 176280006191 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 176280006192 acetolactate synthase; Reviewed; Region: PRK08617 176280006193 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 176280006194 PYR/PP interface [polypeptide binding]; other site 176280006195 dimer interface [polypeptide binding]; other site 176280006196 TPP binding site [chemical binding]; other site 176280006197 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 176280006198 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 176280006199 TPP-binding site [chemical binding]; other site 176280006200 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 176280006201 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 176280006202 dimer interface [polypeptide binding]; other site 176280006203 tetramer (dimer of dimers) interface [polypeptide binding]; other site 176280006204 NAD binding site [chemical binding]; other site 176280006205 substrate binding site [chemical binding]; other site 176280006206 Transcriptional regulator [Transcription]; Region: LysR; COG0583 176280006207 Helix-turn-helix domains; Region: HTH; cl00088 176280006208 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 176280006209 putative dimerization interface [polypeptide binding]; other site 176280006210 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 176280006211 Amino acid permease; Region: AA_permease; cl00524 176280006212 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 176280006213 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 176280006214 inhibitor-cofactor binding pocket; inhibition site 176280006215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006216 catalytic residue [active] 176280006217 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 176280006218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006219 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280006220 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 176280006221 catalytic residue [active] 176280006222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006223 Predicted dehydrogenase [General function prediction only]; Region: COG0579 176280006224 Domain of unknown function (DUF299); Region: DUF299; cl00780 176280006225 pyruvate phosphate dikinase; Provisional; Region: PRK09279 176280006226 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 176280006227 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 176280006228 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 176280006229 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 176280006230 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 176280006231 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 176280006232 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 176280006233 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 176280006234 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 176280006235 metal binding site [ion binding]; metal-binding site 176280006236 dimer interface [polypeptide binding]; other site 176280006237 choline dehydrogenase; Validated; Region: PRK02106 176280006238 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 176280006239 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 176280006240 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 176280006241 tetramerization interface [polypeptide binding]; other site 176280006242 NAD(P) binding site [chemical binding]; other site 176280006243 catalytic residues [active] 176280006244 Predicted transcriptional regulators [Transcription]; Region: COG1510 176280006245 BCCT family transporter; Region: BCCT; cl00569 176280006246 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 176280006247 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 176280006248 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 176280006249 FeS/SAM binding site; other site 176280006250 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 176280006251 Class III ribonucleotide reductase; Region: RNR_III; cd01675 176280006252 effector binding site; other site 176280006253 active site 176280006254 Zn binding site [ion binding]; other site 176280006255 glycine loop; other site 176280006256 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 176280006257 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 176280006258 ligand-binding site [chemical binding]; other site 176280006259 ATP-sulfurylase; Region: ATPS; cd00517 176280006260 active site 176280006261 HXXH motif; other site 176280006262 flexible loop; other site 176280006263 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 176280006264 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 176280006265 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 176280006266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006267 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 176280006268 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 176280006269 sulfite reductase subunit beta; Provisional; Region: PRK13504 176280006270 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 176280006271 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 176280006272 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 176280006273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 176280006274 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 176280006275 FAD binding pocket [chemical binding]; other site 176280006276 FAD binding motif [chemical binding]; other site 176280006277 catalytic residues [active] 176280006278 NAD binding pocket [chemical binding]; other site 176280006279 phosphate binding motif [ion binding]; other site 176280006280 beta-alpha-beta structure motif; other site 176280006281 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 176280006282 Active Sites [active] 176280006283 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 176280006284 catalytic residues [active] 176280006285 dimer interface [polypeptide binding]; other site 176280006286 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 176280006287 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006289 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 176280006290 Transcriptional regulators [Transcription]; Region: MarR; COG1846 176280006291 Helix-turn-helix domains; Region: HTH; cl00088 176280006292 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 176280006293 Double zinc ribbon; Region: DZR; pfam12773 176280006294 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 176280006295 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 176280006296 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280006297 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 176280006298 Walker A/P-loop; other site 176280006299 ATP binding site [chemical binding]; other site 176280006300 Q-loop/lid; other site 176280006301 ABC transporter signature motif; other site 176280006302 Walker B; other site 176280006303 D-loop; other site 176280006304 H-loop/switch region; other site 176280006305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 176280006306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 176280006307 ATP binding site [chemical binding]; other site 176280006308 Mg2+ binding site [ion binding]; other site 176280006309 G-X-G motif; other site 176280006310 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 176280006311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 176280006312 active site 176280006313 phosphorylation site [posttranslational modification] 176280006314 intermolecular recognition site; other site 176280006315 dimerization interface [polypeptide binding]; other site 176280006316 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 176280006317 DNA binding site [nucleotide binding] 176280006318 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; cd00016 176280006319 dimer interface [polypeptide binding]; other site 176280006320 Alkaline phosphatase homologues; Region: alkPPc; smart00098 176280006321 active site 176280006322 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; cl12039 176280006323 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 176280006324 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 176280006325 putative NAD(P) binding site [chemical binding]; other site 176280006326 putative active site [active] 176280006327 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 176280006328 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 176280006329 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 176280006330 Protein of unknown function (DUF2648); Region: DUF2648; pfam10855 176280006331 Protein of unknown function (DUF867); Region: DUF867; cl01713 176280006332 AAA domain; Region: AAA_23; pfam13476 176280006333 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 176280006334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006335 ABC transporter signature motif; other site 176280006336 Walker B; other site 176280006337 D-loop; other site 176280006338 H-loop/switch region; other site 176280006339 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; cl02788 176280006340 Uncharacterized conserved protein [Function unknown]; Region: COG5444 176280006341 Transposase IS200 like; Region: Y1_Tnp; cl00848 176280006342 Helix-turn-helix domains; Region: HTH; cl00088 176280006343 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 176280006344 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 176280006345 dimer interface [polypeptide binding]; other site 176280006346 PYR/PP interface [polypeptide binding]; other site 176280006347 TPP binding site [chemical binding]; other site 176280006348 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 176280006349 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 176280006350 TPP-binding site [chemical binding]; other site 176280006351 dimer interface [polypeptide binding]; other site 176280006352 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 176280006353 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 176280006354 putative active site [active] 176280006355 putative metal binding site [ion binding]; other site 176280006356 Predicted esterase [General function prediction only]; Region: COG0627 176280006357 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 176280006358 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 176280006359 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 176280006360 ligand binding site [chemical binding]; other site 176280006361 flexible hinge region; other site 176280006362 Helix-turn-helix domains; Region: HTH; cl00088 176280006363 Amino acid permease; Region: AA_permease; cl00524 176280006364 ornithine carbamoyltransferase; Validated; Region: PRK02102 176280006365 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 176280006366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006367 Amidinotransferase; Region: Amidinotransf; cl12043 176280006368 Arginine repressor [Transcription]; Region: ArgR; COG1438 176280006369 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 176280006370 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 176280006371 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 176280006372 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 176280006373 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 176280006374 active site 176280006375 Zn binding site [ion binding]; other site 176280006376 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 176280006377 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 176280006378 metal binding site [ion binding]; metal-binding site 176280006379 dimer interface [polypeptide binding]; other site 176280006380 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 176280006381 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 176280006382 acetoin reductase; Validated; Region: PRK08643 176280006383 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 176280006384 NAD binding site [chemical binding]; other site 176280006385 homotetramer interface [polypeptide binding]; other site 176280006386 homodimer interface [polypeptide binding]; other site 176280006387 active site 176280006388 substrate binding site [chemical binding]; other site 176280006389 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 176280006390 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 176280006391 Helix-turn-helix domains; Region: HTH; cl00088 176280006392 PRD domain; Region: PRD; cl15445 176280006393 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 176280006394 P-loop; other site 176280006395 active site 176280006396 phosphorylation site [posttranslational modification] 176280006397 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 176280006398 active site 176280006399 phosphorylation site [posttranslational modification] 176280006400 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 176280006401 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 176280006402 P-loop; other site 176280006403 active site 176280006404 phosphorylation site [posttranslational modification] 176280006405 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280006406 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 176280006407 active site 176280006408 phosphorylation site [posttranslational modification] 176280006409 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 176280006410 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 176280006411 Predicted membrane protein [Function unknown]; Region: COG1511 176280006412 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 176280006413 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280006414 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 176280006415 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 176280006416 NlpC/P60 family; Region: NLPC_P60; cl11438 176280006417 OsmC-like protein; Region: OsmC; cl00767 176280006418 Flavin Reductases; Region: FlaRed; cl00801 176280006419 Flavin Reductases; Region: FlaRed; cl00801 176280006420 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 176280006421 Major Facilitator Superfamily; Region: MFS_1; pfam07690 176280006422 putative substrate translocation pore; other site 176280006423 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 176280006424 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 176280006425 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280006426 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 176280006427 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280006428 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 176280006429 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 176280006430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006431 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 176280006432 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 176280006433 nucleotide binding region [chemical binding]; other site 176280006434 ATP-binding site [chemical binding]; other site 176280006435 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 176280006436 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 176280006437 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 176280006438 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280006439 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 176280006440 SecY translocase; Region: SecY; pfam00344 176280006441 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 176280006442 dimer interface [polypeptide binding]; other site 176280006443 conserved gate region; other site 176280006444 putative PBP binding loops; other site 176280006445 ABC-ATPase subunit interface; other site 176280006446 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 176280006447 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 176280006448 dimer interface [polypeptide binding]; other site 176280006449 conserved gate region; other site 176280006450 ABC-ATPase subunit interface; other site 176280006451 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 176280006452 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 176280006453 Walker A/P-loop; other site 176280006454 ATP binding site [chemical binding]; other site 176280006455 Q-loop/lid; other site 176280006456 ABC transporter signature motif; other site 176280006457 Walker B; other site 176280006458 D-loop; other site 176280006459 H-loop/switch region; other site 176280006460 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 176280006461 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 176280006462 substrate binding pocket [chemical binding]; other site 176280006463 membrane-bound complex binding site; other site 176280006464 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 176280006465 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 176280006466 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 176280006467 active site 176280006468 metal binding site [ion binding]; metal-binding site 176280006469 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 176280006470 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 176280006471 putative substrate translocation pore; other site 176280006472 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 176280006473 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 176280006474 predicted active site [active] 176280006475 catalytic triad [active] 176280006476 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 176280006477 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 176280006478 active site 176280006479 multimer interface [polypeptide binding]; other site 176280006480 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 176280006481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006482 homodimer interface [polypeptide binding]; other site 176280006483 catalytic residue [active] 176280006484 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 176280006485 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 176280006486 dimer interface [polypeptide binding]; other site 176280006487 putative anticodon binding site; other site 176280006488 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 176280006489 motif 1; other site 176280006490 active site 176280006491 motif 2; other site 176280006492 motif 3; other site 176280006493 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 176280006494 catalytic center binding site [active] 176280006495 ATP binding site [chemical binding]; other site 176280006496 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 176280006497 homooctamer interface [polypeptide binding]; other site 176280006498 active site 176280006499 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 176280006500 dihydropteroate synthase; Region: DHPS; TIGR01496 176280006501 substrate binding pocket [chemical binding]; other site 176280006502 dimer interface [polypeptide binding]; other site 176280006503 inhibitor binding site; inhibition site 176280006504 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 176280006505 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 176280006506 dimer interface [polypeptide binding]; other site 176280006507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006508 catalytic residue [active] 176280006509 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 176280006510 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 176280006511 dimerization interface [polypeptide binding]; other site 176280006512 domain crossover interface; other site 176280006513 redox-dependent activation switch; other site 176280006514 FtsH Extracellular; Region: FtsH_ext; pfam06480 176280006515 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 176280006516 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 176280006517 Walker A motif; other site 176280006518 ATP binding site [chemical binding]; other site 176280006519 Walker B motif; other site 176280006520 arginine finger; other site 176280006521 Peptidase family M41; Region: Peptidase_M41; pfam01434 176280006522 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280006523 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 176280006524 Ligand Binding Site [chemical binding]; other site 176280006525 B3/4 domain; Region: B3_4; cl11458 176280006526 hypothetical protein; Provisional; Region: PRK08582 176280006527 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 176280006528 RNA binding site [nucleotide binding]; other site 176280006529 Septum formation initiator; Region: DivIC; cl11433 176280006530 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 176280006531 RNA binding surface [nucleotide binding]; other site 176280006532 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 176280006533 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 176280006534 MatE; Region: MatE; cl10513 176280006535 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 176280006536 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 176280006537 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 176280006538 ATP binding site [chemical binding]; other site 176280006539 putative Mg++ binding site [ion binding]; other site 176280006540 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 176280006541 nucleotide binding region [chemical binding]; other site 176280006542 ATP-binding site [chemical binding]; other site 176280006543 TRCF domain; Region: TRCF; cl04088 176280006544 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 176280006545 putative active site [active] 176280006546 catalytic residue [active] 176280006547 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 176280006548 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 176280006549 5S rRNA interface [nucleotide binding]; other site 176280006550 CTC domain interface [polypeptide binding]; other site 176280006551 L16 interface [polypeptide binding]; other site 176280006552 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 176280006553 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280006554 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 176280006555 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 176280006556 Substrate binding site; other site 176280006557 Mg++ binding site; other site 176280006558 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 176280006559 active site 176280006560 substrate binding site [chemical binding]; other site 176280006561 CoA binding site [chemical binding]; other site 176280006562 SpoVG; Region: SpoVG; cl00915 176280006563 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 176280006564 homotrimer interaction site [polypeptide binding]; other site 176280006565 putative active site [active] 176280006566 pur operon repressor; Provisional; Region: PRK09213 176280006567 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 176280006568 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280006569 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 176280006570 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 176280006571 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 176280006572 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 176280006573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006574 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 176280006575 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 176280006576 putative active site [active] 176280006577 putative metal binding site [ion binding]; other site 176280006578 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 176280006579 active site 176280006580 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 176280006581 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 176280006582 active site 176280006583 HIGH motif; other site 176280006584 KMSKS motif; other site 176280006585 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 176280006586 tRNA binding surface [nucleotide binding]; other site 176280006587 anticodon binding site; other site 176280006588 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 176280006589 dimer interface [polypeptide binding]; other site 176280006590 putative tRNA-binding site [nucleotide binding]; other site 176280006591 Predicted methyltransferases [General function prediction only]; Region: COG0313 176280006592 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 176280006593 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 176280006594 GIY-YIG motif/motif A; other site 176280006595 putative active site [active] 176280006596 putative metal binding site [ion binding]; other site 176280006597 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 176280006598 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 176280006599 S-adenosylmethionine binding site [chemical binding]; other site 176280006600 TSC-22/dip/bun family; Region: TSC22; cl01853 176280006601 PSP1 C-terminal conserved region; Region: PSP1; cl00770 176280006602 DNA polymerase III subunit delta'; Validated; Region: PRK08058 176280006603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006604 Nitrogen regulatory protein P-II; Region: P-II; cl00412 176280006605 thymidylate kinase; Validated; Region: tmk; PRK00698 176280006606 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 176280006607 TMP-binding site; other site 176280006608 ATP-binding site [chemical binding]; other site 176280006609 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 176280006610 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 176280006611 homodimer interface [polypeptide binding]; other site 176280006612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006613 catalytic residue [active] 176280006614 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 176280006615 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 176280006616 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280006617 recombination protein RecR; Reviewed; Region: recR; PRK00076 176280006618 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 176280006619 RecR protein; Region: RecR; pfam02132 176280006620 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 176280006621 putative active site [active] 176280006622 putative metal-binding site [ion binding]; other site 176280006623 tetramer interface [polypeptide binding]; other site 176280006624 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 176280006625 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 176280006626 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 176280006627 Walker A motif; other site 176280006628 ATP binding site [chemical binding]; other site 176280006629 Walker B motif; other site 176280006630 arginine finger; other site 176280006631 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 176280006632 Coenzyme A binding pocket [chemical binding]; other site 176280006633 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 176280006634 Transcriptional regulator [Transcription]; Region: LysR; COG0583 176280006635 Helix-turn-helix domains; Region: HTH; cl00088 176280006636 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 176280006637 dimerization interface [polypeptide binding]; other site 176280006638 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 176280006639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006641 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 176280006642 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 176280006643 active site 176280006644 dimer interface [polypeptide binding]; other site 176280006645 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 176280006646 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 176280006647 active site 176280006648 FMN binding site [chemical binding]; other site 176280006649 substrate binding site [chemical binding]; other site 176280006650 3Fe-4S cluster binding site [ion binding]; other site 176280006651 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 176280006652 domain interface; other site 176280006653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 176280006654 Helix-turn-helix domains; Region: HTH; cl00088 176280006655 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 176280006656 dimerization interface [polypeptide binding]; other site 176280006657 YibE/F-like protein; Region: YibE_F; cl02259 176280006658 YibE/F-like protein; Region: YibE_F; cl02259 176280006659 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 176280006660 nudix motif; other site 176280006661 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280006662 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 176280006663 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 176280006664 putative peptidoglycan binding site; other site 176280006665 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 176280006666 putative peptidoglycan binding site; other site 176280006667 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 176280006668 putative peptidoglycan binding site; other site 176280006669 NlpC/P60 family; Region: NLPC_P60; cl11438 176280006670 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 176280006671 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 176280006672 dimer interface [polypeptide binding]; other site 176280006673 conserved gate region; other site 176280006674 ABC-ATPase subunit interface; other site 176280006675 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 176280006676 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 176280006677 Walker A/P-loop; other site 176280006678 ATP binding site [chemical binding]; other site 176280006679 Q-loop/lid; other site 176280006680 ABC transporter signature motif; other site 176280006681 Walker B; other site 176280006682 D-loop; other site 176280006683 H-loop/switch region; other site 176280006684 NIL domain; Region: NIL; cl09633 176280006685 cystathionine beta-lyase; Provisional; Region: PRK07671 176280006686 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 176280006687 homodimer interface [polypeptide binding]; other site 176280006688 substrate-cofactor binding pocket; other site 176280006689 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006690 catalytic residue [active] 176280006691 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 176280006692 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 176280006693 dimer interface [polypeptide binding]; other site 176280006694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006695 catalytic residue [active] 176280006696 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 176280006697 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 176280006698 Esterase/lipase [General function prediction only]; Region: COG1647 176280006699 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 176280006700 active site 176280006701 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 176280006702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 176280006703 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 176280006704 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 176280006705 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 176280006706 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 176280006707 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006709 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 176280006710 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 176280006711 dimer interface [polypeptide binding]; other site 176280006712 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 176280006713 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 176280006714 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 176280006715 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 176280006716 Int/Topo IB signature motif; other site 176280006717 Abi-like protein; Region: Abi_2; cl01988 176280006718 GMP synthase; Reviewed; Region: guaA; PRK00074 176280006719 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 176280006720 AMP/PPi binding site [chemical binding]; other site 176280006721 candidate oxyanion hole; other site 176280006722 catalytic triad [active] 176280006723 potential glutamine specificity residues [chemical binding]; other site 176280006724 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 176280006725 ATP Binding subdomain [chemical binding]; other site 176280006726 Ligand Binding sites [chemical binding]; other site 176280006727 Dimerization subdomain; other site 176280006728 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 176280006729 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 176280006730 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 176280006731 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 176280006732 active site 176280006733 Permease family; Region: Xan_ur_permease; cl00967 176280006734 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 176280006735 Heat induced stress protein YflT; Region: YflT; pfam11181 176280006736 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 176280006737 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 176280006738 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 176280006739 dimer interface [polypeptide binding]; other site 176280006740 FMN binding site [chemical binding]; other site 176280006741 NADPH bind site [chemical binding]; other site 176280006742 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 176280006743 peroxiredoxin; Region: AhpC; TIGR03137 176280006744 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 176280006745 dimer interface [polypeptide binding]; other site 176280006746 decamer (pentamer of dimers) interface [polypeptide binding]; other site 176280006747 catalytic triad [active] 176280006748 peroxidatic and resolving cysteines [active] 176280006749 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 176280006750 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 176280006751 catalytic residue [active] 176280006752 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 176280006753 catalytic residues [active] 176280006754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 176280006755 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 176280006756 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 176280006757 catalytic core [active] 176280006758 LysE type translocator; Region: LysE; cl00565 176280006759 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 176280006760 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 176280006761 dimer interface [polypeptide binding]; other site 176280006762 ssDNA binding site [nucleotide binding]; other site 176280006763 tetramer (dimer of dimers) interface [polypeptide binding]; other site 176280006764 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 176280006765 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 176280006766 active site 176280006767 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 176280006768 GTP-binding protein YchF; Reviewed; Region: PRK09601 176280006769 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 176280006770 G1 box; other site 176280006771 GTP/Mg2+ binding site [chemical binding]; other site 176280006772 Switch I region; other site 176280006773 G2 box; other site 176280006774 Switch II region; other site 176280006775 G3 box; other site 176280006776 G4 box; other site 176280006777 G5 box; other site 176280006778 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 176280006779 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 176280006780 Mechanosensitive ion channel; Region: MS_channel; pfam00924 176280006781 ParB-like partition proteins; Region: parB_part; TIGR00180 176280006782 ParB-like nuclease domain; Region: ParBc; cl02129 176280006783 KorB domain; Region: KorB; pfam08535 176280006784 cystathionine gamma-synthase; Reviewed; Region: PRK08247 176280006785 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 176280006786 homodimer interface [polypeptide binding]; other site 176280006787 substrate-cofactor binding pocket; other site 176280006788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006789 catalytic residue [active] 176280006790 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 176280006791 cystathionine beta-lyase; Provisional; Region: PRK08064 176280006792 homodimer interface [polypeptide binding]; other site 176280006793 substrate-cofactor binding pocket; other site 176280006794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 176280006795 catalytic residue [active] 176280006796 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 176280006797 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 176280006798 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 176280006799 FAD binding site [chemical binding]; other site 176280006800 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 176280006801 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 176280006802 THF binding site; other site 176280006803 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 176280006804 substrate binding site [chemical binding]; other site 176280006805 THF binding site; other site 176280006806 zinc-binding site [ion binding]; other site 176280006807 Putative cyclase; Region: Cyclase; cl00814 176280006808 putative acyltransferase; Provisional; Region: PRK05790 176280006809 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 176280006810 dimer interface [polypeptide binding]; other site 176280006811 active site 176280006812 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 176280006813 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 176280006814 non-specific DNA binding site [nucleotide binding]; other site 176280006815 salt bridge; other site 176280006816 sequence-specific DNA binding site [nucleotide binding]; other site 176280006817 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 176280006818 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 176280006819 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 176280006820 Walker A/P-loop; other site 176280006821 ATP binding site [chemical binding]; other site 176280006822 Q-loop/lid; other site 176280006823 ABC transporter signature motif; other site 176280006824 Walker B; other site 176280006825 D-loop; other site 176280006826 H-loop/switch region; other site 176280006827 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 176280006828 DinB superfamily; Region: DinB_2; cl00986 176280006829 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 176280006830 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280006831 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 176280006832 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 176280006833 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 176280006834 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 176280006835 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 176280006836 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 176280006837 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280006838 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280006839 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280006840 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 176280006841 benzoate transport; Region: 2A0115; TIGR00895 176280006842 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 176280006843 putative substrate translocation pore; other site 176280006844 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 176280006845 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 176280006846 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 176280006847 Catalytic site [active] 176280006848 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 176280006849 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280006850 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 176280006851 Walker A/P-loop; other site 176280006852 ATP binding site [chemical binding]; other site 176280006853 Q-loop/lid; other site 176280006854 ABC transporter signature motif; other site 176280006855 Walker B; other site 176280006856 D-loop; other site 176280006857 H-loop/switch region; other site 176280006858 FtsX-like permease family; Region: FtsX; pfam02687 176280006859 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 176280006860 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 176280006861 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 176280006862 FtsX-like permease family; Region: FtsX; pfam02687 176280006863 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 176280006864 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 176280006865 Walker A/P-loop; other site 176280006866 ATP binding site [chemical binding]; other site 176280006867 Q-loop/lid; other site 176280006868 ABC transporter signature motif; other site 176280006869 Walker B; other site 176280006870 D-loop; other site 176280006871 H-loop/switch region; other site 176280006872 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 176280006873 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 176280006874 non-specific DNA binding site [nucleotide binding]; other site 176280006875 salt bridge; other site 176280006876 sequence-specific DNA binding site [nucleotide binding]; other site 176280006877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 176280006878 Helix-turn-helix domains; Region: HTH; cl00088 176280006879 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 176280006880 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 176280006881 ParB-like partition proteins; Region: parB_part; TIGR00180 176280006882 ParB-like nuclease domain; Region: ParBc; cl02129 176280006883 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 176280006884 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; cl12011 176280006885 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 176280006886 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 176280006887 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 176280006888 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 176280006889 trmE is a tRNA modification GTPase; Region: trmE; cd04164 176280006890 G1 box; other site 176280006891 GTP/Mg2+ binding site [chemical binding]; other site 176280006892 Switch I region; other site 176280006893 G2 box; other site 176280006894 Switch II region; other site 176280006895 G3 box; other site 176280006896 G4 box; other site 176280006897 G5 box; other site 176280006898 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 176280006899 Ribonuclease P; Region: Ribonuclease_P; cl00457 176280006900 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 176280006901 ABC-2 type transporter; Region: ABC2_membrane; cl11417 176280006902 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 176280006903 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 176280006904 Short C-terminal domain; Region: SHOCT; cl01373 176280006905 Initiator Replication protein; Region: Rep_3; cl03080 176280006906 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 176280006907 non-specific DNA binding site [nucleotide binding]; other site 176280006908 salt bridge; other site 176280006909 sequence-specific DNA binding site [nucleotide binding]; other site 176280006910 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 176280006911 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 176280006912 active site 176280006913 ATP binding site [chemical binding]; other site 176280006914 substrate binding site [chemical binding]; other site 176280006915 activation loop (A-loop); other site 176280006916 Lanthionine synthetase C-like domain associated with serine threonine kinases. Some members of this subgroup lack the zinc binding site and the active site residues, and therefore are most likely inactive. The function of this domain is unknown; Region: LanC_SerThrkinase; cd04791 176280006917 active site 176280006918 zinc binding site [ion binding]; other site 176280006919 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 176280006920 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 176280006921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006922 Walker A/P-loop; other site 176280006923 ATP binding site [chemical binding]; other site 176280006924 Q-loop/lid; other site 176280006925 ABC transporter signature motif; other site 176280006926 Walker B; other site 176280006927 D-loop; other site 176280006928 H-loop/switch region; other site 176280006929 Helix-turn-helix domains; Region: HTH; cl00088 176280006930 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 176280006931 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 176280006932 catalytic residues [active] 176280006933 catalytic nucleophile [active] 176280006934 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280006935 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280006936 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280006937 Synaptic Site I dimer interface [polypeptide binding]; other site 176280006938 DNA binding site [nucleotide binding] 176280006939 Peptidase family M48; Region: Peptidase_M48; cl12018 176280006940 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 176280006941 Helix-turn-helix domains; Region: HTH; cl00088 176280006942 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 176280006943 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280006944 catalytic residues [active] 176280006945 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280006946 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280006947 Synaptic Site I dimer interface [polypeptide binding]; other site 176280006948 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 176280006949 DNA-binding interface [nucleotide binding]; DNA binding site 176280006950 Integrase core domain; Region: rve; cl01316 176280006951 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 176280006952 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 176280006953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 176280006954 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 176280006955 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 176280006956 dimer interface [polypeptide binding]; other site 176280006957 active site 176280006958 CoA binding pocket [chemical binding]; other site 176280006959 Predicted transcriptional regulator [Transcription]; Region: COG2378 176280006960 Helix-turn-helix domains; Region: HTH; cl00088 176280006961 Divergent AAA domain; Region: AAA_4; pfam04326 176280006962 MobA/MobL family; Region: MobA_MobL; pfam03389 176280006963 Protein of unknown function (DUF3847); Region: DUF3847; pfam12958 176280006964 Replication initiator protein A (RepA) N-terminus; Region: RepA_N; pfam06970 176280006965 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 176280006966 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 176280006967 Uncharacterized conserved protein [Function unknown]; Region: COG1284 176280006968 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 176280006969 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 176280006970 multiple promoter invertase; Provisional; Region: mpi; PRK13413 176280006971 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 176280006972 catalytic residues [active] 176280006973 catalytic nucleophile [active] 176280006974 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280006975 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280006976 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280006977 Synaptic Site I dimer interface [polypeptide binding]; other site 176280006978 DNA binding site [nucleotide binding] 176280006979 Helix-turn-helix domains; Region: HTH; cl00088 176280006980 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 176280006981 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280006982 catalytic residues [active] 176280006983 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280006984 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280006985 Synaptic Site I dimer interface [polypeptide binding]; other site 176280006986 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 176280006987 DNA-binding interface [nucleotide binding]; DNA binding site 176280006988 multiple promoter invertase; Provisional; Region: mpi; PRK13413 176280006989 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 176280006990 catalytic residues [active] 176280006991 catalytic nucleophile [active] 176280006992 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280006993 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280006994 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280006995 Synaptic Site I dimer interface [polypeptide binding]; other site 176280006996 DNA binding site [nucleotide binding] 176280006997 Helix-turn-helix domains; Region: HTH; cl00088 176280006998 DNA-binding interface [nucleotide binding]; DNA binding site 176280006999 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 176280007000 Permease family; Region: Xan_ur_permease; cl00967 176280007001 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 176280007002 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 176280007003 Ligand Binding Site [chemical binding]; other site 176280007004 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 176280007005 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 176280007006 catalytic residues [active] 176280007007 catalytic nucleophile [active] 176280007008 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280007009 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280007010 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280007011 Synaptic Site I dimer interface [polypeptide binding]; other site 176280007012 DNA binding site [nucleotide binding] 176280007013 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 176280007014 DNA-binding interface [nucleotide binding]; DNA binding site 176280007015 DNA polymerase; Provisional; Region: PHA02563 176280007016 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 176280007017 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 176280007018 catalytic residues [active] 176280007019 catalytic nucleophile [active] 176280007020 Presynaptic Site I dimer interface [polypeptide binding]; other site 176280007021 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 176280007022 Synaptic Flat tetramer interface [polypeptide binding]; other site 176280007023 Synaptic Site I dimer interface [polypeptide binding]; other site 176280007024 DNA binding site [nucleotide binding] 176280007025 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 176280007026 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 176280007027 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 176280007028 Replication initiation factor; Region: Rep_trans; pfam02486 176280007029 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 176280007030 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 176280007031 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 176280007032 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 176280007033 putative substrate translocation pore; other site 176280007034 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 176280007035 Replication initiation factor; Region: Rep_trans; pfam02486