-- dump date 20140618_185306 -- class Genbank::misc_feature -- table misc_feature_note -- id note 351607000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 351607000002 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 351607000003 Walker A motif; other site 351607000004 ATP binding site [chemical binding]; other site 351607000005 Walker B motif; other site 351607000006 arginine finger; other site 351607000007 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 351607000008 DnaA box-binding interface [nucleotide binding]; other site 351607000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 351607000010 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 351607000011 putative DNA binding surface [nucleotide binding]; other site 351607000012 dimer interface [polypeptide binding]; other site 351607000013 beta-clamp/clamp loader binding surface; other site 351607000014 beta-clamp/translesion DNA polymerase binding surface; other site 351607000015 recombination protein F; Reviewed; Region: recF; PRK00064 351607000016 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 351607000017 Walker A/P-loop; other site 351607000018 ATP binding site [chemical binding]; other site 351607000019 Q-loop/lid; other site 351607000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607000021 ABC transporter signature motif; other site 351607000022 Walker B; other site 351607000023 D-loop; other site 351607000024 H-loop/switch region; other site 351607000025 Protein of unknown function (DUF721); Region: DUF721; cl02324 351607000026 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 351607000027 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 351607000028 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 351607000029 anchoring element; other site 351607000030 dimer interface [polypeptide binding]; other site 351607000031 ATP binding site [chemical binding]; other site 351607000032 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 351607000033 active site 351607000034 putative metal-binding site [ion binding]; other site 351607000035 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 351607000036 DNA gyrase subunit A; Validated; Region: PRK05560 351607000037 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 351607000038 CAP-like domain; other site 351607000039 active site 351607000040 primary dimer interface [polypeptide binding]; other site 351607000041 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607000047 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 351607000048 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 351607000049 active site 351607000050 Rhomboid family; Region: Rhomboid; pfam01694 351607000051 putative septation inhibitor protein; Reviewed; Region: PRK02251 351607000052 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 351607000053 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 351607000054 active site 351607000055 catalytic site [active] 351607000056 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 351607000057 Glutamine amidotransferase class-I; Region: GATase; pfam00117 351607000058 glutamine binding [chemical binding]; other site 351607000059 catalytic triad [active] 351607000060 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 351607000061 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 351607000062 active site 351607000063 ATP binding site [chemical binding]; other site 351607000064 substrate binding site [chemical binding]; other site 351607000065 activation loop (A-loop); other site 351607000066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 351607000067 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 351607000068 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 351607000069 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 351607000070 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351607000071 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351607000072 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 351607000073 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 351607000074 active site 351607000075 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 351607000076 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 351607000077 phosphopeptide binding site; other site 351607000078 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 351607000079 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 351607000080 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 351607000081 phosphopeptide binding site; other site 351607000082 Kelch motif; Region: Kelch_1; pfam01344 351607000083 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 351607000084 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351607000085 Hemerythrin-like domain; Region: Hr-like; cd12108 351607000086 Fe binding site [ion binding]; other site 351607000087 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 351607000088 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 351607000089 PAC2 family; Region: PAC2; pfam09754 351607000090 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 351607000091 Predicted amidohydrolase [General function prediction only]; Region: COG0388 351607000092 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 351607000093 putative active site [active] 351607000094 catalytic triad [active] 351607000095 putative dimer interface [polypeptide binding]; other site 351607000096 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 351607000097 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 351607000098 E3 interaction surface; other site 351607000099 lipoyl attachment site [posttranslational modification]; other site 351607000100 e3 binding domain; Region: E3_binding; pfam02817 351607000101 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351607000102 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351607000103 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 351607000104 alpha subunit interface [polypeptide binding]; other site 351607000105 TPP binding site [chemical binding]; other site 351607000106 heterodimer interface [polypeptide binding]; other site 351607000107 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351607000108 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 351607000109 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 351607000110 TPP-binding site [chemical binding]; other site 351607000111 heterodimer interface [polypeptide binding]; other site 351607000112 tetramer interface [polypeptide binding]; other site 351607000113 phosphorylation loop region [posttranslational modification] 351607000114 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 351607000115 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 351607000116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607000117 homodimer interface [polypeptide binding]; other site 351607000118 catalytic residue [active] 351607000119 Mrr N-terminal domain; Region: Mrr_N; pfam14338 351607000120 Restriction endonuclease; Region: Mrr_cat; pfam04471 351607000121 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 351607000122 dimer interface [polypeptide binding]; other site 351607000123 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351607000124 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 351607000125 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 351607000126 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 351607000127 Cl- selectivity filter; other site 351607000128 Cl- binding residues [ion binding]; other site 351607000129 pore gating glutamate residue; other site 351607000130 dimer interface [polypeptide binding]; other site 351607000131 OsmC-like protein; Region: OsmC; pfam02566 351607000132 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351607000133 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351607000134 MarR family; Region: MarR; pfam01047 351607000135 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 351607000136 Low molecular weight phosphatase family; Region: LMWPc; cd00115 351607000137 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 351607000138 active site 351607000139 Fructosamine kinase; Region: Fructosamin_kin; cl17579 351607000140 Phosphotransferase enzyme family; Region: APH; pfam01636 351607000141 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 351607000142 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 351607000143 metal binding site [ion binding]; metal-binding site 351607000144 substrate binding pocket [chemical binding]; other site 351607000145 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 351607000146 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 351607000147 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 351607000148 FAD binding pocket [chemical binding]; other site 351607000149 FAD binding motif [chemical binding]; other site 351607000150 phosphate binding motif [ion binding]; other site 351607000151 beta-alpha-beta structure motif; other site 351607000152 NAD binding pocket [chemical binding]; other site 351607000153 FMN-binding domain; Region: FMN_bind; cl01081 351607000154 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 351607000155 ApbE family; Region: ApbE; pfam02424 351607000156 ThiC-associated domain; Region: ThiC-associated; pfam13667 351607000157 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 351607000158 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 351607000159 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 351607000160 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 351607000161 oligomer interface [polypeptide binding]; other site 351607000162 metal binding site [ion binding]; metal-binding site 351607000163 metal binding site [ion binding]; metal-binding site 351607000164 putative Cl binding site [ion binding]; other site 351607000165 aspartate ring; other site 351607000166 basic sphincter; other site 351607000167 hydrophobic gate; other site 351607000168 periplasmic entrance; other site 351607000169 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 351607000170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607000171 Response regulator receiver domain; Region: Response_reg; pfam00072 351607000172 active site 351607000173 phosphorylation site [posttranslational modification] 351607000174 intermolecular recognition site; other site 351607000175 dimerization interface [polypeptide binding]; other site 351607000176 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351607000177 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607000178 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 351607000179 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 351607000180 DNA binding residues [nucleotide binding] 351607000181 Putative zinc-finger; Region: zf-HC2; pfam13490 351607000182 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351607000183 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 351607000184 active site residue [active] 351607000185 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 351607000186 active site residue [active] 351607000187 Protein of unknown function (DUF1416); Region: DUF1416; pfam07210 351607000188 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351607000189 metal binding site 2 [ion binding]; metal-binding site 351607000190 putative DNA binding helix; other site 351607000191 metal binding site 1 [ion binding]; metal-binding site 351607000192 dimer interface [polypeptide binding]; other site 351607000193 structural Zn2+ binding site [ion binding]; other site 351607000194 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 351607000195 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 351607000196 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 351607000197 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 351607000198 putative active site [active] 351607000199 dimerization interface [polypeptide binding]; other site 351607000200 putative tRNAtyr binding site [nucleotide binding]; other site 351607000201 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351607000202 TAP-like protein; Region: Abhydrolase_4; pfam08386 351607000203 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 351607000204 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 351607000205 non-specific DNA binding site [nucleotide binding]; other site 351607000206 salt bridge; other site 351607000207 sequence-specific DNA binding site [nucleotide binding]; other site 351607000208 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 351607000209 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607000210 active site 351607000211 catalytic tetrad [active] 351607000212 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 351607000213 putative ADP-ribose binding site [chemical binding]; other site 351607000214 putative active site [active] 351607000215 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 351607000216 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 351607000217 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 351607000218 active site 351607000219 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 351607000220 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 351607000221 putative ADP-binding pocket [chemical binding]; other site 351607000222 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 351607000223 DNA binding residues [nucleotide binding] 351607000224 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 351607000225 catalytic core [active] 351607000226 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 351607000227 Protein of unknown function (DUF461); Region: DUF461; cl01071 351607000228 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 351607000229 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 351607000230 putative active site [active] 351607000231 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607000232 active site 351607000233 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 351607000234 homotrimer interaction site [polypeptide binding]; other site 351607000235 zinc binding site [ion binding]; other site 351607000236 CDP-binding sites; other site 351607000237 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 351607000238 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607000239 active site 351607000240 HIGH motif; other site 351607000241 nucleotide binding site [chemical binding]; other site 351607000242 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 351607000243 KMSKS motif; other site 351607000244 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 351607000245 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 351607000246 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 351607000247 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351607000248 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 351607000249 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607000250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607000251 active site 351607000252 phosphorylation site [posttranslational modification] 351607000253 intermolecular recognition site; other site 351607000254 dimerization interface [polypeptide binding]; other site 351607000255 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 351607000256 DNA binding site [nucleotide binding] 351607000257 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 351607000258 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 351607000259 dimer interface [polypeptide binding]; other site 351607000260 phosphorylation site [posttranslational modification] 351607000261 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 351607000262 ATP binding site [chemical binding]; other site 351607000263 Mg2+ binding site [ion binding]; other site 351607000264 G-X-G motif; other site 351607000265 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 351607000266 PhoU domain; Region: PhoU; pfam01895 351607000267 PhoU domain; Region: PhoU; pfam01895 351607000268 PBP superfamily domain; Region: PBP_like_2; cl17296 351607000269 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 351607000270 dimer interface [polypeptide binding]; other site 351607000271 conserved gate region; other site 351607000272 putative PBP binding loops; other site 351607000273 ABC-ATPase subunit interface; other site 351607000274 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 351607000275 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 351607000276 dimer interface [polypeptide binding]; other site 351607000277 conserved gate region; other site 351607000278 putative PBP binding loops; other site 351607000279 ABC-ATPase subunit interface; other site 351607000280 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 351607000281 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 351607000282 Walker A/P-loop; other site 351607000283 ATP binding site [chemical binding]; other site 351607000284 Q-loop/lid; other site 351607000285 ABC transporter signature motif; other site 351607000286 Walker B; other site 351607000287 D-loop; other site 351607000288 H-loop/switch region; other site 351607000289 Beta-lactamase; Region: Beta-lactamase; pfam00144 351607000290 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 351607000291 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607000292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607000293 metal binding site [ion binding]; metal-binding site 351607000294 active site 351607000295 I-site; other site 351607000296 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 351607000297 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 351607000298 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 351607000299 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 351607000300 threonine synthase; Validated; Region: PRK07591 351607000301 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 351607000302 homodimer interface [polypeptide binding]; other site 351607000303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607000304 catalytic residue [active] 351607000305 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 351607000306 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 351607000307 ring oligomerisation interface [polypeptide binding]; other site 351607000308 ATP/Mg binding site [chemical binding]; other site 351607000309 stacking interactions; other site 351607000310 hinge regions; other site 351607000311 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 351607000312 CutC family; Region: CutC; cl01218 351607000313 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 351607000314 DNA-binding site [nucleotide binding]; DNA binding site 351607000315 RNA-binding motif; other site 351607000316 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 351607000317 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 351607000318 futalosine nucleosidase; Region: fut_nucase; TIGR03664 351607000319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607000320 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 351607000321 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351607000322 MarR family; Region: MarR; pfam01047 351607000323 H+ Antiporter protein; Region: 2A0121; TIGR00900 351607000324 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 351607000325 putative substrate translocation pore; other site 351607000326 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 351607000327 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351607000328 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 351607000329 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607000330 active site 351607000331 catalytic tetrad [active] 351607000332 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 351607000333 putative substrate translocation pore; other site 351607000334 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 351607000335 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607000336 catalytic residue [active] 351607000337 citrate synthase 2; Provisional; Region: PRK12350 351607000338 Citrate synthase; Region: Citrate_synt; pfam00285 351607000339 oxalacetate binding site [chemical binding]; other site 351607000340 citrylCoA binding site [chemical binding]; other site 351607000341 coenzyme A binding site [chemical binding]; other site 351607000342 catalytic triad [active] 351607000343 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 351607000344 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 351607000345 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 351607000346 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 351607000347 Fe-S cluster binding site [ion binding]; other site 351607000348 active site 351607000349 O-Antigen ligase; Region: Wzy_C; pfam04932 351607000350 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 351607000351 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 351607000352 dimerization interface [polypeptide binding]; other site 351607000353 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351607000354 dimer interface [polypeptide binding]; other site 351607000355 putative CheW interface [polypeptide binding]; other site 351607000356 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 351607000357 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 351607000358 Streptomyces laminarinase-like, member of glycosyl hydrolase family 16; Region: GH16_Strep_laminarinase_like; cd02182 351607000359 active site 351607000360 catalytic residues [active] 351607000361 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 351607000362 metal binding site [ion binding]; metal-binding site 351607000363 ligand binding site [chemical binding]; other site 351607000364 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 351607000365 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 351607000366 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 351607000367 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 351607000368 dimer interface [polypeptide binding]; other site 351607000369 conserved gate region; other site 351607000370 putative PBP binding loops; other site 351607000371 ABC-ATPase subunit interface; other site 351607000372 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 351607000373 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 351607000374 dimer interface [polypeptide binding]; other site 351607000375 conserved gate region; other site 351607000376 putative PBP binding loops; other site 351607000377 ABC-ATPase subunit interface; other site 351607000378 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 351607000379 beta-galactosidase; Region: BGL; TIGR03356 351607000380 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607000381 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607000382 DNA binding site [nucleotide binding] 351607000383 domain linker motif; other site 351607000384 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 351607000385 putative dimerization interface [polypeptide binding]; other site 351607000386 putative ligand binding site [chemical binding]; other site 351607000387 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 351607000388 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 351607000389 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607000390 active site 351607000391 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 351607000392 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 351607000393 putative NAD(P) binding site [chemical binding]; other site 351607000394 putative substrate binding site [chemical binding]; other site 351607000395 catalytic Zn binding site [ion binding]; other site 351607000396 structural Zn binding site [ion binding]; other site 351607000397 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 351607000398 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 351607000399 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 351607000400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607000401 putative ADP-binding pocket [chemical binding]; other site 351607000402 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 351607000403 active site 351607000404 putative catalytic site [active] 351607000405 Neocarzinostatin family; Region: Neocarzinostat; pfam00960 351607000406 Uncharacterized conserved protein [Function unknown]; Region: COG4095 351607000407 Uncharacterized conserved protein [Function unknown]; Region: COG4095 351607000408 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607000409 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607000410 DNA binding site [nucleotide binding] 351607000411 domain linker motif; other site 351607000412 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 351607000413 putative dimerization interface [polypeptide binding]; other site 351607000414 putative ligand binding site [chemical binding]; other site 351607000415 Predicted membrane protein [Function unknown]; Region: COG2259 351607000416 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 351607000417 iron-sulfur cluster [ion binding]; other site 351607000418 [2Fe-2S] cluster binding site [ion binding]; other site 351607000419 Neocarzinostatin family; Region: Neocarzinostat; pfam00960 351607000420 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351607000421 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 351607000422 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351607000423 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 351607000424 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607000425 active site 351607000426 catalytic tetrad [active] 351607000427 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 351607000428 TIGR03086 family protein; Region: TIGR03086 351607000429 UbiA prenyltransferase family; Region: UbiA; pfam01040 351607000430 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 351607000431 DNA photolyase; Region: DNA_photolyase; pfam00875 351607000432 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 351607000433 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 351607000434 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 351607000435 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607000436 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 351607000437 Walker A/P-loop; other site 351607000438 ATP binding site [chemical binding]; other site 351607000439 Q-loop/lid; other site 351607000440 ABC transporter signature motif; other site 351607000441 Walker B; other site 351607000442 D-loop; other site 351607000443 H-loop/switch region; other site 351607000444 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 351607000445 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 351607000446 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 351607000447 putative active site [active] 351607000448 putative substrate binding site [chemical binding]; other site 351607000449 putative cosubstrate binding site; other site 351607000450 catalytic site [active] 351607000451 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 351607000452 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 351607000453 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 351607000454 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 351607000455 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 351607000456 5'-methylthioadenosine phosphorylase; Validated; Region: PRK07823 351607000457 FtsH Extracellular; Region: FtsH_ext; pfam06480 351607000458 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351607000459 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 351607000460 Walker A motif; other site 351607000461 ATP binding site [chemical binding]; other site 351607000462 Walker B motif; other site 351607000463 arginine finger; other site 351607000464 Peptidase family M41; Region: Peptidase_M41; pfam01434 351607000465 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351607000466 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 351607000467 putative dimer interface [polypeptide binding]; other site 351607000468 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 351607000469 potassium/proton antiporter; Reviewed; Region: PRK05326 351607000470 TrkA-C domain; Region: TrkA_C; pfam02080 351607000471 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 351607000472 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 351607000473 dimerization interface [polypeptide binding]; other site 351607000474 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351607000475 GAF domain; Region: GAF_3; pfam13492 351607000476 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607000477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607000478 metal binding site [ion binding]; metal-binding site 351607000479 active site 351607000480 I-site; other site 351607000481 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 351607000482 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 351607000483 active site 351607000484 tetramer interface; other site 351607000485 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 351607000486 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 351607000487 dimer interface [polypeptide binding]; other site 351607000488 putative functional site; other site 351607000489 putative MPT binding site; other site 351607000490 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 351607000491 trimer interface [polypeptide binding]; other site 351607000492 dimer interface [polypeptide binding]; other site 351607000493 putative active site [active] 351607000494 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 351607000495 MPT binding site; other site 351607000496 trimer interface [polypeptide binding]; other site 351607000497 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 351607000498 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 351607000499 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 351607000500 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 351607000501 Predicted methyltransferases [General function prediction only]; Region: COG0313 351607000502 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 351607000503 putative SAM binding site [chemical binding]; other site 351607000504 putative homodimer interface [polypeptide binding]; other site 351607000505 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 351607000506 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 351607000507 active site 351607000508 HIGH motif; other site 351607000509 KMSKS motif; other site 351607000510 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 351607000511 tRNA binding surface [nucleotide binding]; other site 351607000512 anticodon binding site; other site 351607000513 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 351607000514 active site 351607000515 Domain of unknown function (DUF348); Region: DUF348; pfam03990 351607000516 Domain of unknown function (DUF348); Region: DUF348; pfam03990 351607000517 Domain of unknown function (DUF348); Region: DUF348; pfam03990 351607000518 G5 domain; Region: G5; pfam07501 351607000519 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 351607000520 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351607000521 catalytic residue [active] 351607000522 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 351607000523 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 351607000524 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 351607000525 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607000526 Cellulose binding domain; Region: CBM_3; smart01067 351607000527 Cellulose binding domain; Region: CBM_2; pfam00553 351607000528 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 351607000529 Cellulose binding domain; Region: CBM_3; smart01067 351607000530 Cellulose binding domain; Region: CBM_2; pfam00553 351607000531 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 351607000532 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 351607000533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607000534 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 351607000535 DNA binding residues [nucleotide binding] 351607000536 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 351607000537 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351607000538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607000539 NAD(P) binding site [chemical binding]; other site 351607000540 active site 351607000541 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351607000542 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351607000543 NAD(P) binding site [chemical binding]; other site 351607000544 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 351607000545 active site 351607000546 Iron permease FTR1 family; Region: FTR1; pfam03239 351607000547 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 351607000548 Imelysin; Region: Peptidase_M75; pfam09375 351607000549 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 351607000550 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 351607000551 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 351607000552 non-specific DNA interactions [nucleotide binding]; other site 351607000553 DNA binding site [nucleotide binding] 351607000554 sequence specific DNA binding site [nucleotide binding]; other site 351607000555 putative cAMP binding site [chemical binding]; other site 351607000556 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 351607000557 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351607000558 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351607000559 Walker A/P-loop; other site 351607000560 ATP binding site [chemical binding]; other site 351607000561 Q-loop/lid; other site 351607000562 ABC transporter signature motif; other site 351607000563 Walker B; other site 351607000564 D-loop; other site 351607000565 H-loop/switch region; other site 351607000566 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351607000567 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351607000568 Histidine kinase; Region: HisKA_3; pfam07730 351607000569 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607000570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607000571 active site 351607000572 phosphorylation site [posttranslational modification] 351607000573 intermolecular recognition site; other site 351607000574 dimerization interface [polypeptide binding]; other site 351607000575 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 351607000576 DNA binding residues [nucleotide binding] 351607000577 dimerization interface [polypeptide binding]; other site 351607000578 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 351607000579 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 351607000580 putative active site [active] 351607000581 PhoH-like protein; Region: PhoH; pfam02562 351607000582 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351607000583 NlpC/P60 family; Region: NLPC_P60; pfam00877 351607000584 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 351607000585 dimer interface [polypeptide binding]; other site 351607000586 substrate binding site [chemical binding]; other site 351607000587 metal binding sites [ion binding]; metal-binding site 351607000588 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 351607000589 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 351607000590 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 351607000591 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 351607000592 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 351607000593 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 351607000594 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 351607000595 Ligand Binding Site [chemical binding]; other site 351607000596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607000597 active site 351607000598 FtsH Extracellular; Region: FtsH_ext; pfam06480 351607000599 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 351607000600 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 351607000601 Walker A motif; other site 351607000602 ATP binding site [chemical binding]; other site 351607000603 Walker B motif; other site 351607000604 arginine finger; other site 351607000605 Peptidase family M41; Region: Peptidase_M41; pfam01434 351607000606 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 351607000607 homodecamer interface [polypeptide binding]; other site 351607000608 GTP cyclohydrolase I; Provisional; Region: PLN03044 351607000609 active site 351607000610 putative catalytic site residues [active] 351607000611 zinc binding site [ion binding]; other site 351607000612 GTP-CH-I/GFRP interaction surface; other site 351607000613 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 351607000614 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 351607000615 dihydropteroate synthase; Region: DHPS; TIGR01496 351607000616 substrate binding pocket [chemical binding]; other site 351607000617 inhibitor binding site; inhibition site 351607000618 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 351607000619 homooctamer interface [polypeptide binding]; other site 351607000620 active site 351607000621 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 351607000622 catalytic center binding site [active] 351607000623 ATP binding site [chemical binding]; other site 351607000624 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 351607000625 Rossmann-like domain; Region: Rossmann-like; pfam10727 351607000626 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 351607000627 Pantoate-beta-alanine ligase; Region: PanC; cd00560 351607000628 pantoate--beta-alanine ligase; Region: panC; TIGR00018 351607000629 active site 351607000630 ATP-binding site [chemical binding]; other site 351607000631 pantoate-binding site; other site 351607000632 HXXH motif; other site 351607000633 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 351607000634 tetramerization interface [polypeptide binding]; other site 351607000635 active site 351607000636 L-aspartate oxidase; Provisional; Region: PRK07804 351607000637 L-aspartate oxidase; Provisional; Region: PRK06175 351607000638 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351607000639 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 351607000640 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 351607000641 dimerization interface [polypeptide binding]; other site 351607000642 active site 351607000643 pantothenate kinase; Reviewed; Region: PRK13318 351607000644 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 351607000645 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 351607000646 dimer interface [polypeptide binding]; other site 351607000647 putative anticodon binding site; other site 351607000648 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 351607000649 motif 1; other site 351607000650 dimer interface [polypeptide binding]; other site 351607000651 active site 351607000652 motif 2; other site 351607000653 motif 3; other site 351607000654 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607000655 Coenzyme A binding pocket [chemical binding]; other site 351607000656 Lsr2; Region: Lsr2; pfam11774 351607000657 Clp protease ATP binding subunit; Region: clpC; CHL00095 351607000658 Clp amino terminal domain; Region: Clp_N; pfam02861 351607000659 Clp amino terminal domain; Region: Clp_N; pfam02861 351607000660 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 351607000661 Walker A motif; other site 351607000662 ATP binding site [chemical binding]; other site 351607000663 Walker B motif; other site 351607000664 arginine finger; other site 351607000665 UvrB/uvrC motif; Region: UVR; pfam02151 351607000666 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 351607000667 Walker A motif; other site 351607000668 ATP binding site [chemical binding]; other site 351607000669 Walker B motif; other site 351607000670 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351607000671 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351607000672 endonuclease III; Region: ENDO3c; smart00478 351607000673 minor groove reading motif; other site 351607000674 helix-hairpin-helix signature motif; other site 351607000675 substrate binding pocket [chemical binding]; other site 351607000676 active site 351607000677 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 351607000678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607000679 active site 351607000680 phosphorylation site [posttranslational modification] 351607000681 intermolecular recognition site; other site 351607000682 CheB methylesterase; Region: CheB_methylest; pfam01339 351607000683 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351607000684 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 351607000685 S-adenosylmethionine binding site [chemical binding]; other site 351607000686 CheW-like domain; Region: CheW; pfam01584 351607000687 Lipase maturation factor; Region: LMF1; pfam06762 351607000688 DNA repair protein RadA; Provisional; Region: PRK11823 351607000689 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 351607000690 Walker A motif; other site 351607000691 ATP binding site [chemical binding]; other site 351607000692 Walker B motif; other site 351607000693 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 351607000694 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 351607000695 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 351607000696 Helix-hairpin-helix motif; Region: HHH; pfam00633 351607000697 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 351607000698 transaminase, acetylornithine/succinylornithine family; Region: argD; TIGR00707 351607000699 inhibitor-cofactor binding pocket; inhibition site 351607000700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607000701 catalytic residue [active] 351607000702 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 351607000703 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 351607000704 inhibitor-cofactor binding pocket; inhibition site 351607000705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607000706 catalytic residue [active] 351607000707 Phosphoesterase family; Region: Phosphoesterase; pfam04185 351607000708 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 351607000709 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 351607000710 motif II; other site 351607000711 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 351607000712 dimer interface [polypeptide binding]; other site 351607000713 active site 351607000714 Schiff base residues; other site 351607000715 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 351607000716 homodimer interface [polypeptide binding]; other site 351607000717 active site 351607000718 SAM binding site [chemical binding]; other site 351607000719 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 351607000720 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 351607000721 active site 351607000722 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 351607000723 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; cl17708 351607000724 domain interfaces; other site 351607000725 active site 351607000726 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 351607000727 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 351607000728 tRNA; other site 351607000729 putative tRNA binding site [nucleotide binding]; other site 351607000730 putative NADP binding site [chemical binding]; other site 351607000731 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 351607000732 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 351607000733 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 351607000734 CoA binding domain; Region: CoA_binding; pfam02629 351607000735 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 351607000736 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 351607000737 DNA binding domain, excisionase family; Region: excise; TIGR01764 351607000738 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 351607000739 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 351607000740 active site 351607000741 Zn binding site [ion binding]; other site 351607000742 pyrroline-5-carboxylate reductase; Region: PLN02688 351607000743 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 351607000744 Proline dehydrogenase; Region: Pro_dh; cl03282 351607000745 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 351607000746 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351607000747 catalytic site [active] 351607000748 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 351607000749 Metal-binding active site; metal-binding site 351607000750 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 351607000751 catalytic core [active] 351607000752 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 351607000753 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351607000754 catalytic residues [active] 351607000755 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 351607000756 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 351607000757 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 351607000758 ResB-like family; Region: ResB; pfam05140 351607000759 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 351607000760 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 351607000761 prenyltransferase; Reviewed; Region: ubiA; PRK12888 351607000762 UbiA prenyltransferase family; Region: UbiA; pfam01040 351607000763 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 351607000764 Flavoprotein; Region: Flavoprotein; pfam02441 351607000765 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 351607000766 DNA binding residues [nucleotide binding] 351607000767 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 351607000768 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 351607000769 FeS/SAM binding site; other site 351607000770 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 351607000771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607000772 Response regulator receiver domain; Region: Response_reg; pfam00072 351607000773 active site 351607000774 phosphorylation site [posttranslational modification] 351607000775 intermolecular recognition site; other site 351607000776 dimerization interface [polypeptide binding]; other site 351607000777 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 351607000778 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 351607000779 FeS/SAM binding site; other site 351607000780 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 351607000781 adenosine deaminase; Provisional; Region: PRK09358 351607000782 active site 351607000783 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 351607000784 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 351607000785 S-adenosylmethionine binding site [chemical binding]; other site 351607000786 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 351607000787 NADH dehydrogenase subunit A; Validated; Region: PRK07928 351607000788 NADH dehydrogenase subunit B; Validated; Region: PRK06411 351607000789 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 351607000790 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 351607000791 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 351607000792 NADH dehydrogenase subunit D; Validated; Region: PRK06075 351607000793 NADH dehydrogenase subunit E; Validated; Region: PRK07539 351607000794 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 351607000795 putative dimer interface [polypeptide binding]; other site 351607000796 [2Fe-2S] cluster binding site [ion binding]; other site 351607000797 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 351607000798 SLBB domain; Region: SLBB; pfam10531 351607000799 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 351607000800 NADH dehydrogenase subunit G; Validated; Region: PRK07860 351607000801 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351607000802 catalytic loop [active] 351607000803 iron binding site [ion binding]; other site 351607000804 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 351607000805 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 351607000806 molybdopterin cofactor binding site; other site 351607000807 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 351607000808 molybdopterin cofactor binding site; other site 351607000809 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 351607000810 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 351607000811 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 351607000812 4Fe-4S binding domain; Region: Fer4; pfam00037 351607000813 4Fe-4S binding domain; Region: Fer4; pfam00037 351607000814 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 351607000815 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 351607000816 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 351607000817 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 351607000818 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 351607000819 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351607000820 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 351607000821 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351607000822 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 351607000823 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351607000824 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351607000825 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351607000826 substrate binding pocket [chemical binding]; other site 351607000827 chain length determination region; other site 351607000828 substrate-Mg2+ binding site; other site 351607000829 catalytic residues [active] 351607000830 aspartate-rich region 1; other site 351607000831 active site lid residues [active] 351607000832 aspartate-rich region 2; other site 351607000833 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 351607000834 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 351607000835 TPP-binding site [chemical binding]; other site 351607000836 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 351607000837 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 351607000838 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 351607000839 dimer interface [polypeptide binding]; other site 351607000840 PYR/PP interface [polypeptide binding]; other site 351607000841 TPP binding site [chemical binding]; other site 351607000842 substrate binding site [chemical binding]; other site 351607000843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 351607000844 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 351607000845 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 351607000846 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 351607000847 active site 351607000848 catalytic site [active] 351607000849 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 351607000850 active site 351607000851 catalytic site [active] 351607000852 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607000853 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 351607000854 FAD binding domain; Region: FAD_binding_4; pfam01565 351607000855 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 351607000856 aspartate aminotransferase; Provisional; Region: PRK05764 351607000857 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 351607000858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607000859 homodimer interface [polypeptide binding]; other site 351607000860 catalytic residue [active] 351607000861 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 351607000862 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 351607000863 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 351607000864 putative homodimer interface [polypeptide binding]; other site 351607000865 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 351607000866 heterodimer interface [polypeptide binding]; other site 351607000867 homodimer interface [polypeptide binding]; other site 351607000868 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 351607000869 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 351607000870 23S rRNA interface [nucleotide binding]; other site 351607000871 L7/L12 interface [polypeptide binding]; other site 351607000872 putative thiostrepton binding site; other site 351607000873 L25 interface [polypeptide binding]; other site 351607000874 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 351607000875 mRNA/rRNA interface [nucleotide binding]; other site 351607000876 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 351607000877 23S rRNA interface [nucleotide binding]; other site 351607000878 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 351607000879 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 351607000880 core dimer interface [polypeptide binding]; other site 351607000881 peripheral dimer interface [polypeptide binding]; other site 351607000882 L10 interface [polypeptide binding]; other site 351607000883 L11 interface [polypeptide binding]; other site 351607000884 putative EF-Tu interaction site [polypeptide binding]; other site 351607000885 putative EF-G interaction site [polypeptide binding]; other site 351607000886 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 351607000887 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 351607000888 RPB12 interaction site [polypeptide binding]; other site 351607000889 RPB1 interaction site [polypeptide binding]; other site 351607000890 RPB10 interaction site [polypeptide binding]; other site 351607000891 RPB11 interaction site [polypeptide binding]; other site 351607000892 RPB3 interaction site [polypeptide binding]; other site 351607000893 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 351607000894 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 351607000895 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 351607000896 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 351607000897 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 351607000898 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 351607000899 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 351607000900 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 351607000901 G-loop; other site 351607000902 DNA binding site [nucleotide binding] 351607000903 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 351607000904 S17 interaction site [polypeptide binding]; other site 351607000905 S8 interaction site; other site 351607000906 16S rRNA interaction site [nucleotide binding]; other site 351607000907 streptomycin interaction site [chemical binding]; other site 351607000908 23S rRNA interaction site [nucleotide binding]; other site 351607000909 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 351607000910 30S ribosomal protein S7; Validated; Region: PRK05302 351607000911 elongation factor G; Reviewed; Region: PRK00007 351607000912 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 351607000913 G1 box; other site 351607000914 putative GEF interaction site [polypeptide binding]; other site 351607000915 GTP/Mg2+ binding site [chemical binding]; other site 351607000916 Switch I region; other site 351607000917 G2 box; other site 351607000918 G3 box; other site 351607000919 Switch II region; other site 351607000920 G4 box; other site 351607000921 G5 box; other site 351607000922 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 351607000923 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 351607000924 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 351607000925 elongation factor Tu; Reviewed; Region: PRK00049 351607000926 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 351607000927 G1 box; other site 351607000928 GEF interaction site [polypeptide binding]; other site 351607000929 GTP/Mg2+ binding site [chemical binding]; other site 351607000930 Switch I region; other site 351607000931 G2 box; other site 351607000932 G3 box; other site 351607000933 Switch II region; other site 351607000934 G4 box; other site 351607000935 G5 box; other site 351607000936 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 351607000937 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 351607000938 Antibiotic Binding Site [chemical binding]; other site 351607000939 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 351607000940 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 351607000941 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 351607000942 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 351607000943 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 351607000944 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 351607000945 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 351607000946 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 351607000947 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 351607000948 putative translocon binding site; other site 351607000949 protein-rRNA interface [nucleotide binding]; other site 351607000950 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 351607000951 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 351607000952 G-X-X-G motif; other site 351607000953 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 351607000954 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 351607000955 23S rRNA interface [nucleotide binding]; other site 351607000956 5S rRNA interface [nucleotide binding]; other site 351607000957 putative antibiotic binding site [chemical binding]; other site 351607000958 L25 interface [polypeptide binding]; other site 351607000959 L27 interface [polypeptide binding]; other site 351607000960 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 351607000961 putative translocon interaction site; other site 351607000962 23S rRNA interface [nucleotide binding]; other site 351607000963 signal recognition particle (SRP54) interaction site; other site 351607000964 L23 interface [polypeptide binding]; other site 351607000965 trigger factor interaction site; other site 351607000966 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 351607000967 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 351607000968 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 351607000969 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 351607000970 RNA binding site [nucleotide binding]; other site 351607000971 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 351607000972 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 351607000973 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 351607000974 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 351607000975 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 351607000976 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 351607000977 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 351607000978 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351607000979 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 351607000980 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 351607000981 5S rRNA interface [nucleotide binding]; other site 351607000982 L27 interface [polypeptide binding]; other site 351607000983 23S rRNA interface [nucleotide binding]; other site 351607000984 L5 interface [polypeptide binding]; other site 351607000985 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 351607000986 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 351607000987 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 351607000988 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 351607000989 23S rRNA binding site [nucleotide binding]; other site 351607000990 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 351607000991 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 351607000992 SecY translocase; Region: SecY; pfam00344 351607000993 adenylate kinase; Reviewed; Region: adk; PRK00279 351607000994 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 351607000995 AMP-binding site [chemical binding]; other site 351607000996 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 351607000997 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 351607000998 active site 351607000999 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 351607001000 rRNA binding site [nucleotide binding]; other site 351607001001 predicted 30S ribosome binding site; other site 351607001002 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 351607001003 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 351607001004 30S ribosomal protein S13; Region: bact_S13; TIGR03631 351607001005 30S ribosomal protein S11; Validated; Region: PRK05309 351607001006 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 351607001007 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 351607001008 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 351607001009 RNA binding surface [nucleotide binding]; other site 351607001010 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 351607001011 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 351607001012 alphaNTD - beta interaction site [polypeptide binding]; other site 351607001013 alphaNTD homodimer interface [polypeptide binding]; other site 351607001014 alphaNTD - beta' interaction site [polypeptide binding]; other site 351607001015 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 351607001016 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 351607001017 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 351607001018 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 351607001019 dimerization interface 3.5A [polypeptide binding]; other site 351607001020 active site 351607001021 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 351607001022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607001023 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 351607001024 Walker A/P-loop; other site 351607001025 ATP binding site [chemical binding]; other site 351607001026 Q-loop/lid; other site 351607001027 ABC transporter signature motif; other site 351607001028 Walker B; other site 351607001029 D-loop; other site 351607001030 H-loop/switch region; other site 351607001031 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351607001032 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 351607001033 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 351607001034 23S rRNA interface [nucleotide binding]; other site 351607001035 L3 interface [polypeptide binding]; other site 351607001036 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 351607001037 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 351607001038 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 351607001039 active site 351607001040 substrate binding site [chemical binding]; other site 351607001041 metal binding site [ion binding]; metal-binding site 351607001042 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 351607001043 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 351607001044 glutaminase active site [active] 351607001045 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 351607001046 dimer interface [polypeptide binding]; other site 351607001047 active site 351607001048 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 351607001049 dimer interface [polypeptide binding]; other site 351607001050 active site 351607001051 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 351607001052 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 351607001053 putative substrate binding site [chemical binding]; other site 351607001054 putative ATP binding site [chemical binding]; other site 351607001055 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 351607001056 putative DNA binding site [nucleotide binding]; other site 351607001057 putative Zn2+ binding site [ion binding]; other site 351607001058 Transport protein; Region: actII; TIGR00833 351607001059 Transport protein; Region: actII; TIGR00833 351607001060 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for...; Region: Sortase_E; cd05829 351607001061 active site 351607001062 putative catalytic site [active] 351607001063 CHRD domain; Region: CHRD; cl06473 351607001064 RNA polymerase sigma factor; Provisional; Region: PRK12519 351607001065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607001066 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 351607001067 DNA binding residues [nucleotide binding] 351607001068 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 351607001069 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607001070 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607001071 TM-ABC transporter signature motif; other site 351607001072 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351607001073 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607001074 Walker A/P-loop; other site 351607001075 ATP binding site [chemical binding]; other site 351607001076 Q-loop/lid; other site 351607001077 ABC transporter signature motif; other site 351607001078 Walker B; other site 351607001079 D-loop; other site 351607001080 H-loop/switch region; other site 351607001081 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 351607001082 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 351607001083 alanine racemase; Reviewed; Region: alr; PRK00053 351607001084 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 351607001085 active site 351607001086 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351607001087 dimer interface [polypeptide binding]; other site 351607001088 substrate binding site [chemical binding]; other site 351607001089 catalytic residues [active] 351607001090 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 351607001091 Fe-S cluster binding site [ion binding]; other site 351607001092 active site 351607001093 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 351607001094 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 351607001095 Glycoprotease family; Region: Peptidase_M22; pfam00814 351607001096 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 351607001097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607001098 Coenzyme A binding pocket [chemical binding]; other site 351607001099 UGMP family protein; Validated; Region: PRK09604 351607001100 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 351607001101 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 351607001102 oligomerisation interface [polypeptide binding]; other site 351607001103 mobile loop; other site 351607001104 roof hairpin; other site 351607001105 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 351607001106 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 351607001107 ring oligomerisation interface [polypeptide binding]; other site 351607001108 ATP/Mg binding site [chemical binding]; other site 351607001109 stacking interactions; other site 351607001110 hinge regions; other site 351607001111 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607001112 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607001113 active site 351607001114 phosphorylation site [posttranslational modification] 351607001115 intermolecular recognition site; other site 351607001116 dimerization interface [polypeptide binding]; other site 351607001117 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 351607001118 DNA binding residues [nucleotide binding] 351607001119 dimerization interface [polypeptide binding]; other site 351607001120 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 351607001121 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 351607001122 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 351607001123 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 351607001124 active site 351607001125 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 351607001126 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 351607001127 phosphate binding site [ion binding]; other site 351607001128 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 351607001129 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 351607001130 hinge; other site 351607001131 active site 351607001132 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607001133 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607001134 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607001135 Chorismate mutase type II; Region: CM_2; cl00693 351607001136 GMP synthase; Reviewed; Region: guaA; PRK00074 351607001137 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 351607001138 AMP/PPi binding site [chemical binding]; other site 351607001139 candidate oxyanion hole; other site 351607001140 catalytic triad [active] 351607001141 potential glutamine specificity residues [chemical binding]; other site 351607001142 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 351607001143 ATP Binding subdomain [chemical binding]; other site 351607001144 Ligand Binding sites [chemical binding]; other site 351607001145 Dimerization subdomain; other site 351607001146 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 351607001147 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 351607001148 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 351607001149 Part of AAA domain; Region: AAA_19; pfam13245 351607001150 AAA domain; Region: AAA_12; pfam13087 351607001151 Family description; Region: UvrD_C_2; pfam13538 351607001152 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 351607001153 Peptidase family M23; Region: Peptidase_M23; pfam01551 351607001154 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 351607001155 B12 binding site [chemical binding]; other site 351607001156 cobalt ligand [ion binding]; other site 351607001157 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351607001158 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607001159 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 351607001160 DNA binding residues [nucleotide binding] 351607001161 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 351607001162 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 351607001163 CoA-ligase; Region: Ligase_CoA; pfam00549 351607001164 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 351607001165 CoA binding domain; Region: CoA_binding; smart00881 351607001166 CoA-ligase; Region: Ligase_CoA; pfam00549 351607001167 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 351607001168 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 351607001169 active site 351607001170 substrate binding site [chemical binding]; other site 351607001171 cosubstrate binding site; other site 351607001172 catalytic site [active] 351607001173 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 351607001174 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 351607001175 purine monophosphate binding site [chemical binding]; other site 351607001176 dimer interface [polypeptide binding]; other site 351607001177 putative catalytic residues [active] 351607001178 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 351607001179 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 351607001180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 351607001181 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 351607001182 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 351607001183 homodimer interface [polypeptide binding]; other site 351607001184 NADP binding site [chemical binding]; other site 351607001185 substrate binding site [chemical binding]; other site 351607001186 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 351607001187 malate dehydrogenase; Reviewed; Region: PRK06223 351607001188 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 351607001189 NAD(P) binding site [chemical binding]; other site 351607001190 dimer interface [polypeptide binding]; other site 351607001191 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351607001192 substrate binding site [chemical binding]; other site 351607001193 isocitrate dehydrogenase; Validated; Region: PRK08299 351607001194 Domain of unknown function DUF21; Region: DUF21; pfam01595 351607001195 FOG: CBS domain [General function prediction only]; Region: COG0517 351607001196 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 351607001197 Transporter associated domain; Region: CorC_HlyC; smart01091 351607001198 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 351607001199 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 351607001200 active site 351607001201 HIGH motif; other site 351607001202 dimer interface [polypeptide binding]; other site 351607001203 KMSKS motif; other site 351607001204 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 351607001205 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 351607001206 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 351607001207 DNA-binding site [nucleotide binding]; DNA binding site 351607001208 RNA-binding motif; other site 351607001209 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 351607001210 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 351607001211 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 351607001212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351607001213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607001214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351607001215 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 351607001216 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 351607001217 active site 351607001218 ATP binding site [chemical binding]; other site 351607001219 substrate binding site [chemical binding]; other site 351607001220 activation loop (A-loop); other site 351607001221 V-type ATP synthase subunit I; Validated; Region: PRK05771 351607001222 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 351607001223 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 351607001224 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 351607001225 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 351607001226 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 351607001227 Bacterial PH domain; Region: DUF304; pfam03703 351607001228 enoyl-CoA hydratase; Provisional; Region: PRK07657 351607001229 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 351607001230 substrate binding site [chemical binding]; other site 351607001231 oxyanion hole (OAH) forming residues; other site 351607001232 trimer interface [polypeptide binding]; other site 351607001233 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 351607001234 active site 351607001235 catalytic residues [active] 351607001236 metal binding site [ion binding]; metal-binding site 351607001237 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 351607001238 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 351607001239 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 351607001240 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351607001241 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 351607001242 Predicted membrane protein [Function unknown]; Region: COG2246 351607001243 GtrA-like protein; Region: GtrA; pfam04138 351607001244 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351607001245 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351607001246 active site 351607001247 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 351607001248 ATP-grasp domain; Region: ATP-grasp; pfam02222 351607001249 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 351607001250 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 351607001251 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351607001252 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 351607001253 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 351607001254 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351607001255 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351607001256 active site 351607001257 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 351607001258 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 351607001259 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 351607001260 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; pfam03816 351607001261 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 351607001262 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 351607001263 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 351607001264 substrate binding site; other site 351607001265 metal-binding site 351607001266 Oligomer interface; other site 351607001267 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 351607001268 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 351607001269 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 351607001270 NAD binding site [chemical binding]; other site 351607001271 substrate binding site [chemical binding]; other site 351607001272 homodimer interface [polypeptide binding]; other site 351607001273 active site 351607001274 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 351607001275 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 351607001276 NADP binding site [chemical binding]; other site 351607001277 active site 351607001278 putative substrate binding site [chemical binding]; other site 351607001279 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 351607001280 amidase catalytic site [active] 351607001281 Zn binding residues [ion binding]; other site 351607001282 substrate binding site [chemical binding]; other site 351607001283 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 351607001284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001285 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 351607001286 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351607001287 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001288 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 351607001289 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351607001290 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 351607001291 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 351607001292 Walker A/P-loop; other site 351607001293 ATP binding site [chemical binding]; other site 351607001294 Q-loop/lid; other site 351607001295 ABC transporter signature motif; other site 351607001296 Walker B; other site 351607001297 D-loop; other site 351607001298 H-loop/switch region; other site 351607001299 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 351607001300 putative carbohydrate binding site [chemical binding]; other site 351607001301 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607001302 active site 351607001303 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351607001304 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351607001305 Probable Catalytic site; other site 351607001306 metal-binding site 351607001307 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 351607001308 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001309 Stage II sporulation protein; Region: SpoIID; pfam08486 351607001310 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 351607001311 active site 351607001312 Glyco_18 domain; Region: Glyco_18; smart00636 351607001313 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 351607001314 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351607001315 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 351607001316 Probable Catalytic site; other site 351607001317 metal-binding site 351607001318 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351607001319 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001320 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 351607001321 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607001322 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607001323 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607001324 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351607001325 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351607001326 NAD(P) binding site [chemical binding]; other site 351607001327 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351607001328 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 351607001329 Bacterial transcriptional regulator; Region: IclR; pfam01614 351607001330 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351607001331 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 351607001332 active site 351607001333 Peptidase family U32; Region: Peptidase_U32; cl03113 351607001334 Dehydratase family; Region: ILVD_EDD; cl00340 351607001335 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 351607001336 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 351607001337 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 351607001338 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 351607001339 dimer interface [polypeptide binding]; other site 351607001340 conserved gate region; other site 351607001341 putative PBP binding loops; other site 351607001342 ABC-ATPase subunit interface; other site 351607001343 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 351607001344 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 351607001345 dimer interface [polypeptide binding]; other site 351607001346 conserved gate region; other site 351607001347 putative PBP binding loops; other site 351607001348 ABC-ATPase subunit interface; other site 351607001349 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351607001350 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351607001351 NAD(P) binding site [chemical binding]; other site 351607001352 catalytic residues [active] 351607001353 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351607001354 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351607001355 Ligand binding site; other site 351607001356 Putative Catalytic site; other site 351607001357 DXD motif; other site 351607001358 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 351607001359 Predicted membrane protein [Function unknown]; Region: COG2246 351607001360 GtrA-like protein; Region: GtrA; pfam04138 351607001361 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 351607001362 Ligand binding site; other site 351607001363 Putative Catalytic site; other site 351607001364 DXD motif; other site 351607001365 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 351607001366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607001367 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351607001368 NAD(P) binding site [chemical binding]; other site 351607001369 active site 351607001370 putative glycosyl transferase; Provisional; Region: PRK10307 351607001371 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 351607001372 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351607001373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001374 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 351607001375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607001376 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 351607001377 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 351607001378 NADP-binding site; other site 351607001379 homotetramer interface [polypeptide binding]; other site 351607001380 substrate binding site [chemical binding]; other site 351607001381 homodimer interface [polypeptide binding]; other site 351607001382 active site 351607001383 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 351607001384 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 351607001385 NADP binding site [chemical binding]; other site 351607001386 active site 351607001387 putative substrate binding site [chemical binding]; other site 351607001388 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 351607001389 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 351607001390 active site 351607001391 Substrate binding site; other site 351607001392 Mg++ binding site; other site 351607001393 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 351607001394 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 351607001395 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 351607001396 putative DNA binding site [nucleotide binding]; other site 351607001397 putative Zn2+ binding site [ion binding]; other site 351607001398 AsnC family; Region: AsnC_trans_reg; pfam01037 351607001399 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 351607001400 Amidinotransferase; Region: Amidinotransf; cl12043 351607001401 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 351607001402 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 351607001403 inhibitor-cofactor binding pocket; inhibition site 351607001404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607001405 catalytic residue [active] 351607001406 LPPG:FO 2-phospho-L-lactate transferase; Provisional; Region: PRK13606 351607001407 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 351607001408 dimer interface [polypeptide binding]; other site 351607001409 phosphate binding site [ion binding]; other site 351607001410 Transcription factor WhiB; Region: Whib; pfam02467 351607001411 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 351607001412 active site 351607001413 catalytic triad [active] 351607001414 oxyanion hole [active] 351607001415 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351607001416 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607001417 active site 351607001418 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 351607001419 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 351607001420 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 351607001421 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 351607001422 active site 351607001423 substrate binding site [chemical binding]; other site 351607001424 metal binding site [ion binding]; metal-binding site 351607001425 Trm112p-like protein; Region: Trm112p; cl01066 351607001426 bifunctional phosphoglucose/phosphomannose isomerase; Validated; Region: PRK08674 351607001427 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 351607001428 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 351607001429 dimer interface [polypeptide binding]; other site 351607001430 active site 351607001431 Adenosylhomocysteinase; Provisional; Region: PTZ00075 351607001432 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 351607001433 homotetramer interface [polypeptide binding]; other site 351607001434 ligand binding site [chemical binding]; other site 351607001435 catalytic site [active] 351607001436 NAD binding site [chemical binding]; other site 351607001437 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 351607001438 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 351607001439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607001440 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 351607001441 NAD(P) binding site [chemical binding]; other site 351607001442 active site 351607001443 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 351607001444 MoaE homodimer interface [polypeptide binding]; other site 351607001445 MoaD interaction [polypeptide binding]; other site 351607001446 active site residues [active] 351607001447 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 351607001448 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 351607001449 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 351607001450 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 351607001451 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607001452 active site 351607001453 catalytic tetrad [active] 351607001454 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 351607001455 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 351607001456 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607001457 active site 351607001458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351607001459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607001460 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 351607001461 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351607001462 putative NAD(P) binding site [chemical binding]; other site 351607001463 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 351607001464 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 351607001465 putative substrate translocation pore; other site 351607001466 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 351607001467 active site 351607001468 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 351607001469 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 351607001470 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 351607001471 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 351607001472 active site 351607001473 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 351607001474 S-adenosylmethionine binding site [chemical binding]; other site 351607001475 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 351607001476 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 351607001477 D-pathway; other site 351607001478 Putative ubiquinol binding site [chemical binding]; other site 351607001479 Low-spin heme (heme b) binding site [chemical binding]; other site 351607001480 Putative water exit pathway; other site 351607001481 Binuclear center (heme o3/CuB) [ion binding]; other site 351607001482 K-pathway; other site 351607001483 Putative proton exit pathway; other site 351607001484 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351607001485 Hemerythrin-like domain; Region: Hr-like; cd12108 351607001486 Fe binding site [ion binding]; other site 351607001487 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 351607001488 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 351607001489 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 351607001490 CPxP motif; other site 351607001491 Cupin domain; Region: Cupin_2; cl17218 351607001492 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 351607001493 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 351607001494 Ferredoxin [Energy production and conversion]; Region: COG1146 351607001495 4Fe-4S binding domain; Region: Fer4; pfam00037 351607001496 Predicted transcriptional regulator [Transcription]; Region: COG2345 351607001497 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 351607001498 putative DNA binding site [nucleotide binding]; other site 351607001499 putative Zn2+ binding site [ion binding]; other site 351607001500 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 351607001501 Multicopper oxidase; Region: Cu-oxidase; pfam00394 351607001502 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 351607001503 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 351607001504 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 351607001505 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 351607001506 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 351607001507 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 351607001508 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 351607001509 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 351607001510 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 351607001511 molybdopterin cofactor binding site; other site 351607001512 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 351607001513 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 351607001514 [4Fe-4S] binding site [ion binding]; other site 351607001515 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 351607001516 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 351607001517 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351607001518 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351607001519 Histidine kinase; Region: HisKA_3; pfam07730 351607001520 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 351607001521 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607001522 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607001523 active site 351607001524 phosphorylation site [posttranslational modification] 351607001525 intermolecular recognition site; other site 351607001526 dimerization interface [polypeptide binding]; other site 351607001527 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 351607001528 DNA binding residues [nucleotide binding] 351607001529 dimerization interface [polypeptide binding]; other site 351607001530 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 351607001531 Ligand Binding Site [chemical binding]; other site 351607001532 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 351607001533 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607001534 Coenzyme A binding pocket [chemical binding]; other site 351607001535 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 351607001536 CoA binding domain; Region: CoA_binding_2; pfam13380 351607001537 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 351607001538 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351607001539 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 351607001540 putative phosphoketolase; Provisional; Region: PRK05261 351607001541 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 351607001542 TPP-binding site; other site 351607001543 XFP C-terminal domain; Region: XFP_C; pfam09363 351607001544 Acetokinase family; Region: Acetate_kinase; cl17229 351607001545 propionate/acetate kinase; Provisional; Region: PRK12379 351607001546 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 351607001547 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 351607001548 CPxP motif; other site 351607001549 Peroxiredoxin family protein [General function prediction only]; Region: COG2210 351607001550 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 351607001551 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607001552 Uncharacterized conserved protein [Function unknown]; Region: COG2353 351607001553 Transcriptional regulators [Transcription]; Region: MarR; COG1846 351607001554 MarR family; Region: MarR_2; pfam12802 351607001555 FOG: CBS domain [General function prediction only]; Region: COG0517 351607001556 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_11; cd04624 351607001557 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 351607001558 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351607001559 active site 351607001560 Predicted GTPases [General function prediction only]; Region: COG1162 351607001561 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 351607001562 GTPase/Zn-binding domain interface [polypeptide binding]; other site 351607001563 GTP/Mg2+ binding site [chemical binding]; other site 351607001564 G4 box; other site 351607001565 G5 box; other site 351607001566 G1 box; other site 351607001567 Switch I region; other site 351607001568 G2 box; other site 351607001569 G3 box; other site 351607001570 Switch II region; other site 351607001571 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 351607001572 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 351607001573 hinge; other site 351607001574 active site 351607001575 Uncharacterized conserved protein [Function unknown]; Region: COG2135 351607001576 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 351607001577 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 351607001578 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607001579 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 351607001580 DNA binding residues [nucleotide binding] 351607001581 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; TIGR03988 351607001582 Domain of unknown function DUF302; Region: DUF302; cl01364 351607001583 OsmC-like protein; Region: OsmC; pfam02566 351607001584 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 351607001585 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351607001586 catalytic residues [active] 351607001587 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 351607001588 putative homotetramer interface [polypeptide binding]; other site 351607001589 putative homodimer interface [polypeptide binding]; other site 351607001590 putative allosteric switch controlling residues; other site 351607001591 putative metal binding site [ion binding]; other site 351607001592 putative homodimer-homodimer interface [polypeptide binding]; other site 351607001593 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 351607001594 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607001595 Zn2+ binding site [ion binding]; other site 351607001596 Mg2+ binding site [ion binding]; other site 351607001597 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607001598 Zn2+ binding site [ion binding]; other site 351607001599 Mg2+ binding site [ion binding]; other site 351607001600 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 351607001601 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351607001602 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351607001603 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 351607001604 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 351607001605 carboxyltransferase (CT) interaction site; other site 351607001606 biotinylation site [posttranslational modification]; other site 351607001607 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351607001608 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 351607001609 ATP binding site [chemical binding]; other site 351607001610 Walker B motif; other site 351607001611 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 351607001612 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351607001613 DNA-binding site [nucleotide binding]; DNA binding site 351607001614 UTRA domain; Region: UTRA; pfam07702 351607001615 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 351607001616 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 351607001617 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 351607001618 dimer interface [polypeptide binding]; other site 351607001619 conserved gate region; other site 351607001620 putative PBP binding loops; other site 351607001621 ABC-ATPase subunit interface; other site 351607001622 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 351607001623 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 351607001624 dimer interface [polypeptide binding]; other site 351607001625 conserved gate region; other site 351607001626 putative PBP binding loops; other site 351607001627 ABC-ATPase subunit interface; other site 351607001628 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351607001629 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 351607001630 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 351607001631 dimer interface [polypeptide binding]; other site 351607001632 active site 351607001633 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 351607001634 dimer interface [polypeptide binding]; other site 351607001635 active site 351607001636 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 351607001637 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 351607001638 active site 351607001639 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 351607001640 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 351607001641 Walker A/P-loop; other site 351607001642 ATP binding site [chemical binding]; other site 351607001643 Q-loop/lid; other site 351607001644 ABC transporter signature motif; other site 351607001645 Walker B; other site 351607001646 D-loop; other site 351607001647 H-loop/switch region; other site 351607001648 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 351607001649 PAS fold; Region: PAS_4; pfam08448 351607001650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 351607001651 Histidine kinase; Region: HisKA_2; pfam07568 351607001652 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 351607001653 ATP binding site [chemical binding]; other site 351607001654 Mg2+ binding site [ion binding]; other site 351607001655 G-X-G motif; other site 351607001656 Transcription factor WhiB; Region: Whib; pfam02467 351607001657 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 351607001658 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 351607001659 hypothetical protein; Provisional; Region: PRK02947 351607001660 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 351607001661 putative active site [active] 351607001662 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 351607001663 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607001664 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351607001665 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 351607001666 DNA binding residues [nucleotide binding] 351607001667 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 351607001668 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351607001669 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 351607001670 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 351607001671 Catalytic site [active] 351607001672 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 351607001673 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 351607001674 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 351607001675 active site 351607001676 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 351607001677 classical (c) SDRs; Region: SDR_c; cd05233 351607001678 NAD(P) binding site [chemical binding]; other site 351607001679 active site 351607001680 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 351607001681 intersubunit interface [polypeptide binding]; other site 351607001682 active site 351607001683 catalytic residue [active] 351607001684 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 351607001685 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351607001686 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 351607001687 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351607001688 DNA-binding site [nucleotide binding]; DNA binding site 351607001689 UTRA domain; Region: UTRA; pfam07702 351607001690 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 351607001691 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351607001692 hypothetical protein; Provisional; Region: PRK02947 351607001693 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 351607001694 putative active site [active] 351607001695 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 351607001696 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 351607001697 putative ligand binding site [chemical binding]; other site 351607001698 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 351607001699 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607001700 Walker A/P-loop; other site 351607001701 ATP binding site [chemical binding]; other site 351607001702 Q-loop/lid; other site 351607001703 ABC transporter signature motif; other site 351607001704 Walker B; other site 351607001705 D-loop; other site 351607001706 H-loop/switch region; other site 351607001707 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 351607001708 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607001709 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607001710 TM-ABC transporter signature motif; other site 351607001711 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607001712 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607001713 TM-ABC transporter signature motif; other site 351607001714 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607001715 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607001716 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607001717 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 351607001718 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 351607001719 Metal-binding active site; metal-binding site 351607001720 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 351607001721 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607001722 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607001723 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607001724 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 351607001725 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351607001726 NAD(P) binding site [chemical binding]; other site 351607001727 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 351607001728 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351607001729 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 351607001730 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 351607001731 TPP-binding site [chemical binding]; other site 351607001732 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 351607001733 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 351607001734 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 351607001735 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 351607001736 E3 interaction surface; other site 351607001737 lipoyl attachment site [posttranslational modification]; other site 351607001738 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351607001739 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351607001740 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 351607001741 alpha subunit interface [polypeptide binding]; other site 351607001742 TPP binding site [chemical binding]; other site 351607001743 heterodimer interface [polypeptide binding]; other site 351607001744 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351607001745 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 351607001746 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 351607001747 tetramer interface [polypeptide binding]; other site 351607001748 TPP-binding site [chemical binding]; other site 351607001749 heterodimer interface [polypeptide binding]; other site 351607001750 phosphorylation loop region [posttranslational modification] 351607001751 FOG: CBS domain [General function prediction only]; Region: COG0517 351607001752 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 351607001753 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 351607001754 iron binding site [ion binding]; other site 351607001755 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 351607001756 putative active site [active] 351607001757 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 351607001758 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 351607001759 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 351607001760 PRC-barrel domain; Region: PRC; pfam05239 351607001761 MgtE intracellular N domain; Region: MgtE_N; pfam03448 351607001762 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 351607001763 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 351607001764 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 351607001765 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 351607001766 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 351607001767 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351607001768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607001769 Walker A/P-loop; other site 351607001770 ATP binding site [chemical binding]; other site 351607001771 Q-loop/lid; other site 351607001772 ABC transporter signature motif; other site 351607001773 Walker B; other site 351607001774 D-loop; other site 351607001775 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 351607001776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607001777 Walker A/P-loop; other site 351607001778 ATP binding site [chemical binding]; other site 351607001779 Q-loop/lid; other site 351607001780 ABC transporter signature motif; other site 351607001781 Walker B; other site 351607001782 D-loop; other site 351607001783 H-loop/switch region; other site 351607001784 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 351607001785 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 351607001786 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 351607001787 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 351607001788 sec-independent translocase; Provisional; Region: PRK01371 351607001789 Lsr2; Region: Lsr2; pfam11774 351607001790 Glyco_18 domain; Region: Glyco_18; smart00636 351607001791 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 351607001792 active site 351607001793 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 351607001794 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 351607001795 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351607001796 MarR family; Region: MarR; pfam01047 351607001797 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 351607001798 putative substrate translocation pore; other site 351607001799 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 351607001800 putative substrate translocation pore; other site 351607001801 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 351607001802 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351607001803 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 351607001804 putative dimer interface [polypeptide binding]; other site 351607001805 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 351607001806 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 351607001807 putative molybdopterin cofactor binding site [chemical binding]; other site 351607001808 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 351607001809 putative molybdopterin cofactor binding site; other site 351607001810 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 351607001811 active site 351607001812 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 351607001813 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 351607001814 Cellulose binding domain; Region: CBM_2; pfam00553 351607001815 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 351607001816 Cellulose binding domain; Region: CBM_3; smart01067 351607001817 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 351607001818 Cellulose binding domain; Region: CBM_2; pfam00553 351607001819 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 351607001820 Cellulose binding domain; Region: CBM_3; smart01067 351607001821 Cellulose binding domain; Region: CBM_2; pfam00553 351607001822 Cellulose binding domain; Region: CBM_3; smart01067 351607001823 Glycosyl hydrolase family 48; Region: Glyco_hydro_48; pfam02011 351607001824 Cellulose binding domain; Region: CBM_2; pfam00553 351607001825 Cellulose binding domain; Region: CBM_3; smart01067 351607001826 Cellulose binding domain; Region: CBM_2; pfam00553 351607001827 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 351607001828 Cellulose binding domain; Region: CBM_2; pfam00553 351607001829 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351607001830 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 351607001831 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607001832 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607001833 metal binding site [ion binding]; metal-binding site 351607001834 active site 351607001835 I-site; other site 351607001836 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351607001837 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351607001838 Uncharacterized conserved protein [Function unknown]; Region: COG3189 351607001839 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351607001840 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 351607001841 substrate binding site [chemical binding]; other site 351607001842 dimer interface [polypeptide binding]; other site 351607001843 ATP binding site [chemical binding]; other site 351607001844 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 351607001845 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 351607001846 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 351607001847 dimer interface [polypeptide binding]; other site 351607001848 active site 351607001849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607001850 Response regulator receiver domain; Region: Response_reg; pfam00072 351607001851 active site 351607001852 phosphorylation site [posttranslational modification] 351607001853 intermolecular recognition site; other site 351607001854 dimerization interface [polypeptide binding]; other site 351607001855 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 351607001856 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 351607001857 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 351607001858 active site 351607001859 HIGH motif; other site 351607001860 KMSK motif region; other site 351607001861 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 351607001862 tRNA binding surface [nucleotide binding]; other site 351607001863 anticodon binding site; other site 351607001864 diaminopimelate decarboxylase; Region: lysA; TIGR01048 351607001865 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 351607001866 active site 351607001867 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351607001868 substrate binding site [chemical binding]; other site 351607001869 catalytic residues [active] 351607001870 dimer interface [polypeptide binding]; other site 351607001871 homoserine dehydrogenase; Provisional; Region: PRK06349 351607001872 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 351607001873 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 351607001874 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 351607001875 threonine synthase; Reviewed; Region: PRK06721 351607001876 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 351607001877 homodimer interface [polypeptide binding]; other site 351607001878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607001879 catalytic residue [active] 351607001880 homoserine kinase; Provisional; Region: PRK01212 351607001881 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 351607001882 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 351607001883 transcription termination factor Rho; Provisional; Region: PRK12608 351607001884 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 351607001885 RNA binding site [nucleotide binding]; other site 351607001886 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 351607001887 multimer interface [polypeptide binding]; other site 351607001888 Walker A motif; other site 351607001889 ATP binding site [chemical binding]; other site 351607001890 Walker B motif; other site 351607001891 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 351607001892 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351607001893 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 351607001894 DXD motif; other site 351607001895 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 351607001896 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 351607001897 active site 351607001898 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 351607001899 homodimer interface [polypeptide binding]; other site 351607001900 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 351607001901 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 351607001902 motif II; other site 351607001903 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 351607001904 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 351607001905 peptide chain release factor 1; Validated; Region: prfA; PRK00591 351607001906 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351607001907 RF-1 domain; Region: RF-1; pfam00472 351607001908 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 351607001909 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 351607001910 S-adenosylmethionine binding site [chemical binding]; other site 351607001911 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 351607001912 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 351607001913 Mg++ binding site [ion binding]; other site 351607001914 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 351607001915 putative catalytic motif [active] 351607001916 substrate binding site [chemical binding]; other site 351607001917 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 351607001918 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 351607001919 F0F1 ATP synthase subunit C; Validated; Region: PRK05880 351607001920 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 351607001921 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 351607001922 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 351607001923 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 351607001924 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351607001925 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 351607001926 beta subunit interaction interface [polypeptide binding]; other site 351607001927 Walker A motif; other site 351607001928 ATP binding site [chemical binding]; other site 351607001929 Walker B motif; other site 351607001930 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351607001931 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 351607001932 core domain interface [polypeptide binding]; other site 351607001933 delta subunit interface [polypeptide binding]; other site 351607001934 epsilon subunit interface [polypeptide binding]; other site 351607001935 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 351607001936 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351607001937 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 351607001938 alpha subunit interaction interface [polypeptide binding]; other site 351607001939 Walker A motif; other site 351607001940 ATP binding site [chemical binding]; other site 351607001941 Walker B motif; other site 351607001942 inhibitor binding site; inhibition site 351607001943 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 351607001944 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 351607001945 gamma subunit interface [polypeptide binding]; other site 351607001946 epsilon subunit interface [polypeptide binding]; other site 351607001947 LBP interface [polypeptide binding]; other site 351607001948 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 351607001949 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 351607001950 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 351607001951 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 351607001952 hinge; other site 351607001953 active site 351607001954 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 351607001955 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 351607001956 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 351607001957 MoxR-like ATPases [General function prediction only]; Region: COG0714 351607001958 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 351607001959 Walker A motif; other site 351607001960 ATP binding site [chemical binding]; other site 351607001961 Walker B motif; other site 351607001962 arginine finger; other site 351607001963 Protein of unknown function DUF58; Region: DUF58; pfam01882 351607001964 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 351607001965 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351607001966 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351607001967 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 351607001968 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 351607001969 Catalytic site [active] 351607001970 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 351607001971 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 351607001972 hypothetical protein; Provisional; Region: PRK03298 351607001973 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 351607001974 GTP binding site; other site 351607001975 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 351607001976 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 351607001977 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 351607001978 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 351607001979 active site 351607001980 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 351607001981 putative acyltransferase; Provisional; Region: PRK05790 351607001982 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 351607001983 dimer interface [polypeptide binding]; other site 351607001984 active site 351607001985 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 351607001986 AAA domain; Region: AAA_31; pfam13614 351607001987 Walker A; other site 351607001988 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 351607001989 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 351607001990 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 351607001991 glycogen branching enzyme; Provisional; Region: PRK05402 351607001992 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 351607001993 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 351607001994 active site 351607001995 catalytic site [active] 351607001996 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 351607001997 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 351607001998 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 351607001999 trehalose synthase; Region: treS_nterm; TIGR02456 351607002000 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 351607002001 active site 351607002002 catalytic site [active] 351607002003 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 351607002004 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 351607002005 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 351607002006 active site 351607002007 homodimer interface [polypeptide binding]; other site 351607002008 catalytic site [active] 351607002009 acceptor binding site [chemical binding]; other site 351607002010 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 351607002011 putative homodimer interface [polypeptide binding]; other site 351607002012 putative active site pocket [active] 351607002013 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 351607002014 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 351607002015 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 351607002016 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 351607002017 active site 351607002018 catalytic site [active] 351607002019 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 351607002020 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 351607002021 substrate binding site [chemical binding]; other site 351607002022 oxyanion hole (OAH) forming residues; other site 351607002023 trimer interface [polypeptide binding]; other site 351607002024 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 351607002025 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 351607002026 Ligand binding site [chemical binding]; other site 351607002027 Electron transfer flavoprotein domain; Region: ETF; pfam01012 351607002028 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 351607002029 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 351607002030 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 351607002031 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 351607002032 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 351607002033 tetramer interface [polypeptide binding]; other site 351607002034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607002035 catalytic residue [active] 351607002036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607002037 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 351607002038 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 351607002039 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607002040 catalytic residue [active] 351607002041 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 351607002042 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 351607002043 Ligand Binding Site [chemical binding]; other site 351607002044 mercuric reductase; Region: MerA; TIGR02053 351607002045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607002046 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351607002047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351607002048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607002049 Cupin domain; Region: Cupin_2; pfam07883 351607002050 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 351607002051 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 351607002052 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 351607002053 nucleotide binding pocket [chemical binding]; other site 351607002054 K-X-D-G motif; other site 351607002055 catalytic site [active] 351607002056 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 351607002057 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 351607002058 Helix-hairpin-helix motif; Region: HHH; pfam00633 351607002059 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 351607002060 Dimer interface [polypeptide binding]; other site 351607002061 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 351607002062 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 351607002063 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 351607002064 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 351607002065 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 351607002066 GatB domain; Region: GatB_Yqey; smart00845 351607002067 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_7; cd12166 351607002068 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 351607002069 putative ligand binding site [chemical binding]; other site 351607002070 putative NAD binding site [chemical binding]; other site 351607002071 catalytic site [active] 351607002072 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 351607002073 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 351607002074 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 351607002075 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 351607002076 dimer interface [polypeptide binding]; other site 351607002077 PYR/PP interface [polypeptide binding]; other site 351607002078 TPP binding site [chemical binding]; other site 351607002079 substrate binding site [chemical binding]; other site 351607002080 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 351607002081 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 351607002082 TPP-binding site [chemical binding]; other site 351607002083 putative dimer interface [polypeptide binding]; other site 351607002084 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 351607002085 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607002086 4Fe-4S binding domain; Region: Fer4; pfam00037 351607002087 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 351607002088 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 351607002089 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351607002090 PYR/PP interface [polypeptide binding]; other site 351607002091 dimer interface [polypeptide binding]; other site 351607002092 TPP binding site [chemical binding]; other site 351607002093 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; cd00368 351607002094 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 351607002095 TPP-binding site [chemical binding]; other site 351607002096 dimer interface [polypeptide binding]; other site 351607002097 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 351607002098 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 351607002099 putative valine binding site [chemical binding]; other site 351607002100 dimer interface [polypeptide binding]; other site 351607002101 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 351607002102 ketol-acid reductoisomerase; Provisional; Region: PRK05479 351607002103 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 351607002104 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 351607002105 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 351607002106 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 351607002107 ligand binding site [chemical binding]; other site 351607002108 NAD binding site [chemical binding]; other site 351607002109 dimerization interface [polypeptide binding]; other site 351607002110 catalytic site [active] 351607002111 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 351607002112 putative L-serine binding site [chemical binding]; other site 351607002113 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 351607002114 tartrate dehydrogenase; Region: TTC; TIGR02089 351607002115 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 351607002116 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 351607002117 homodimer interface [polypeptide binding]; other site 351607002118 substrate-cofactor binding pocket; other site 351607002119 catalytic residue [active] 351607002120 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 351607002121 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 351607002122 active site 351607002123 catalytic residues [active] 351607002124 metal binding site [ion binding]; metal-binding site 351607002125 Domain of unknown function (DUF3497); Region: DUF3497; pfam12003 351607002126 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351607002127 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 351607002128 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 351607002129 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 351607002130 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 351607002131 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351607002132 HIGH motif; other site 351607002133 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 351607002134 active site 351607002135 KMSKS motif; other site 351607002136 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 351607002137 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 351607002138 active site 351607002139 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351607002140 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607002141 Walker A/P-loop; other site 351607002142 ATP binding site [chemical binding]; other site 351607002143 Q-loop/lid; other site 351607002144 ABC transporter signature motif; other site 351607002145 Walker B; other site 351607002146 D-loop; other site 351607002147 H-loop/switch region; other site 351607002148 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607002149 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607002150 TM-ABC transporter signature motif; other site 351607002151 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 351607002152 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 351607002153 ligand binding site [chemical binding]; other site 351607002154 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 351607002155 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 351607002156 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 351607002157 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 351607002158 Class I aldolases; Region: Aldolase_Class_I; cl17187 351607002159 catalytic residue [active] 351607002160 uncharacterized subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_1; cd07774 351607002161 putative N- and C-terminal domain interface [polypeptide binding]; other site 351607002162 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 351607002163 putative active site [active] 351607002164 putative MgATP binding site [chemical binding]; other site 351607002165 catalytic site [active] 351607002166 metal binding site [ion binding]; metal-binding site 351607002167 putative carbohydrate binding site [chemical binding]; other site 351607002168 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 351607002169 FAD binding domain; Region: FAD_binding_4; pfam01565 351607002170 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 351607002171 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 351607002172 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607002173 putative substrate translocation pore; other site 351607002174 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 351607002175 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 351607002176 Probable Catalytic site; other site 351607002177 metal-binding site 351607002178 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351607002179 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607002180 active site 351607002181 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351607002182 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 351607002183 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 351607002184 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 351607002185 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 351607002186 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 351607002187 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 351607002188 NADH dehydrogenase; Region: NADHdh; cl00469 351607002189 16S rRNA methyltransferase B; Provisional; Region: PRK14902 351607002190 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 351607002191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607002192 Walker A/P-loop; other site 351607002193 ATP binding site [chemical binding]; other site 351607002194 Q-loop/lid; other site 351607002195 ABC transporter signature motif; other site 351607002196 Walker B; other site 351607002197 D-loop; other site 351607002198 H-loop/switch region; other site 351607002199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607002200 Walker A/P-loop; other site 351607002201 ATP binding site [chemical binding]; other site 351607002202 Q-loop/lid; other site 351607002203 ABC transporter signature motif; other site 351607002204 Walker B; other site 351607002205 D-loop; other site 351607002206 H-loop/switch region; other site 351607002207 trigger factor; Provisional; Region: tig; PRK01490 351607002208 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351607002209 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 351607002210 Clp protease; Region: CLP_protease; pfam00574 351607002211 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 351607002212 oligomer interface [polypeptide binding]; other site 351607002213 active site residues [active] 351607002214 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 351607002215 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 351607002216 oligomer interface [polypeptide binding]; other site 351607002217 active site residues [active] 351607002218 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 351607002219 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 351607002220 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 351607002221 Walker A motif; other site 351607002222 ATP binding site [chemical binding]; other site 351607002223 Walker B motif; other site 351607002224 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 351607002225 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 351607002226 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351607002227 HIGH motif; other site 351607002228 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351607002229 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 351607002230 active site 351607002231 KMSKS motif; other site 351607002232 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 351607002233 tRNA binding surface [nucleotide binding]; other site 351607002234 anticodon binding site; other site 351607002235 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 351607002236 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 351607002237 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351607002238 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351607002239 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 351607002240 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351607002241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607002242 Walker A/P-loop; other site 351607002243 ATP binding site [chemical binding]; other site 351607002244 Q-loop/lid; other site 351607002245 ABC transporter signature motif; other site 351607002246 Walker B; other site 351607002247 D-loop; other site 351607002248 H-loop/switch region; other site 351607002249 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351607002250 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351607002251 ABC-2 type transporter; Region: ABC2_membrane; cl17235 351607002252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351607002253 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 351607002254 active site 351607002255 multimer interface [polypeptide binding]; other site 351607002256 rod shape-determining protein MreB; Provisional; Region: PRK13927 351607002257 MreB and similar proteins; Region: MreB_like; cd10225 351607002258 nucleotide binding site [chemical binding]; other site 351607002259 Mg binding site [ion binding]; other site 351607002260 putative protofilament interaction site [polypeptide binding]; other site 351607002261 RodZ interaction site [polypeptide binding]; other site 351607002262 rod shape-determining protein MreC; Provisional; Region: PRK13922 351607002263 rod shape-determining protein MreC; Region: MreC; pfam04085 351607002264 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 351607002265 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351607002266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351607002267 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 351607002268 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 351607002269 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 351607002270 B12 binding site [chemical binding]; other site 351607002271 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 351607002272 FeS/SAM binding site; other site 351607002273 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 351607002274 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 351607002275 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 351607002276 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 351607002277 homodimer interface [polypeptide binding]; other site 351607002278 oligonucleotide binding site [chemical binding]; other site 351607002279 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 351607002280 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 351607002281 GTPase CgtA; Reviewed; Region: obgE; PRK12296 351607002282 GTP1/OBG; Region: GTP1_OBG; pfam01018 351607002283 Obg GTPase; Region: Obg; cd01898 351607002284 G1 box; other site 351607002285 GTP/Mg2+ binding site [chemical binding]; other site 351607002286 Switch I region; other site 351607002287 G2 box; other site 351607002288 G3 box; other site 351607002289 Switch II region; other site 351607002290 G4 box; other site 351607002291 G5 box; other site 351607002292 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 351607002293 gamma-glutamyl kinase; Provisional; Region: PRK05429 351607002294 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 351607002295 nucleotide binding site [chemical binding]; other site 351607002296 homotetrameric interface [polypeptide binding]; other site 351607002297 putative phosphate binding site [ion binding]; other site 351607002298 putative allosteric binding site; other site 351607002299 PUA domain; Region: PUA; pfam01472 351607002300 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 351607002301 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 351607002302 putative catalytic cysteine [active] 351607002303 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 351607002304 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 351607002305 active site 351607002306 (T/H)XGH motif; other site 351607002307 Transcriptional regulator [Transcription]; Region: LytR; COG1316 351607002308 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 351607002309 Oligomerisation domain; Region: Oligomerisation; pfam02410 351607002310 Bacitracin resistance protein BacA; Region: BacA; pfam02673 351607002311 Putative esterase; Region: Esterase; pfam00756 351607002312 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 351607002313 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 351607002314 FO synthase; Reviewed; Region: fbiC; PRK09234 351607002315 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 351607002316 FeS/SAM binding site; other site 351607002317 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 351607002318 FeS/SAM binding site; other site 351607002319 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 351607002320 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 351607002321 HIGH motif; other site 351607002322 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 351607002323 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607002324 active site 351607002325 KMSKS motif; other site 351607002326 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 351607002327 tRNA binding surface [nucleotide binding]; other site 351607002328 EDD domain protein, DegV family; Region: DegV; TIGR00762 351607002329 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 351607002330 SLBB domain; Region: SLBB; pfam10531 351607002331 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 351607002332 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 351607002333 Competence protein; Region: Competence; pfam03772 351607002334 hypothetical protein; Reviewed; Region: PRK07914 351607002335 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 351607002336 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 351607002337 GTP-binding protein LepA; Provisional; Region: PRK05433 351607002338 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 351607002339 G1 box; other site 351607002340 putative GEF interaction site [polypeptide binding]; other site 351607002341 GTP/Mg2+ binding site [chemical binding]; other site 351607002342 Switch I region; other site 351607002343 G2 box; other site 351607002344 G3 box; other site 351607002345 Switch II region; other site 351607002346 G4 box; other site 351607002347 G5 box; other site 351607002348 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 351607002349 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 351607002350 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 351607002351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 351607002352 MOSC domain; Region: MOSC; pfam03473 351607002353 coproporphyrinogen III oxidase; Validated; Region: PRK05628 351607002354 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 351607002355 FeS/SAM binding site; other site 351607002356 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 351607002357 HTH domain; Region: HTH_11; cl17392 351607002358 chaperone protein DnaJ; Provisional; Region: PRK14278 351607002359 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 351607002360 HSP70 interaction site [polypeptide binding]; other site 351607002361 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 351607002362 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351607002363 dimer interface [polypeptide binding]; other site 351607002364 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 351607002365 RNA methyltransferase, RsmE family; Region: TIGR00046 351607002366 Sporulation and spore germination; Region: Germane; pfam10646 351607002367 Immunoglobulin-like domain of bacterial spore germination; Region: Gmad2; pfam10648 351607002368 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351607002369 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607002370 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 351607002371 DNA binding residues [nucleotide binding] 351607002372 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 351607002373 nucleotide binding site/active site [active] 351607002374 HIT family signature motif; other site 351607002375 catalytic residue [active] 351607002376 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 351607002377 PhoH-like protein; Region: PhoH; pfam02562 351607002378 metal-binding heat shock protein; Provisional; Region: PRK00016 351607002379 Domain of unknown function DUF21; Region: DUF21; pfam01595 351607002380 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 351607002381 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 351607002382 Transporter associated domain; Region: CorC_HlyC; smart01091 351607002383 GTPase Era; Reviewed; Region: era; PRK00089 351607002384 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 351607002385 G1 box; other site 351607002386 GTP/Mg2+ binding site [chemical binding]; other site 351607002387 Switch I region; other site 351607002388 G2 box; other site 351607002389 Switch II region; other site 351607002390 G3 box; other site 351607002391 G4 box; other site 351607002392 G5 box; other site 351607002393 KH domain; Region: KH_2; pfam07650 351607002394 2-isopropylmalate synthase; Validated; Region: PRK03739 351607002395 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 351607002396 active site 351607002397 catalytic residues [active] 351607002398 metal binding site [ion binding]; metal-binding site 351607002399 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351607002400 Recombination protein O N terminal; Region: RecO_N; pfam11967 351607002401 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 351607002402 Recombination protein O C terminal; Region: RecO_C; pfam02565 351607002403 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 351607002404 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 351607002405 catalytic residue [active] 351607002406 putative FPP diphosphate binding site; other site 351607002407 putative FPP binding hydrophobic cleft; other site 351607002408 dimer interface [polypeptide binding]; other site 351607002409 putative IPP diphosphate binding site; other site 351607002410 CAAX protease self-immunity; Region: Abi; pfam02517 351607002411 glycyl-tRNA synthetase; Provisional; Region: PRK04173 351607002412 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 351607002413 motif 1; other site 351607002414 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 351607002415 dimer interface [polypeptide binding]; other site 351607002416 active site 351607002417 motif 2; other site 351607002418 motif 3; other site 351607002419 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 351607002420 anticodon binding site; other site 351607002421 pyruvate phosphate dikinase; Provisional; Region: PRK09279 351607002422 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 351607002423 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 351607002424 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 351607002425 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 351607002426 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607002427 Zn2+ binding site [ion binding]; other site 351607002428 Mg2+ binding site [ion binding]; other site 351607002429 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 351607002430 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 351607002431 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351607002432 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 351607002433 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 351607002434 DNA primase, catalytic core; Region: dnaG; TIGR01391 351607002435 CHC2 zinc finger; Region: zf-CHC2; pfam01807 351607002436 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 351607002437 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 351607002438 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 351607002439 YtxH-like protein; Region: YtxH; pfam12732 351607002440 Helix-turn-helix domain; Region: HTH_17; pfam12728 351607002441 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 351607002442 AAA domain; Region: AAA_33; pfam13671 351607002443 Walker A motif; other site 351607002444 ATP binding site [chemical binding]; other site 351607002445 Walker B motif; other site 351607002446 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 351607002447 Divergent AAA domain; Region: AAA_4; pfam04326 351607002448 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 351607002449 DNA methylase; Region: N6_N4_Mtase; cl17433 351607002450 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 351607002451 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 351607002452 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 351607002453 ATP binding site [chemical binding]; other site 351607002454 putative Mg++ binding site [ion binding]; other site 351607002455 TraB family; Region: TraB; cl12050 351607002456 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 351607002457 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 351607002458 nucleotide binding region [chemical binding]; other site 351607002459 ATP-binding site [chemical binding]; other site 351607002460 PglZ domain; Region: PglZ; pfam08665 351607002461 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 351607002462 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 351607002463 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 351607002464 active site 351607002465 metal binding site [ion binding]; metal-binding site 351607002466 DNA binding site [nucleotide binding] 351607002467 AAA domain; Region: AAA_23; pfam13476 351607002468 P-loop containing region of AAA domain; Region: AAA_29; cl17516 351607002469 Acyltransferase family; Region: Acyl_transf_3; pfam01757 351607002470 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607002471 metal binding site [ion binding]; metal-binding site 351607002472 active site 351607002473 I-site; other site 351607002474 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607002475 Predicted membrane protein [Function unknown]; Region: COG2323 351607002476 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 351607002477 putative active site [active] 351607002478 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 351607002479 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 351607002480 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 351607002481 carbon storage regulator; Provisional; Region: PRK01712 351607002482 FliW protein; Region: FliW; pfam02623 351607002483 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 351607002484 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351607002485 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351607002486 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 351607002487 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351607002488 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351607002489 FlgN protein; Region: FlgN; pfam05130 351607002490 flagellin; Reviewed; Region: PRK08869 351607002491 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 351607002492 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 351607002493 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 351607002494 Flagellar protein FliS; Region: FliS; cl00654 351607002495 Flagellar basal body protein [Cell motility and secretion]; Region: FlgB; COG1815 351607002496 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 351607002497 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 351607002498 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351607002499 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 351607002500 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 351607002501 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 351607002502 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 351607002503 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 351607002504 FliG C-terminal domain; Region: FliG_C; pfam01706 351607002505 Flagellar assembly protein FliH; Region: FliH; pfam02108 351607002506 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 351607002507 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 351607002508 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 351607002509 Walker A motif/ATP binding site; other site 351607002510 Walker B motif; other site 351607002511 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351607002512 NlpC/P60 family; Region: NLPC_P60; pfam00877 351607002513 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 351607002514 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 351607002515 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351607002516 catalytic residue [active] 351607002517 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 351607002518 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 351607002519 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK09618 351607002520 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 351607002521 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 351607002522 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 351607002523 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 351607002524 Flagellar protein (FlbD); Region: FlbD; pfam06289 351607002525 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 351607002526 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 351607002527 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 351607002528 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 351607002529 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 351607002530 ligand binding site [chemical binding]; other site 351607002531 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 351607002532 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 351607002533 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 351607002534 flagellar motor switch protein FliN; Region: fliN; TIGR02480 351607002535 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 351607002536 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 351607002537 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 351607002538 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 351607002539 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 351607002540 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 351607002541 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 351607002542 FHIPEP family; Region: FHIPEP; pfam00771 351607002543 TIGR03085 family protein; Region: TIGR03085 351607002544 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 351607002545 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351607002546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607002547 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 351607002548 Integral membrane protein TerC family; Region: TerC; cl10468 351607002549 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607002550 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607002551 DNA binding site [nucleotide binding] 351607002552 domain linker motif; other site 351607002553 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 351607002554 ligand binding site [chemical binding]; other site 351607002555 dimerization interface (open form) [polypeptide binding]; other site 351607002556 dimerization interface (closed form) [polypeptide binding]; other site 351607002557 ribulokinase; Provisional; Region: PRK04123 351607002558 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 351607002559 N- and C-terminal domain interface [polypeptide binding]; other site 351607002560 active site 351607002561 MgATP binding site [chemical binding]; other site 351607002562 catalytic site [active] 351607002563 metal binding site [ion binding]; metal-binding site 351607002564 carbohydrate binding site [chemical binding]; other site 351607002565 homodimer interface [polypeptide binding]; other site 351607002566 L-ribulose-5-phosphate 4-epimerase; Validated; Region: PRK06557 351607002567 intersubunit interface [polypeptide binding]; other site 351607002568 active site 351607002569 Zn2+ binding site [ion binding]; other site 351607002570 L-arabinose isomerase; Provisional; Region: PRK02929 351607002571 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 351607002572 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 351607002573 trimer interface [polypeptide binding]; other site 351607002574 putative substrate binding site [chemical binding]; other site 351607002575 putative metal binding site [ion binding]; other site 351607002576 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 351607002577 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 351607002578 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351607002579 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 351607002580 dimer interface [polypeptide binding]; other site 351607002581 active site 351607002582 acyl carrier protein; Provisional; Region: acpP; PRK00982 351607002583 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 351607002584 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 351607002585 dimer interface [polypeptide binding]; other site 351607002586 active site 351607002587 CoA binding pocket [chemical binding]; other site 351607002588 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 351607002589 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 351607002590 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 351607002591 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 351607002592 carboxyltransferase (CT) interaction site; other site 351607002593 biotinylation site [posttranslational modification]; other site 351607002594 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 351607002595 Pirin; Region: Pirin; pfam02678 351607002596 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 351607002597 Predicted amidohydrolase [General function prediction only]; Region: COG0388 351607002598 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 351607002599 putative active site [active] 351607002600 catalytic triad [active] 351607002601 putative dimer interface [polypeptide binding]; other site 351607002602 Cupin domain; Region: Cupin_2; pfam07883 351607002603 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 351607002604 homotrimer interaction site [polypeptide binding]; other site 351607002605 putative active site [active] 351607002606 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 351607002607 ABC-ATPase subunit interface; other site 351607002608 putative PBP binding loops; other site 351607002609 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 351607002610 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 351607002611 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 351607002612 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 351607002613 Walker A/P-loop; other site 351607002614 ATP binding site [chemical binding]; other site 351607002615 Q-loop/lid; other site 351607002616 ABC transporter signature motif; other site 351607002617 Walker B; other site 351607002618 D-loop; other site 351607002619 H-loop/switch region; other site 351607002620 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 351607002621 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 351607002622 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607002623 Uncharacterized conserved protein [Function unknown]; Region: COG2128 351607002624 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351607002625 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607002626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607002627 DNA binding site [nucleotide binding] 351607002628 domain linker motif; other site 351607002629 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 351607002630 ligand binding site [chemical binding]; other site 351607002631 dimerization interface [polypeptide binding]; other site 351607002632 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 351607002633 Uncharacterized conserved protein [Function unknown]; Region: COG5276 351607002634 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 351607002635 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 351607002636 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 351607002637 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351607002638 catalytic loop [active] 351607002639 iron binding site [ion binding]; other site 351607002640 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 351607002641 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351607002642 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 351607002643 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 351607002644 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351607002645 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351607002646 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351607002647 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351607002648 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 351607002649 Uncharacterized conserved protein [Function unknown]; Region: COG0327 351607002650 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 351607002651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 351607002652 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 351607002653 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 351607002654 Putative zinc ribbon domain; Region: DUF164; pfam02591 351607002655 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 351607002656 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 351607002657 RNA/DNA hybrid binding site [nucleotide binding]; other site 351607002658 active site 351607002659 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 351607002660 catalytic core [active] 351607002661 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 351607002662 transmembrane helices; other site 351607002663 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 351607002664 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 351607002665 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 351607002666 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 351607002667 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 351607002668 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 351607002669 putative ligand binding site [chemical binding]; other site 351607002670 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 351607002671 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607002672 TM-ABC transporter signature motif; other site 351607002673 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 351607002674 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 351607002675 TM-ABC transporter signature motif; other site 351607002676 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351607002677 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351607002678 Walker A/P-loop; other site 351607002679 ATP binding site [chemical binding]; other site 351607002680 Q-loop/lid; other site 351607002681 ABC transporter signature motif; other site 351607002682 Walker B; other site 351607002683 D-loop; other site 351607002684 H-loop/switch region; other site 351607002685 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 351607002686 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351607002687 Walker A/P-loop; other site 351607002688 ATP binding site [chemical binding]; other site 351607002689 Q-loop/lid; other site 351607002690 ABC transporter signature motif; other site 351607002691 Walker B; other site 351607002692 D-loop; other site 351607002693 H-loop/switch region; other site 351607002694 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 351607002695 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 351607002696 FAD binding pocket [chemical binding]; other site 351607002697 FAD binding motif [chemical binding]; other site 351607002698 phosphate binding motif [ion binding]; other site 351607002699 NAD binding pocket [chemical binding]; other site 351607002700 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 351607002701 substrate binding site [chemical binding]; other site 351607002702 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 351607002703 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 351607002704 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 351607002705 oligomerization interface [polypeptide binding]; other site 351607002706 active site 351607002707 metal binding site [ion binding]; metal-binding site 351607002708 NAD synthetase; Provisional; Region: PRK13981 351607002709 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 351607002710 multimer interface [polypeptide binding]; other site 351607002711 active site 351607002712 catalytic triad [active] 351607002713 protein interface 1 [polypeptide binding]; other site 351607002714 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 351607002715 homodimer interface [polypeptide binding]; other site 351607002716 NAD binding pocket [chemical binding]; other site 351607002717 ATP binding pocket [chemical binding]; other site 351607002718 Mg binding site [ion binding]; other site 351607002719 active-site loop [active] 351607002720 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 351607002721 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351607002722 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351607002723 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 351607002724 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351607002725 metal binding triad; other site 351607002726 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351607002727 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351607002728 metal binding triad; other site 351607002729 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351607002730 H+ Antiporter protein; Region: 2A0121; TIGR00900 351607002731 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 351607002732 active site 351607002733 glutamine synthetase, type I; Region: GlnA; TIGR00653 351607002734 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351607002735 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351607002736 RDD family; Region: RDD; pfam06271 351607002737 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 351607002738 lipoyl synthase; Provisional; Region: PRK05481 351607002739 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 351607002740 FeS/SAM binding site; other site 351607002741 lipoate-protein ligase B; Provisional; Region: PRK14345 351607002742 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351607002743 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 351607002744 Walker A/P-loop; other site 351607002745 ATP binding site [chemical binding]; other site 351607002746 Q-loop/lid; other site 351607002747 ABC transporter signature motif; other site 351607002748 Walker B; other site 351607002749 D-loop; other site 351607002750 H-loop/switch region; other site 351607002751 Catalytic domain of Protein Kinases; Region: PKc; cd00180 351607002752 active site 351607002753 ATP binding site [chemical binding]; other site 351607002754 substrate binding site [chemical binding]; other site 351607002755 activation loop (A-loop); other site 351607002756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607002757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607002758 metal binding site [ion binding]; metal-binding site 351607002759 active site 351607002760 I-site; other site 351607002761 CAAX protease self-immunity; Region: Abi; pfam02517 351607002762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607002763 TIGR01777 family protein; Region: yfcH 351607002764 NAD(P) binding site [chemical binding]; other site 351607002765 active site 351607002766 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 351607002767 E3 interaction surface; other site 351607002768 lipoyl attachment site [posttranslational modification]; other site 351607002769 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 351607002770 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 351607002771 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 351607002772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607002773 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 351607002774 multifunctional aminopeptidase A; Provisional; Region: PRK00913 351607002775 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 351607002776 interface (dimer of trimers) [polypeptide binding]; other site 351607002777 Substrate-binding/catalytic site; other site 351607002778 Zn-binding sites [ion binding]; other site 351607002779 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 351607002780 shikimate kinase; Reviewed; Region: aroK; PRK00131 351607002781 ADP binding site [chemical binding]; other site 351607002782 magnesium binding site [ion binding]; other site 351607002783 putative shikimate binding site; other site 351607002784 cobalamin synthase; Reviewed; Region: cobS; PRK00235 351607002785 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 351607002786 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 351607002787 putative dimer interface [polypeptide binding]; other site 351607002788 active site pocket [active] 351607002789 putative cataytic base [active] 351607002790 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 351607002791 homotrimer interface [polypeptide binding]; other site 351607002792 Walker A motif; other site 351607002793 GTP binding site [chemical binding]; other site 351607002794 Walker B motif; other site 351607002795 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 351607002796 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351607002797 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 351607002798 Walker A/P-loop; other site 351607002799 ATP binding site [chemical binding]; other site 351607002800 Q-loop/lid; other site 351607002801 ABC transporter signature motif; other site 351607002802 Walker B; other site 351607002803 D-loop; other site 351607002804 H-loop/switch region; other site 351607002805 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351607002806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607002807 Walker A/P-loop; other site 351607002808 ATP binding site [chemical binding]; other site 351607002809 Q-loop/lid; other site 351607002810 ABC transporter signature motif; other site 351607002811 Walker B; other site 351607002812 D-loop; other site 351607002813 H-loop/switch region; other site 351607002814 Cobalt transport protein; Region: CbiQ; cl00463 351607002815 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 351607002816 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 351607002817 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607002818 active site 351607002819 catalytic tetrad [active] 351607002820 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 351607002821 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 351607002822 heat shock protein HtpX; Provisional; Region: PRK02391 351607002823 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 351607002824 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351607002825 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 351607002826 substrate binding site [chemical binding]; other site 351607002827 ATP binding site [chemical binding]; other site 351607002828 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 351607002829 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 351607002830 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 351607002831 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 351607002832 D-pathway; other site 351607002833 Putative ubiquinol binding site [chemical binding]; other site 351607002834 Low-spin heme (heme b) binding site [chemical binding]; other site 351607002835 Putative water exit pathway; other site 351607002836 Binuclear center (heme o3/CuB) [ion binding]; other site 351607002837 K-pathway; other site 351607002838 Putative proton exit pathway; other site 351607002839 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 351607002840 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 351607002841 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 351607002842 Catalytic site [active] 351607002843 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351607002844 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351607002845 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351607002846 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351607002847 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351607002848 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 351607002849 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 351607002850 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 351607002851 intrachain domain interface; other site 351607002852 interchain domain interface [polypeptide binding]; other site 351607002853 heme bL binding site [chemical binding]; other site 351607002854 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 351607002855 heme bH binding site [chemical binding]; other site 351607002856 Qo binding site; other site 351607002857 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 351607002858 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 351607002859 iron-sulfur cluster [ion binding]; other site 351607002860 [2Fe-2S] cluster binding site [ion binding]; other site 351607002861 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 351607002862 Cytochrome c; Region: Cytochrom_C; pfam00034 351607002863 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 351607002864 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 351607002865 Subunit I/III interface [polypeptide binding]; other site 351607002866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 351607002867 active site 351607002868 phosphorylation site [posttranslational modification] 351607002869 intermolecular recognition site; other site 351607002870 dimerization interface [polypeptide binding]; other site 351607002871 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 351607002872 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 351607002873 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 351607002874 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351607002875 AsnC family; Region: AsnC_trans_reg; pfam01037 351607002876 hypothetical protein; Validated; Region: PRK07883 351607002877 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 351607002878 active site 351607002879 catalytic site [active] 351607002880 substrate binding site [chemical binding]; other site 351607002881 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 351607002882 GIY-YIG motif/motif A; other site 351607002883 active site 351607002884 catalytic site [active] 351607002885 putative DNA binding site [nucleotide binding]; other site 351607002886 metal binding site [ion binding]; metal-binding site 351607002887 endoglucanase; Region: PLN02420 351607002888 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 351607002889 Cellulose binding domain; Region: CBM_2; pfam00553 351607002890 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351607002891 NlpC/P60 family; Region: NLPC_P60; pfam00877 351607002892 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 351607002893 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607002894 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607002895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607002896 active site 351607002897 phosphorylation site [posttranslational modification] 351607002898 intermolecular recognition site; other site 351607002899 dimerization interface [polypeptide binding]; other site 351607002900 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 351607002901 DNA binding residues [nucleotide binding] 351607002902 dimerization interface [polypeptide binding]; other site 351607002903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351607002904 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 351607002905 ATP binding site [chemical binding]; other site 351607002906 Mg2+ binding site [ion binding]; other site 351607002907 G-X-G motif; other site 351607002908 AAA domain; Region: AAA_31; pfam13614 351607002909 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 351607002910 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 351607002911 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 351607002912 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 351607002913 acyl-activating enzyme (AAE) consensus motif; other site 351607002914 putative AMP binding site [chemical binding]; other site 351607002915 putative active site [active] 351607002916 putative CoA binding site [chemical binding]; other site 351607002917 putative protein serine/threonine phosphatase; Provisional; Region: PRK14559 351607002918 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 351607002919 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351607002920 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 351607002921 putative catalytic site [active] 351607002922 putative metal binding site [ion binding]; other site 351607002923 putative phosphate binding site [ion binding]; other site 351607002924 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351607002925 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351607002926 putative acyl-acceptor binding pocket; other site 351607002927 phosphofructokinase; Region: PFK_mixed; TIGR02483 351607002928 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 351607002929 active site 351607002930 ADP/pyrophosphate binding site [chemical binding]; other site 351607002931 dimerization interface [polypeptide binding]; other site 351607002932 allosteric effector site; other site 351607002933 fructose-1,6-bisphosphate binding site; other site 351607002934 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 351607002935 AP endonuclease family 2; Region: AP2Ec; smart00518 351607002936 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 351607002937 AP (apurinic/apyrimidinic) site pocket; other site 351607002938 DNA interaction; other site 351607002939 Metal-binding active site; metal-binding site 351607002940 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 351607002941 Catalytic domain of Protein Kinases; Region: PKc; cd00180 351607002942 active site 351607002943 ATP binding site [chemical binding]; other site 351607002944 substrate binding site [chemical binding]; other site 351607002945 activation loop (A-loop); other site 351607002946 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 351607002947 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 351607002948 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 351607002949 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 351607002950 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 351607002951 ThiS interaction site; other site 351607002952 putative active site [active] 351607002953 tetramer interface [polypeptide binding]; other site 351607002954 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 351607002955 thiS-thiF/thiG interaction site; other site 351607002956 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607002957 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 351607002958 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 351607002959 thiamine phosphate binding site [chemical binding]; other site 351607002960 active site 351607002961 pyrophosphate binding site [ion binding]; other site 351607002962 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 351607002963 FAD binding site [chemical binding]; other site 351607002964 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 351607002965 putative deacylase active site [active] 351607002966 DNA Polymerase Y-family; Region: PolY_like; cd03468 351607002967 active site 351607002968 DNA binding site [nucleotide binding] 351607002969 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 351607002970 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 351607002971 active site 351607002972 PHP Thumb interface [polypeptide binding]; other site 351607002973 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 351607002974 generic binding surface II; other site 351607002975 generic binding surface I; other site 351607002976 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 351607002977 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 351607002978 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 351607002979 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 351607002980 Protein of unknown function DUF58; Region: DUF58; pfam01882 351607002981 MoxR-like ATPases [General function prediction only]; Region: COG0714 351607002982 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 351607002983 Walker A motif; other site 351607002984 ATP binding site [chemical binding]; other site 351607002985 Walker B motif; other site 351607002986 arginine finger; other site 351607002987 cell division protein MraZ; Reviewed; Region: PRK00326 351607002988 MraZ protein; Region: MraZ; pfam02381 351607002989 MraZ protein; Region: MraZ; pfam02381 351607002990 MraW methylase family; Region: Methyltransf_5; cl17771 351607002991 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 351607002992 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 351607002993 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 351607002994 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351607002995 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 351607002996 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351607002997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351607002998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351607002999 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 351607003000 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351607003001 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351607003002 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351607003003 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 351607003004 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 351607003005 Mg++ binding site [ion binding]; other site 351607003006 putative catalytic motif [active] 351607003007 putative substrate binding site [chemical binding]; other site 351607003008 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 351607003009 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351607003010 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351607003011 cell division protein FtsW; Region: ftsW; TIGR02614 351607003012 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 351607003013 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 351607003014 active site 351607003015 homodimer interface [polypeptide binding]; other site 351607003016 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 351607003017 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 351607003018 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 351607003019 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 351607003020 cell division protein FtsZ; Validated; Region: PRK09330 351607003021 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 351607003022 nucleotide binding site [chemical binding]; other site 351607003023 SulA interaction site; other site 351607003024 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 351607003025 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 351607003026 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 351607003027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 351607003028 catalytic residue [active] 351607003029 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 351607003030 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351607003031 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 351607003032 ligand binding site [chemical binding]; other site 351607003033 flexible hinge region; other site 351607003034 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 351607003035 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 351607003036 FAD binding pocket [chemical binding]; other site 351607003037 FAD binding motif [chemical binding]; other site 351607003038 phosphate binding motif [ion binding]; other site 351607003039 beta-alpha-beta structure motif; other site 351607003040 NAD binding pocket [chemical binding]; other site 351607003041 Iron coordination center [ion binding]; other site 351607003042 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 351607003043 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 351607003044 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 351607003045 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 351607003046 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cd00518 351607003047 nickel binding site [ion binding]; other site 351607003048 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 351607003049 EamA-like transporter family; Region: EamA; cl17759 351607003050 Protein of unknown function (DUF552); Region: DUF552; pfam04472 351607003051 DivIVA protein; Region: DivIVA; pfam05103 351607003052 DivIVA domain; Region: DivI1A_domain; TIGR03544 351607003053 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 351607003054 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607003055 active site 351607003056 HIGH motif; other site 351607003057 nucleotide binding site [chemical binding]; other site 351607003058 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 351607003059 active site 351607003060 KMSKS motif; other site 351607003061 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 351607003062 tRNA binding surface [nucleotide binding]; other site 351607003063 anticodon binding site; other site 351607003064 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 351607003065 lipoprotein signal peptidase; Provisional; Region: PRK14787 351607003066 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 351607003067 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 351607003068 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 351607003069 RNA binding surface [nucleotide binding]; other site 351607003070 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 351607003071 active site 351607003072 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 351607003073 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 351607003074 biotin synthase; Validated; Region: PRK06256 351607003075 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 351607003076 FeS/SAM binding site; other site 351607003077 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 351607003078 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 351607003079 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 351607003080 inhibitor-cofactor binding pocket; inhibition site 351607003081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003082 catalytic residue [active] 351607003083 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 351607003084 Cytochrome P450; Region: p450; cl12078 351607003085 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607003086 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607003087 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 351607003088 classical (c) SDRs; Region: SDR_c; cd05233 351607003089 NAD(P) binding site [chemical binding]; other site 351607003090 active site 351607003091 Cupin domain; Region: Cupin_2; pfam07883 351607003092 Cupin domain; Region: Cupin_2; pfam07883 351607003093 hypothetical protein; Provisional; Region: PRK08204 351607003094 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 351607003095 active site 351607003096 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 351607003097 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 351607003098 active site 351607003099 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 351607003100 sequence-specific DNA binding site [nucleotide binding]; other site 351607003101 salt bridge; other site 351607003102 Cupin domain; Region: Cupin_2; pfam07883 351607003103 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 351607003104 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351607003105 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 351607003106 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 351607003107 tetramer interface [polypeptide binding]; other site 351607003108 TPP-binding site [chemical binding]; other site 351607003109 heterodimer interface [polypeptide binding]; other site 351607003110 phosphorylation loop region [posttranslational modification] 351607003111 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 351607003112 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 351607003113 alpha subunit interface [polypeptide binding]; other site 351607003114 TPP binding site [chemical binding]; other site 351607003115 heterodimer interface [polypeptide binding]; other site 351607003116 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351607003117 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 351607003118 E3 interaction surface; other site 351607003119 lipoyl attachment site [posttranslational modification]; other site 351607003120 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607003121 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607003122 TM-ABC transporter signature motif; other site 351607003123 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 351607003124 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607003125 Walker A/P-loop; other site 351607003126 ATP binding site [chemical binding]; other site 351607003127 Q-loop/lid; other site 351607003128 ABC transporter signature motif; other site 351607003129 Walker B; other site 351607003130 D-loop; other site 351607003131 H-loop/switch region; other site 351607003132 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 351607003133 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 351607003134 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 351607003135 ligand binding site [chemical binding]; other site 351607003136 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 351607003137 AAA domain; Region: AAA_26; pfam13500 351607003138 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 351607003139 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 351607003140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607003141 catalytic residue [active] 351607003142 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 351607003143 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 351607003144 active site 351607003145 PHP Thumb interface [polypeptide binding]; other site 351607003146 metal binding site [ion binding]; metal-binding site 351607003147 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 351607003148 generic binding surface II; other site 351607003149 generic binding surface I; other site 351607003150 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 351607003151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607003152 Walker A/P-loop; other site 351607003153 ATP binding site [chemical binding]; other site 351607003154 Q-loop/lid; other site 351607003155 ABC transporter signature motif; other site 351607003156 Walker B; other site 351607003157 D-loop; other site 351607003158 H-loop/switch region; other site 351607003159 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 351607003160 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 351607003161 histidinol dehydrogenase; Region: hisD; TIGR00069 351607003162 NAD binding site [chemical binding]; other site 351607003163 dimerization interface [polypeptide binding]; other site 351607003164 product binding site; other site 351607003165 substrate binding site [chemical binding]; other site 351607003166 zinc binding site [ion binding]; other site 351607003167 catalytic residues [active] 351607003168 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 351607003169 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 351607003170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003171 homodimer interface [polypeptide binding]; other site 351607003172 catalytic residue [active] 351607003173 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 351607003174 putative active site pocket [active] 351607003175 4-fold oligomerization interface [polypeptide binding]; other site 351607003176 metal binding residues [ion binding]; metal-binding site 351607003177 3-fold/trimer interface [polypeptide binding]; other site 351607003178 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 351607003179 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 351607003180 putative active site [active] 351607003181 oxyanion strand; other site 351607003182 catalytic triad [active] 351607003183 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 351607003184 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351607003185 catalytic residues [active] 351607003186 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 351607003187 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 351607003188 Na binding site [ion binding]; other site 351607003189 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 351607003190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607003191 active site 351607003192 phosphorylation site [posttranslational modification] 351607003193 intermolecular recognition site; other site 351607003194 dimerization interface [polypeptide binding]; other site 351607003195 LytTr DNA-binding domain; Region: LytTR; smart00850 351607003196 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 351607003197 acetyl-CoA synthetase; Provisional; Region: PRK00174 351607003198 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 351607003199 active site 351607003200 CoA binding site [chemical binding]; other site 351607003201 acyl-activating enzyme (AAE) consensus motif; other site 351607003202 AMP binding site [chemical binding]; other site 351607003203 acetate binding site [chemical binding]; other site 351607003204 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 351607003205 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 351607003206 substrate binding site [chemical binding]; other site 351607003207 glutamase interaction surface [polypeptide binding]; other site 351607003208 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 351607003209 anthranilate synthase component I; Provisional; Region: PRK13571 351607003210 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 351607003211 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 351607003212 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 351607003213 active site 351607003214 ribulose/triose binding site [chemical binding]; other site 351607003215 phosphate binding site [ion binding]; other site 351607003216 substrate (anthranilate) binding pocket [chemical binding]; other site 351607003217 product (indole) binding pocket [chemical binding]; other site 351607003218 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 351607003219 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 351607003220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003221 catalytic residue [active] 351607003222 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 351607003223 substrate binding site [chemical binding]; other site 351607003224 active site 351607003225 catalytic residues [active] 351607003226 heterodimer interface [polypeptide binding]; other site 351607003227 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 351607003228 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 351607003229 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 351607003230 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 351607003231 active site 351607003232 dimer interface [polypeptide binding]; other site 351607003233 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 351607003234 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 351607003235 active site 351607003236 FMN binding site [chemical binding]; other site 351607003237 substrate binding site [chemical binding]; other site 351607003238 3Fe-4S cluster binding site [ion binding]; other site 351607003239 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 351607003240 domain interface; other site 351607003241 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 351607003242 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607003243 pyruvate kinase; Provisional; Region: PRK06247 351607003244 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 351607003245 domain interfaces; other site 351607003246 active site 351607003247 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 351607003248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607003249 active site 351607003250 phosphorylation site [posttranslational modification] 351607003251 intermolecular recognition site; other site 351607003252 dimerization interface [polypeptide binding]; other site 351607003253 ANTAR domain; Region: ANTAR; pfam03861 351607003254 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 351607003255 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 351607003256 dimerization interface [polypeptide binding]; other site 351607003257 ligand binding site [chemical binding]; other site 351607003258 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607003259 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 351607003260 TM-ABC transporter signature motif; other site 351607003261 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 351607003262 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 351607003263 TM-ABC transporter signature motif; other site 351607003264 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351607003265 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 351607003266 Walker A/P-loop; other site 351607003267 ATP binding site [chemical binding]; other site 351607003268 Q-loop/lid; other site 351607003269 ABC transporter signature motif; other site 351607003270 Walker B; other site 351607003271 D-loop; other site 351607003272 H-loop/switch region; other site 351607003273 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 351607003274 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 351607003275 Walker A/P-loop; other site 351607003276 ATP binding site [chemical binding]; other site 351607003277 Q-loop/lid; other site 351607003278 ABC transporter signature motif; other site 351607003279 Walker B; other site 351607003280 D-loop; other site 351607003281 H-loop/switch region; other site 351607003282 DNA polymerase I; Provisional; Region: PRK05755 351607003283 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 351607003284 active site 351607003285 metal binding site 1 [ion binding]; metal-binding site 351607003286 putative 5' ssDNA interaction site; other site 351607003287 metal binding site 3; metal-binding site 351607003288 metal binding site 2 [ion binding]; metal-binding site 351607003289 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 351607003290 putative DNA binding site [nucleotide binding]; other site 351607003291 putative metal binding site [ion binding]; other site 351607003292 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 351607003293 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 351607003294 active site 351607003295 DNA binding site [nucleotide binding] 351607003296 catalytic site [active] 351607003297 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 351607003298 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 351607003299 RNA binding site [nucleotide binding]; other site 351607003300 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 351607003301 RNA binding site [nucleotide binding]; other site 351607003302 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 351607003303 RNA binding site [nucleotide binding]; other site 351607003304 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 351607003305 RNA binding site [nucleotide binding]; other site 351607003306 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 351607003307 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 351607003308 CoA-binding site [chemical binding]; other site 351607003309 ATP-binding [chemical binding]; other site 351607003310 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 351607003311 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351607003312 NAD(P) binding site [chemical binding]; other site 351607003313 catalytic residues [active] 351607003314 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 351607003315 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 351607003316 inhibitor-cofactor binding pocket; inhibition site 351607003317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003318 catalytic residue [active] 351607003319 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 351607003320 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 351607003321 catalytic triad [active] 351607003322 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 351607003323 Cytochrome P450; Region: p450; cl12078 351607003324 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 351607003325 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351607003326 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351607003327 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 351607003328 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351607003329 MarR family; Region: MarR_2; cl17246 351607003330 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 351607003331 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 351607003332 catalytic triad [active] 351607003333 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351607003334 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 351607003335 NAD binding site [chemical binding]; other site 351607003336 catalytic residues [active] 351607003337 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 351607003338 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 351607003339 active site 351607003340 metal binding site [ion binding]; metal-binding site 351607003341 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 351607003342 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 351607003343 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 351607003344 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 351607003345 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 351607003346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607003347 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 351607003348 excinuclease ABC subunit B; Provisional; Region: PRK05298 351607003349 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 351607003350 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 351607003351 nucleotide binding region [chemical binding]; other site 351607003352 ATP-binding site [chemical binding]; other site 351607003353 Ultra-violet resistance protein B; Region: UvrB; pfam12344 351607003354 hypothetical protein; Provisional; Region: PRK01346 351607003355 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 351607003356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351607003357 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 351607003358 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351607003359 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 351607003360 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 351607003361 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 351607003362 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 351607003363 GIY-YIG motif/motif A; other site 351607003364 active site 351607003365 catalytic site [active] 351607003366 putative DNA binding site [nucleotide binding]; other site 351607003367 metal binding site [ion binding]; metal-binding site 351607003368 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 351607003369 Helix-hairpin-helix motif; Region: HHH; pfam00633 351607003370 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 351607003371 shikimate kinase; Reviewed; Region: aroK; PRK00131 351607003372 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 351607003373 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 351607003374 putative substrate binding pocket [chemical binding]; other site 351607003375 dimer interface [polypeptide binding]; other site 351607003376 phosphate binding site [ion binding]; other site 351607003377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 351607003378 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 351607003379 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 351607003380 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 351607003381 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 351607003382 bifunctional phosphoglycerate kinase/triosephosphate isomerase; Provisional; Region: PRK13962 351607003383 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 351607003384 substrate binding site [chemical binding]; other site 351607003385 hinge regions; other site 351607003386 ADP binding site [chemical binding]; other site 351607003387 catalytic site [active] 351607003388 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 351607003389 substrate binding site [chemical binding]; other site 351607003390 dimer interface [polypeptide binding]; other site 351607003391 catalytic triad [active] 351607003392 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 351607003393 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 351607003394 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 351607003395 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 351607003396 ABC-ATPase subunit interface; other site 351607003397 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 351607003398 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 351607003399 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 351607003400 dimer interface [polypeptide binding]; other site 351607003401 conserved gate region; other site 351607003402 putative PBP binding loops; other site 351607003403 ABC-ATPase subunit interface; other site 351607003404 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 351607003405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351607003406 Walker A/P-loop; other site 351607003407 ATP binding site [chemical binding]; other site 351607003408 Q-loop/lid; other site 351607003409 ABC transporter signature motif; other site 351607003410 Walker B; other site 351607003411 D-loop; other site 351607003412 H-loop/switch region; other site 351607003413 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 351607003414 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 351607003415 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 351607003416 Walker A/P-loop; other site 351607003417 ATP binding site [chemical binding]; other site 351607003418 Q-loop/lid; other site 351607003419 ABC transporter signature motif; other site 351607003420 Walker B; other site 351607003421 D-loop; other site 351607003422 H-loop/switch region; other site 351607003423 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 351607003424 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 351607003425 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 351607003426 putative active site [active] 351607003427 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 351607003428 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 351607003429 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 351607003430 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 351607003431 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 351607003432 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 351607003433 active site 351607003434 dimer interface [polypeptide binding]; other site 351607003435 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 351607003436 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 351607003437 putative active site [active] 351607003438 transaldolase; Provisional; Region: PRK03903 351607003439 catalytic residue [active] 351607003440 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 351607003441 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 351607003442 TPP-binding site [chemical binding]; other site 351607003443 dimer interface [polypeptide binding]; other site 351607003444 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 351607003445 PYR/PP interface [polypeptide binding]; other site 351607003446 dimer interface [polypeptide binding]; other site 351607003447 TPP binding site [chemical binding]; other site 351607003448 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351607003449 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 351607003450 UbiA prenyltransferase family; Region: UbiA; pfam01040 351607003451 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 351607003452 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351607003453 nucleotide binding site [chemical binding]; other site 351607003454 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 351607003455 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607003456 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607003457 TM-ABC transporter signature motif; other site 351607003458 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 351607003459 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607003460 Walker A/P-loop; other site 351607003461 ATP binding site [chemical binding]; other site 351607003462 Q-loop/lid; other site 351607003463 ABC transporter signature motif; other site 351607003464 Walker B; other site 351607003465 D-loop; other site 351607003466 H-loop/switch region; other site 351607003467 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 351607003468 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 351607003469 putative ligand binding site [chemical binding]; other site 351607003470 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 351607003471 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 351607003472 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 351607003473 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 351607003474 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 351607003475 putative DNA binding site [nucleotide binding]; other site 351607003476 putative Zn2+ binding site [ion binding]; other site 351607003477 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 351607003478 FeS assembly protein SufB; Region: sufB; TIGR01980 351607003479 FeS assembly protein SufD; Region: sufD; TIGR01981 351607003480 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 351607003481 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 351607003482 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 351607003483 Walker A/P-loop; other site 351607003484 ATP binding site [chemical binding]; other site 351607003485 Q-loop/lid; other site 351607003486 ABC transporter signature motif; other site 351607003487 Walker B; other site 351607003488 D-loop; other site 351607003489 H-loop/switch region; other site 351607003490 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 351607003491 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 351607003492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607003493 catalytic residue [active] 351607003494 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 351607003495 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 351607003496 trimerization site [polypeptide binding]; other site 351607003497 active site 351607003498 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 351607003499 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 351607003500 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 351607003501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607003502 Walker A/P-loop; other site 351607003503 ATP binding site [chemical binding]; other site 351607003504 Q-loop/lid; other site 351607003505 ABC transporter signature motif; other site 351607003506 Walker B; other site 351607003507 D-loop; other site 351607003508 H-loop/switch region; other site 351607003509 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 351607003510 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 351607003511 quinolinate synthetase; Provisional; Region: PRK09375 351607003512 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 351607003513 Dodecin; Region: Dodecin; pfam07311 351607003514 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 351607003515 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 351607003516 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 351607003517 anti sigma factor interaction site; other site 351607003518 regulatory phosphorylation site [posttranslational modification]; other site 351607003519 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 351607003520 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 351607003521 NAD(P) binding site [chemical binding]; other site 351607003522 homotetramer interface [polypeptide binding]; other site 351607003523 homodimer interface [polypeptide binding]; other site 351607003524 active site 351607003525 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 351607003526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607003527 NAD(P) binding site [chemical binding]; other site 351607003528 active site 351607003529 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 351607003530 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351607003531 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 351607003532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607003533 Walker A/P-loop; other site 351607003534 ATP binding site [chemical binding]; other site 351607003535 Q-loop/lid; other site 351607003536 ABC transporter signature motif; other site 351607003537 Walker B; other site 351607003538 D-loop; other site 351607003539 H-loop/switch region; other site 351607003540 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 351607003541 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 351607003542 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 351607003543 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 351607003544 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351607003545 catalytic residue [active] 351607003546 hypothetical protein; Provisional; Region: PRK10621 351607003547 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351607003548 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 351607003549 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 351607003550 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607003551 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607003552 metal binding site [ion binding]; metal-binding site 351607003553 active site 351607003554 I-site; other site 351607003555 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 351607003556 TPR motif; other site 351607003557 TPR repeat; Region: TPR_11; pfam13414 351607003558 binding surface 351607003559 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 351607003560 catalytic site [active] 351607003561 putative active site [active] 351607003562 putative substrate binding site [chemical binding]; other site 351607003563 hypothetical protein; Provisional; Region: PRK07906 351607003564 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 351607003565 putative metal binding site [ion binding]; other site 351607003566 Family description; Region: UvrD_C_2; pfam13538 351607003567 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 351607003568 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607003569 active site 351607003570 catalytic tetrad [active] 351607003571 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 351607003572 catalytic core [active] 351607003573 conserved hypothetical protein; Region: TIGR03847 351607003574 conserved hypothetical protein; Region: TIGR03843 351607003575 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607003576 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 351607003577 active site 351607003578 HIGH motif; other site 351607003579 nucleotide binding site [chemical binding]; other site 351607003580 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607003581 active site 351607003582 KMSKS motif; other site 351607003583 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 351607003584 tRNA binding surface [nucleotide binding]; other site 351607003585 anticodon binding site; other site 351607003586 PAC2 family; Region: PAC2; pfam09754 351607003587 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 351607003588 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 351607003589 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 351607003590 substrate binding pocket [chemical binding]; other site 351607003591 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 351607003592 B12 binding site [chemical binding]; other site 351607003593 cobalt ligand [ion binding]; other site 351607003594 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 351607003595 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 351607003596 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 351607003597 motif II; other site 351607003598 RES domain; Region: RES; pfam08808 351607003599 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351607003600 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351607003601 FtsX-like permease family; Region: FtsX; pfam02687 351607003602 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351607003603 FtsX-like permease family; Region: FtsX; pfam02687 351607003604 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351607003605 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351607003606 Walker A/P-loop; other site 351607003607 ATP binding site [chemical binding]; other site 351607003608 Q-loop/lid; other site 351607003609 ABC transporter signature motif; other site 351607003610 Walker B; other site 351607003611 D-loop; other site 351607003612 H-loop/switch region; other site 351607003613 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 351607003614 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 351607003615 active site 351607003616 Peptidase family M50; Region: Peptidase_M50; pfam02163 351607003617 putative substrate binding region [chemical binding]; other site 351607003618 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 351607003619 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 351607003620 S-adenosylmethionine binding site [chemical binding]; other site 351607003621 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 351607003622 proteasome ATPase; Region: pup_AAA; TIGR03689 351607003623 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 351607003624 Walker A motif; other site 351607003625 ATP binding site [chemical binding]; other site 351607003626 Walker B motif; other site 351607003627 arginine finger; other site 351607003628 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 351607003629 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 351607003630 nudix motif; other site 351607003631 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 351607003632 Pup-like protein; Region: Pup; pfam05639 351607003633 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 351607003634 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 351607003635 active site 351607003636 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 351607003637 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 351607003638 active site 351607003639 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 351607003640 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 351607003641 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 351607003642 hinge; other site 351607003643 active site 351607003644 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 351607003645 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 351607003646 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 351607003647 acyl-activating enzyme (AAE) consensus motif; other site 351607003648 putative AMP binding site [chemical binding]; other site 351607003649 putative active site [active] 351607003650 putative CoA binding site [chemical binding]; other site 351607003651 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351607003652 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351607003653 active site 351607003654 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 351607003655 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 351607003656 generic binding surface II; other site 351607003657 ssDNA binding site; other site 351607003658 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 351607003659 dimer interface [polypeptide binding]; other site 351607003660 phosphorylation site [posttranslational modification] 351607003661 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 351607003662 ATP binding site [chemical binding]; other site 351607003663 Mg2+ binding site [ion binding]; other site 351607003664 G-X-G motif; other site 351607003665 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 351607003666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607003667 active site 351607003668 phosphorylation site [posttranslational modification] 351607003669 intermolecular recognition site; other site 351607003670 dimerization interface [polypeptide binding]; other site 351607003671 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 351607003672 DNA binding site [nucleotide binding] 351607003673 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 351607003674 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 351607003675 putative NAD(P) binding site [chemical binding]; other site 351607003676 active site 351607003677 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 351607003678 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 351607003679 phosphate binding site [ion binding]; other site 351607003680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351607003681 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 351607003682 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 351607003683 dimer interface [polypeptide binding]; other site 351607003684 active site 351607003685 Predicted transcriptional regulator [Transcription]; Region: COG2378 351607003686 WYL domain; Region: WYL; pfam13280 351607003687 Predicted transcriptional regulator [Transcription]; Region: COG2378 351607003688 WYL domain; Region: WYL; pfam13280 351607003689 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 351607003690 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 351607003691 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 351607003692 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 351607003693 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 351607003694 ATP binding site [chemical binding]; other site 351607003695 putative Mg++ binding site [ion binding]; other site 351607003696 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 351607003697 nucleotide binding region [chemical binding]; other site 351607003698 ATP-binding site [chemical binding]; other site 351607003699 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 351607003700 5'-3' exonuclease; Region: 53EXOc; smart00475 351607003701 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 351607003702 active site 351607003703 metal binding site 1 [ion binding]; metal-binding site 351607003704 putative 5' ssDNA interaction site; other site 351607003705 metal binding site 3; metal-binding site 351607003706 metal binding site 2 [ion binding]; metal-binding site 351607003707 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 351607003708 putative DNA binding site [nucleotide binding]; other site 351607003709 putative metal binding site [ion binding]; other site 351607003710 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 351607003711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 351607003712 active site 351607003713 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 351607003714 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 351607003715 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 351607003716 putative active site [active] 351607003717 catalytic triad [active] 351607003718 putative dimer interface [polypeptide binding]; other site 351607003719 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351607003720 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 351607003721 Ligand binding site; other site 351607003722 Putative Catalytic site; other site 351607003723 DXD motif; other site 351607003724 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 351607003725 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 351607003726 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 351607003727 active site 351607003728 intersubunit interface [polypeptide binding]; other site 351607003729 catalytic residue [active] 351607003730 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351607003731 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 351607003732 substrate binding site [chemical binding]; other site 351607003733 ATP binding site [chemical binding]; other site 351607003734 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 351607003735 CGNR zinc finger; Region: zf-CGNR; pfam11706 351607003736 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 351607003737 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 351607003738 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 351607003739 putative substrate translocation pore; other site 351607003740 Radical SAM superfamily; Region: Radical_SAM; pfam04055 351607003741 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 351607003742 FeS/SAM binding site; other site 351607003743 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 351607003744 glycine dehydrogenase; Provisional; Region: PRK05367 351607003745 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 351607003746 tetramer interface [polypeptide binding]; other site 351607003747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003748 catalytic residue [active] 351607003749 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 351607003750 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607003751 catalytic residue [active] 351607003752 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 351607003753 DNA binding residues [nucleotide binding] 351607003754 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351607003755 putative dimer interface [polypeptide binding]; other site 351607003756 Bifunctional nuclease; Region: DNase-RNase; pfam02577 351607003757 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 351607003758 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351607003759 DNA binding residues [nucleotide binding] 351607003760 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 351607003761 Double zinc ribbon; Region: DZR; pfam12773 351607003762 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 351607003763 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 351607003764 phosphopeptide binding site; other site 351607003765 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 351607003766 lipoyl attachment site [posttranslational modification]; other site 351607003767 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 351607003768 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 351607003769 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 351607003770 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 351607003771 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 351607003772 active site 351607003773 Substrate binding site; other site 351607003774 Mg++ binding site; other site 351607003775 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 351607003776 putative trimer interface [polypeptide binding]; other site 351607003777 putative CoA binding site [chemical binding]; other site 351607003778 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 351607003779 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 351607003780 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 351607003781 GTP-binding protein Der; Reviewed; Region: PRK03003 351607003782 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 351607003783 G1 box; other site 351607003784 GTP/Mg2+ binding site [chemical binding]; other site 351607003785 Switch I region; other site 351607003786 G2 box; other site 351607003787 Switch II region; other site 351607003788 G3 box; other site 351607003789 G4 box; other site 351607003790 G5 box; other site 351607003791 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 351607003792 G1 box; other site 351607003793 GTP/Mg2+ binding site [chemical binding]; other site 351607003794 Switch I region; other site 351607003795 G2 box; other site 351607003796 G3 box; other site 351607003797 Switch II region; other site 351607003798 G4 box; other site 351607003799 G5 box; other site 351607003800 cytidylate kinase; Provisional; Region: cmk; PRK00023 351607003801 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 351607003802 CMP-binding site; other site 351607003803 The sites determining sugar specificity; other site 351607003804 prephenate dehydrogenase; Validated; Region: PRK06545 351607003805 prephenate dehydrogenase; Validated; Region: PRK08507 351607003806 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 351607003807 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 351607003808 RNA binding surface [nucleotide binding]; other site 351607003809 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 351607003810 active site 351607003811 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 351607003812 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 351607003813 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351607003814 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 351607003815 P-loop; other site 351607003816 Magnesium ion binding site [ion binding]; other site 351607003817 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 351607003818 Magnesium ion binding site [ion binding]; other site 351607003819 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 351607003820 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 351607003821 active site 351607003822 DNA binding site [nucleotide binding] 351607003823 Int/Topo IB signature motif; other site 351607003824 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 351607003825 dimer interface [polypeptide binding]; other site 351607003826 ADP-ribose binding site [chemical binding]; other site 351607003827 active site 351607003828 nudix motif; other site 351607003829 metal binding site [ion binding]; metal-binding site 351607003830 CTP synthetase; Validated; Region: pyrG; PRK05380 351607003831 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 351607003832 Catalytic site [active] 351607003833 active site 351607003834 UTP binding site [chemical binding]; other site 351607003835 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 351607003836 active site 351607003837 putative oxyanion hole; other site 351607003838 catalytic triad [active] 351607003839 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 351607003840 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 351607003841 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607003842 Walker A/P-loop; other site 351607003843 ATP binding site [chemical binding]; other site 351607003844 Q-loop/lid; other site 351607003845 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 351607003846 ABC transporter signature motif; other site 351607003847 Walker B; other site 351607003848 D-loop; other site 351607003849 H-loop/switch region; other site 351607003850 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 351607003851 ATP-NAD kinase; Region: NAD_kinase; pfam01513 351607003852 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 351607003853 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 351607003854 RNA binding surface [nucleotide binding]; other site 351607003855 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 351607003856 S-adenosylmethionine binding site [chemical binding]; other site 351607003857 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 351607003858 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 351607003859 active site 351607003860 motif I; other site 351607003861 motif II; other site 351607003862 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 351607003863 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 351607003864 binding surface 351607003865 TPR motif; other site 351607003866 Uncharacterized conserved protein [Function unknown]; Region: COG4198 351607003867 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 351607003868 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 351607003869 binding surface 351607003870 TPR motif; other site 351607003871 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 351607003872 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 351607003873 active site 351607003874 HIGH motif; other site 351607003875 dimer interface [polypeptide binding]; other site 351607003876 KMSKS motif; other site 351607003877 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 351607003878 RNA binding surface [nucleotide binding]; other site 351607003879 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 351607003880 active site 351607003881 DNA binding site [nucleotide binding] 351607003882 argininosuccinate lyase; Provisional; Region: PRK00855 351607003883 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 351607003884 active sites [active] 351607003885 tetramer interface [polypeptide binding]; other site 351607003886 argininosuccinate synthase; Provisional; Region: PRK13820 351607003887 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 351607003888 ANP binding site [chemical binding]; other site 351607003889 Substrate Binding Site II [chemical binding]; other site 351607003890 Substrate Binding Site I [chemical binding]; other site 351607003891 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 351607003892 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 351607003893 ornithine carbamoyltransferase; Provisional; Region: PRK00779 351607003894 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351607003895 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351607003896 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 351607003897 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 351607003898 inhibitor-cofactor binding pocket; inhibition site 351607003899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607003900 catalytic residue [active] 351607003901 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 351607003902 feedback inhibition sensing region; other site 351607003903 homohexameric interface [polypeptide binding]; other site 351607003904 nucleotide binding site [chemical binding]; other site 351607003905 N-acetyl-L-glutamate binding site [chemical binding]; other site 351607003906 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 351607003907 heterotetramer interface [polypeptide binding]; other site 351607003908 active site pocket [active] 351607003909 cleavage site 351607003910 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 351607003911 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351607003912 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 351607003913 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 351607003914 putative tRNA-binding site [nucleotide binding]; other site 351607003915 B3/4 domain; Region: B3_4; pfam03483 351607003916 tRNA synthetase B5 domain; Region: B5; smart00874 351607003917 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 351607003918 dimer interface [polypeptide binding]; other site 351607003919 motif 1; other site 351607003920 motif 3; other site 351607003921 motif 2; other site 351607003922 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 351607003923 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 351607003924 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 351607003925 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 351607003926 dimer interface [polypeptide binding]; other site 351607003927 motif 1; other site 351607003928 active site 351607003929 motif 2; other site 351607003930 motif 3; other site 351607003931 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351607003932 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607003933 putative active site [active] 351607003934 heme pocket [chemical binding]; other site 351607003935 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 351607003936 dimer interface [polypeptide binding]; other site 351607003937 phosphorylation site [posttranslational modification] 351607003938 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 351607003939 ATP binding site [chemical binding]; other site 351607003940 Mg2+ binding site [ion binding]; other site 351607003941 G-X-G motif; other site 351607003942 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 351607003943 23S rRNA binding site [nucleotide binding]; other site 351607003944 L21 binding site [polypeptide binding]; other site 351607003945 L13 binding site [polypeptide binding]; other site 351607003946 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 351607003947 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 351607003948 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 351607003949 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 351607003950 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 351607003951 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 351607003952 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 351607003953 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 351607003954 homopentamer interface [polypeptide binding]; other site 351607003955 active site 351607003956 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 351607003957 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 351607003958 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 351607003959 dimerization interface [polypeptide binding]; other site 351607003960 active site 351607003961 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 351607003962 Lumazine binding domain; Region: Lum_binding; pfam00677 351607003963 Lumazine binding domain; Region: Lum_binding; pfam00677 351607003964 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 351607003965 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 351607003966 catalytic motif [active] 351607003967 Zn binding site [ion binding]; other site 351607003968 RibD C-terminal domain; Region: RibD_C; cl17279 351607003969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607003970 Response regulator receiver domain; Region: Response_reg; pfam00072 351607003971 active site 351607003972 phosphorylation site [posttranslational modification] 351607003973 intermolecular recognition site; other site 351607003974 dimerization interface [polypeptide binding]; other site 351607003975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607003976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607003977 metal binding site [ion binding]; metal-binding site 351607003978 active site 351607003979 I-site; other site 351607003980 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 351607003981 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 351607003982 substrate binding site [chemical binding]; other site 351607003983 hexamer interface [polypeptide binding]; other site 351607003984 metal binding site [ion binding]; metal-binding site 351607003985 16S rRNA methyltransferase B; Provisional; Region: PRK14902 351607003986 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 351607003987 putative RNA binding site [nucleotide binding]; other site 351607003988 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 351607003989 S-adenosylmethionine binding site [chemical binding]; other site 351607003990 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 351607003991 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 351607003992 putative active site [active] 351607003993 substrate binding site [chemical binding]; other site 351607003994 putative cosubstrate binding site; other site 351607003995 catalytic site [active] 351607003996 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 351607003997 substrate binding site [chemical binding]; other site 351607003998 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 351607003999 active site 351607004000 catalytic residues [active] 351607004001 metal binding site [ion binding]; metal-binding site 351607004002 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 351607004003 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 351607004004 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 351607004005 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 351607004006 dimer interface [polypeptide binding]; other site 351607004007 conserved gate region; other site 351607004008 ABC-ATPase subunit interface; other site 351607004009 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 351607004010 dimer interface [polypeptide binding]; other site 351607004011 conserved gate region; other site 351607004012 putative PBP binding loops; other site 351607004013 ABC-ATPase subunit interface; other site 351607004014 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 351607004015 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 351607004016 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351607004017 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 351607004018 Walker A/P-loop; other site 351607004019 ATP binding site [chemical binding]; other site 351607004020 Q-loop/lid; other site 351607004021 ABC transporter signature motif; other site 351607004022 Walker B; other site 351607004023 D-loop; other site 351607004024 H-loop/switch region; other site 351607004025 TOBE domain; Region: TOBE_2; pfam08402 351607004026 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 351607004027 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 351607004028 tetrameric interface [polypeptide binding]; other site 351607004029 NAD binding site [chemical binding]; other site 351607004030 catalytic residues [active] 351607004031 substrate binding site [chemical binding]; other site 351607004032 putative DNA binding site [nucleotide binding]; other site 351607004033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351607004034 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 351607004035 putative Zn2+ binding site [ion binding]; other site 351607004036 AsnC family; Region: AsnC_trans_reg; pfam01037 351607004037 hypothetical protein; Provisional; Region: PRK06541 351607004038 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 351607004039 inhibitor-cofactor binding pocket; inhibition site 351607004040 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607004041 catalytic residue [active] 351607004042 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 351607004043 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 351607004044 hexamer interface [polypeptide binding]; other site 351607004045 ligand binding site [chemical binding]; other site 351607004046 putative active site [active] 351607004047 NAD(P) binding site [chemical binding]; other site 351607004048 primosome assembly protein PriA; Provisional; Region: PRK14873 351607004049 S-adenosylmethionine synthetase; Validated; Region: PRK05250 351607004050 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 351607004051 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 351607004052 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 351607004053 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 351607004054 Flavoprotein; Region: Flavoprotein; pfam02441 351607004055 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 351607004056 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 351607004057 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 351607004058 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 351607004059 catalytic site [active] 351607004060 G-X2-G-X-G-K; other site 351607004061 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 351607004062 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 351607004063 active site 351607004064 dimer interface [polypeptide binding]; other site 351607004065 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 351607004066 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 351607004067 heterodimer interface [polypeptide binding]; other site 351607004068 active site 351607004069 FMN binding site [chemical binding]; other site 351607004070 homodimer interface [polypeptide binding]; other site 351607004071 substrate binding site [chemical binding]; other site 351607004072 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 351607004073 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 351607004074 FAD binding pocket [chemical binding]; other site 351607004075 FAD binding motif [chemical binding]; other site 351607004076 phosphate binding motif [ion binding]; other site 351607004077 beta-alpha-beta structure motif; other site 351607004078 NAD binding pocket [chemical binding]; other site 351607004079 Iron coordination center [ion binding]; other site 351607004080 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 351607004081 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351607004082 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351607004083 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 351607004084 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 351607004085 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351607004086 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 351607004087 IMP binding site; other site 351607004088 dimer interface [polypeptide binding]; other site 351607004089 interdomain contacts; other site 351607004090 partial ornithine binding site; other site 351607004091 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 351607004092 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 351607004093 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 351607004094 catalytic site [active] 351607004095 subunit interface [polypeptide binding]; other site 351607004096 dihydroorotase; Validated; Region: pyrC; PRK09357 351607004097 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 351607004098 active site 351607004099 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 351607004100 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 351607004101 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 351607004102 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 351607004103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607004104 active site 351607004105 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 351607004106 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 351607004107 non-specific DNA binding site [nucleotide binding]; other site 351607004108 salt bridge; other site 351607004109 sequence-specific DNA binding site [nucleotide binding]; other site 351607004110 transcription antitermination factor NusB; Region: nusB; TIGR01951 351607004111 putative RNA binding site [nucleotide binding]; other site 351607004112 elongation factor P; Validated; Region: PRK00529 351607004113 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 351607004114 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 351607004115 RNA binding site [nucleotide binding]; other site 351607004116 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 351607004117 RNA binding site [nucleotide binding]; other site 351607004118 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 351607004119 Dehydroquinase class II; Region: DHquinase_II; pfam01220 351607004120 trimer interface [polypeptide binding]; other site 351607004121 active site 351607004122 dimer interface [polypeptide binding]; other site 351607004123 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 351607004124 active site 351607004125 dimer interface [polypeptide binding]; other site 351607004126 metal binding site [ion binding]; metal-binding site 351607004127 shikimate kinase; Reviewed; Region: aroK; PRK00131 351607004128 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 351607004129 ADP binding site [chemical binding]; other site 351607004130 magnesium binding site [ion binding]; other site 351607004131 putative shikimate binding site; other site 351607004132 chorismate synthase; Validated; Region: PRK05382 351607004133 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 351607004134 Tetramer interface [polypeptide binding]; other site 351607004135 active site 351607004136 FMN-binding site [chemical binding]; other site 351607004137 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 351607004138 Cell division protein FtsA; Region: FtsA; smart00842 351607004139 Competence protein A; Region: Competence_A; pfam11104 351607004140 Cell division protein FtsA; Region: FtsA; pfam14450 351607004141 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 351607004142 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 351607004143 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 351607004144 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351607004145 hypothetical protein; Provisional; Region: PRK10557 351607004146 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 351607004147 G3 box; other site 351607004148 Switch II region; other site 351607004149 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351607004150 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351607004151 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 351607004152 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 351607004153 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 351607004154 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351607004155 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351607004156 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 351607004157 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 351607004158 Walker A motif; other site 351607004159 ATP binding site [chemical binding]; other site 351607004160 Walker B motif; other site 351607004161 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351607004162 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351607004163 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 351607004164 Walker A motif; other site 351607004165 ATP binding site [chemical binding]; other site 351607004166 Walker B motif; other site 351607004167 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 351607004168 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 351607004169 G1 box; other site 351607004170 GTP/Mg2+ binding site [chemical binding]; other site 351607004171 G2 box; other site 351607004172 Switch I region; other site 351607004173 G3 box; other site 351607004174 Switch II region; other site 351607004175 G4 box; other site 351607004176 G5 box; other site 351607004177 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 351607004178 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 351607004179 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 351607004180 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 351607004181 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 351607004182 shikimate binding site; other site 351607004183 NAD(P) binding site [chemical binding]; other site 351607004184 YceG-like family; Region: YceG; pfam02618 351607004185 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 351607004186 dimerization interface [polypeptide binding]; other site 351607004187 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 351607004188 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 351607004189 tRNA synthetases class II (A); Region: tRNA-synt_2c; pfam01411 351607004190 motif 1; other site 351607004191 active site 351607004192 motif 2; other site 351607004193 motif 3; other site 351607004194 alanine-tRNA ligase; Region: PLN02961 351607004195 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 351607004196 recombination factor protein RarA; Reviewed; Region: PRK13342 351607004197 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 351607004198 Walker A motif; other site 351607004199 ATP binding site [chemical binding]; other site 351607004200 Walker B motif; other site 351607004201 arginine finger; other site 351607004202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 351607004203 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 351607004204 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 351607004205 dimer interface [polypeptide binding]; other site 351607004206 anticodon binding site; other site 351607004207 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 351607004208 homodimer interface [polypeptide binding]; other site 351607004209 motif 1; other site 351607004210 active site 351607004211 motif 2; other site 351607004212 GAD domain; Region: GAD; pfam02938 351607004213 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 351607004214 active site 351607004215 motif 3; other site 351607004216 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 351607004217 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 351607004218 dimer interface [polypeptide binding]; other site 351607004219 motif 1; other site 351607004220 active site 351607004221 motif 2; other site 351607004222 motif 3; other site 351607004223 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 351607004224 anticodon binding site; other site 351607004225 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 351607004226 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 351607004227 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 351607004228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607004229 Zn2+ binding site [ion binding]; other site 351607004230 Mg2+ binding site [ion binding]; other site 351607004231 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 351607004232 synthetase active site [active] 351607004233 NTP binding site [chemical binding]; other site 351607004234 metal binding site [ion binding]; metal-binding site 351607004235 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 351607004236 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 351607004237 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607004238 active site 351607004239 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 351607004240 Protein export membrane protein; Region: SecD_SecF; pfam02355 351607004241 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 351607004242 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 351607004243 Preprotein translocase subunit; Region: YajC; pfam02699 351607004244 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 351607004245 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 351607004246 Walker A motif; other site 351607004247 ATP binding site [chemical binding]; other site 351607004248 Walker B motif; other site 351607004249 arginine finger; other site 351607004250 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 351607004251 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 351607004252 RuvA N terminal domain; Region: RuvA_N; pfam01330 351607004253 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 351607004254 active site 351607004255 putative DNA-binding cleft [nucleotide binding]; other site 351607004256 dimer interface [polypeptide binding]; other site 351607004257 hypothetical protein; Validated; Region: PRK00110 351607004258 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 351607004259 predicted active site [active] 351607004260 catalytic triad [active] 351607004261 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 351607004262 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 351607004263 active site 351607004264 multimer interface [polypeptide binding]; other site 351607004265 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 351607004266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607004267 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 351607004268 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 351607004269 putative acyl-acceptor binding pocket; other site 351607004270 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 351607004271 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 351607004272 elongation factor G; Reviewed; Region: PRK12740 351607004273 G1 box; other site 351607004274 putative GEF interaction site [polypeptide binding]; other site 351607004275 GTP/Mg2+ binding site [chemical binding]; other site 351607004276 Switch I region; other site 351607004277 G2 box; other site 351607004278 G3 box; other site 351607004279 Switch II region; other site 351607004280 G4 box; other site 351607004281 G5 box; other site 351607004282 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 351607004283 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 351607004284 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 351607004285 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 351607004286 nucleotide binding site/active site [active] 351607004287 HIT family signature motif; other site 351607004288 catalytic residue [active] 351607004289 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 351607004290 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 351607004291 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 351607004292 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 351607004293 active site 351607004294 dimer interface [polypeptide binding]; other site 351607004295 motif 1; other site 351607004296 motif 2; other site 351607004297 motif 3; other site 351607004298 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 351607004299 anticodon binding site; other site 351607004300 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607004301 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607004302 DNA binding site [nucleotide binding] 351607004303 domain linker motif; other site 351607004304 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 351607004305 putative dimerization interface [polypeptide binding]; other site 351607004306 putative ligand binding site [chemical binding]; other site 351607004307 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 351607004308 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 351607004309 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 351607004310 dimer interface [polypeptide binding]; other site 351607004311 conserved gate region; other site 351607004312 putative PBP binding loops; other site 351607004313 ABC-ATPase subunit interface; other site 351607004314 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 351607004315 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 351607004316 dimer interface [polypeptide binding]; other site 351607004317 conserved gate region; other site 351607004318 putative PBP binding loops; other site 351607004319 ABC-ATPase subunit interface; other site 351607004320 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 351607004321 active site 351607004322 Predicted transcriptional regulator [Transcription]; Region: COG2932 351607004323 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 351607004324 Catalytic site [active] 351607004325 DoxX; Region: DoxX; pfam07681 351607004326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607004327 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 351607004328 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 351607004329 Walker A/P-loop; other site 351607004330 ATP binding site [chemical binding]; other site 351607004331 Q-loop/lid; other site 351607004332 ABC transporter signature motif; other site 351607004333 Walker B; other site 351607004334 D-loop; other site 351607004335 H-loop/switch region; other site 351607004336 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 351607004337 Streptomyces sporulation and cell division protein, SsgA; Region: SsgA; pfam04686 351607004338 Bacterial Ig-like domain; Region: Big_5; pfam13205 351607004339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 351607004340 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 351607004341 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 351607004342 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 351607004343 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 351607004344 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 351607004345 active site 351607004346 catalytic site [active] 351607004347 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 351607004348 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 351607004349 active site 351607004350 catalytic site [active] 351607004351 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 351607004352 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 351607004353 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 351607004354 catalytic site [active] 351607004355 active site 351607004356 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 351607004357 hypothetical protein; Provisional; Region: PRK14059 351607004358 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 351607004359 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 351607004360 active site 351607004361 DNA binding site [nucleotide binding] 351607004362 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 351607004363 DNA binding site [nucleotide binding] 351607004364 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 351607004365 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 351607004366 nucleotide binding site [chemical binding]; other site 351607004367 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 351607004368 nucleotide binding site [chemical binding]; other site 351607004369 methionine sulfoxide reductase B; Provisional; Region: PRK00222 351607004370 SelR domain; Region: SelR; pfam01641 351607004371 Chlorite dismutase; Region: Chlor_dismutase; pfam06778 351607004372 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 351607004373 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607004374 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 351607004375 substrate binding site [chemical binding]; other site 351607004376 active site 351607004377 EamA-like transporter family; Region: EamA; cl17759 351607004378 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 351607004379 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 351607004380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607004381 Walker A/P-loop; other site 351607004382 ATP binding site [chemical binding]; other site 351607004383 Q-loop/lid; other site 351607004384 ABC transporter signature motif; other site 351607004385 Walker B; other site 351607004386 D-loop; other site 351607004387 H-loop/switch region; other site 351607004388 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 351607004389 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 351607004390 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 351607004391 ATP binding site [chemical binding]; other site 351607004392 Mg2+ binding site [ion binding]; other site 351607004393 G-X-G motif; other site 351607004394 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 351607004395 active site 351607004396 catalytic triad [active] 351607004397 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607004398 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607004399 active site 351607004400 phosphorylation site [posttranslational modification] 351607004401 intermolecular recognition site; other site 351607004402 dimerization interface [polypeptide binding]; other site 351607004403 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 351607004404 DNA binding residues [nucleotide binding] 351607004405 dimerization interface [polypeptide binding]; other site 351607004406 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 351607004407 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 351607004408 catalytic site [active] 351607004409 putative active site [active] 351607004410 putative substrate binding site [chemical binding]; other site 351607004411 HRDC domain; Region: HRDC; pfam00570 351607004412 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 351607004413 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 351607004414 TPP-binding site; other site 351607004415 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 351607004416 PYR/PP interface [polypeptide binding]; other site 351607004417 dimer interface [polypeptide binding]; other site 351607004418 TPP binding site [chemical binding]; other site 351607004419 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 351607004420 aconitate hydratase; Validated; Region: PRK09277 351607004421 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 351607004422 substrate binding site [chemical binding]; other site 351607004423 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 351607004424 ligand binding site [chemical binding]; other site 351607004425 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 351607004426 substrate binding site [chemical binding]; other site 351607004427 TRAM domain; Region: TRAM; pfam01938 351607004428 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 351607004429 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 351607004430 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 351607004431 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 351607004432 TrkA-N domain; Region: TrkA_N; pfam02254 351607004433 TrkA-C domain; Region: TrkA_C; pfam02080 351607004434 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 351607004435 TrkA-N domain; Region: TrkA_N; pfam02254 351607004436 TrkA-C domain; Region: TrkA_C; pfam02080 351607004437 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 351607004438 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 351607004439 generic binding surface II; other site 351607004440 ssDNA binding site; other site 351607004441 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 351607004442 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 351607004443 trimer interface [polypeptide binding]; other site 351607004444 active site 351607004445 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 351607004446 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 351607004447 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 351607004448 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 351607004449 active site 351607004450 dimerization interface [polypeptide binding]; other site 351607004451 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 351607004452 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607004453 ferrochelatase; Reviewed; Region: hemH; PRK00035 351607004454 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 351607004455 C-terminal domain interface [polypeptide binding]; other site 351607004456 active site 351607004457 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 351607004458 active site 351607004459 N-terminal domain interface [polypeptide binding]; other site 351607004460 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 351607004461 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 351607004462 active site 351607004463 catalytic residues [active] 351607004464 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351607004465 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607004466 CHAT domain; Region: CHAT; pfam12770 351607004467 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607004468 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 351607004469 Walker A/P-loop; other site 351607004470 ATP binding site [chemical binding]; other site 351607004471 Q-loop/lid; other site 351607004472 ABC transporter signature motif; other site 351607004473 Walker B; other site 351607004474 D-loop; other site 351607004475 H-loop/switch region; other site 351607004476 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 351607004477 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 351607004478 active site residue [active] 351607004479 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 351607004480 active site residue [active] 351607004481 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 351607004482 PAS domain S-box; Region: sensory_box; TIGR00229 351607004483 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607004484 putative active site [active] 351607004485 heme pocket [chemical binding]; other site 351607004486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607004487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607004488 metal binding site [ion binding]; metal-binding site 351607004489 active site 351607004490 I-site; other site 351607004491 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607004492 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 351607004493 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 351607004494 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 351607004495 CAP-like domain; other site 351607004496 active site 351607004497 primary dimer interface [polypeptide binding]; other site 351607004498 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 351607004499 Dienelactone hydrolase family; Region: DLH; pfam01738 351607004500 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607004501 cystathionine gamma-lyase; Validated; Region: PRK07582 351607004502 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 351607004503 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607004504 catalytic residue [active] 351607004505 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 351607004506 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 351607004507 Mg2+ binding site [ion binding]; other site 351607004508 G-X-G motif; other site 351607004509 DNA gyrase B; Region: DNA_gyraseB; pfam00204 351607004510 ATP binding site [chemical binding]; other site 351607004511 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 351607004512 active site 351607004513 metal binding site [ion binding]; metal-binding site 351607004514 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 351607004515 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 351607004516 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351607004517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607004518 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351607004519 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 351607004520 DNA binding residues [nucleotide binding] 351607004521 PGAP1-like protein; Region: PGAP1; pfam07819 351607004522 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 351607004523 minor groove reading motif; other site 351607004524 helix-hairpin-helix signature motif; other site 351607004525 GAF domain; Region: GAF; cl17456 351607004526 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607004527 metal binding site [ion binding]; metal-binding site 351607004528 active site 351607004529 I-site; other site 351607004530 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607004531 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 351607004532 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351607004533 NAD(P) binding site [chemical binding]; other site 351607004534 catalytic residues [active] 351607004535 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351607004536 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607004537 Protein of unknown function, DUF488; Region: DUF488; pfam04343 351607004538 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351607004539 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 351607004540 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 351607004541 FAD binding pocket [chemical binding]; other site 351607004542 FAD binding motif [chemical binding]; other site 351607004543 phosphate binding motif [ion binding]; other site 351607004544 beta-alpha-beta structure motif; other site 351607004545 NAD(p) ribose binding residues [chemical binding]; other site 351607004546 NAD binding pocket [chemical binding]; other site 351607004547 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 351607004548 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351607004549 catalytic loop [active] 351607004550 iron binding site [ion binding]; other site 351607004551 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 351607004552 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 351607004553 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 351607004554 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 351607004555 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 351607004556 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 351607004557 DNA polymerase IV; Provisional; Region: PRK03348 351607004558 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 351607004559 active site 351607004560 DNA binding site [nucleotide binding] 351607004561 Dienelactone hydrolase family; Region: DLH; pfam01738 351607004562 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 351607004563 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607004564 active site 351607004565 HIGH motif; other site 351607004566 nucleotide binding site [chemical binding]; other site 351607004567 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 351607004568 active site 351607004569 KMSKS motif; other site 351607004570 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 351607004571 dimerization interface [polypeptide binding]; other site 351607004572 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 351607004573 dimer interface [polypeptide binding]; other site 351607004574 phosphorylation site [posttranslational modification] 351607004575 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 351607004576 ATP binding site [chemical binding]; other site 351607004577 Mg2+ binding site [ion binding]; other site 351607004578 G-X-G motif; other site 351607004579 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607004580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607004581 active site 351607004582 phosphorylation site [posttranslational modification] 351607004583 intermolecular recognition site; other site 351607004584 dimerization interface [polypeptide binding]; other site 351607004585 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 351607004586 DNA binding site [nucleotide binding] 351607004587 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 351607004588 HlyD family secretion protein; Region: HlyD_3; pfam13437 351607004589 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351607004590 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351607004591 Walker A/P-loop; other site 351607004592 ATP binding site [chemical binding]; other site 351607004593 Q-loop/lid; other site 351607004594 ABC transporter signature motif; other site 351607004595 Walker B; other site 351607004596 D-loop; other site 351607004597 H-loop/switch region; other site 351607004598 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351607004599 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351607004600 FtsX-like permease family; Region: FtsX; pfam02687 351607004601 putative oxidoreductase; Provisional; Region: PRK11579 351607004602 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607004603 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607004604 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 351607004605 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 351607004606 putative active site [active] 351607004607 putative metal binding site [ion binding]; other site 351607004608 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 351607004609 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 351607004610 catalytic triad [active] 351607004611 catalytic triad [active] 351607004612 oxyanion hole [active] 351607004613 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 351607004614 putative active site [active] 351607004615 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 351607004616 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 351607004617 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 351607004618 Glyco_18 domain; Region: Glyco_18; smart00636 351607004619 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 351607004620 active site 351607004621 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 351607004622 aromatic chitin/cellulose binding site residues [chemical binding]; other site 351607004623 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 351607004624 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 351607004625 peptidase domain interface [polypeptide binding]; other site 351607004626 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 351607004627 active site 351607004628 catalytic triad [active] 351607004629 calcium binding site [ion binding]; other site 351607004630 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004631 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004632 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004633 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 351607004634 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 351607004635 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 351607004636 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 351607004637 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 351607004638 putative acetyltransferase; Provisional; Region: PRK03624 351607004639 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607004640 Coenzyme A binding pocket [chemical binding]; other site 351607004641 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 351607004642 putative catalytic site [active] 351607004643 putative phosphate binding site [ion binding]; other site 351607004644 active site 351607004645 metal binding site A [ion binding]; metal-binding site 351607004646 DNA binding site [nucleotide binding] 351607004647 putative AP binding site [nucleotide binding]; other site 351607004648 putative metal binding site B [ion binding]; other site 351607004649 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 351607004650 FAD binding domain; Region: FAD_binding_4; pfam01565 351607004651 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351607004652 H+ Antiporter protein; Region: 2A0121; TIGR00900 351607004653 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 351607004654 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 351607004655 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607004656 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 351607004657 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351607004658 catalytic Zn binding site [ion binding]; other site 351607004659 NAD(P) binding site [chemical binding]; other site 351607004660 structural Zn binding site [ion binding]; other site 351607004661 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 351607004662 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 351607004663 putative dimer interface [polypeptide binding]; other site 351607004664 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 351607004665 active site 351607004666 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 351607004667 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 351607004668 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 351607004669 protein-splicing catalytic site; other site 351607004670 thioester formation/cholesterol transfer; other site 351607004671 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 351607004672 active site 351607004673 vitamin B12-dependent ribonucleotide reductase; Validated; Region: PRK06556 351607004674 effector binding site; other site 351607004675 dimer interface [polypeptide binding]; other site 351607004676 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 351607004677 TSCPD domain; Region: TSCPD; pfam12637 351607004678 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 351607004679 ATP cone domain; Region: ATP-cone; pfam03477 351607004680 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351607004681 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 351607004682 LexA repressor; Validated; Region: PRK00215 351607004683 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 351607004684 Catalytic site [active] 351607004685 DEAD/DEAH box helicase; Region: DEAD; pfam00270 351607004686 ATP binding site [chemical binding]; other site 351607004687 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 351607004688 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 351607004689 putative Mg++ binding site [ion binding]; other site 351607004690 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 351607004691 PAS domain S-box; Region: sensory_box; TIGR00229 351607004692 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607004693 putative active site [active] 351607004694 heme pocket [chemical binding]; other site 351607004695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607004696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607004697 metal binding site [ion binding]; metal-binding site 351607004698 active site 351607004699 I-site; other site 351607004700 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607004701 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 351607004702 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 351607004703 HflX GTPase family; Region: HflX; cd01878 351607004704 G1 box; other site 351607004705 GTP/Mg2+ binding site [chemical binding]; other site 351607004706 Switch I region; other site 351607004707 G2 box; other site 351607004708 G3 box; other site 351607004709 Switch II region; other site 351607004710 G4 box; other site 351607004711 G5 box; other site 351607004712 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 351607004713 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351607004714 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 351607004715 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 351607004716 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 351607004717 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 351607004718 active site 351607004719 metal binding site [ion binding]; metal-binding site 351607004720 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 351607004721 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 351607004722 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 351607004723 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004724 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004725 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607004726 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 351607004727 active site 351607004728 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 351607004729 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351607004730 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 351607004731 FeS/SAM binding site; other site 351607004732 TRAM domain; Region: TRAM; cl01282 351607004733 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 351607004734 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607004735 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 351607004736 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607004737 Zn2+ binding site [ion binding]; other site 351607004738 Mg2+ binding site [ion binding]; other site 351607004739 recombination regulator RecX; Reviewed; Region: recX; PRK00117 351607004740 recombinase A; Provisional; Region: recA; PRK09354 351607004741 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 351607004742 hexamer interface [polypeptide binding]; other site 351607004743 Walker A motif; other site 351607004744 ATP binding site [chemical binding]; other site 351607004745 Walker B motif; other site 351607004746 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 351607004747 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351607004748 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607004749 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 351607004750 DNA binding residues [nucleotide binding] 351607004751 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 351607004752 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 351607004753 ATP binding site [chemical binding]; other site 351607004754 putative Mg++ binding site [ion binding]; other site 351607004755 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 351607004756 nucleotide binding region [chemical binding]; other site 351607004757 ATP-binding site [chemical binding]; other site 351607004758 DEAD/H associated; Region: DEAD_assoc; pfam08494 351607004759 competence damage-inducible protein A; Provisional; Region: PRK00549 351607004760 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 351607004761 putative MPT binding site; other site 351607004762 Competence-damaged protein; Region: CinA; pfam02464 351607004763 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 351607004764 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 351607004765 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 351607004766 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 351607004767 FeS/SAM binding site; other site 351607004768 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 351607004769 non-specific DNA binding site [nucleotide binding]; other site 351607004770 salt bridge; other site 351607004771 sequence-specific DNA binding site [nucleotide binding]; other site 351607004772 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 351607004773 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 351607004774 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 351607004775 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 351607004776 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 351607004777 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351607004778 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 351607004779 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 351607004780 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 351607004781 dimer interface [polypeptide binding]; other site 351607004782 active site 351607004783 catalytic residue [active] 351607004784 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 351607004785 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 351607004786 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607004787 dihydrodipicolinate reductase; Provisional; Region: PRK00048 351607004788 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 351607004789 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 351607004790 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 351607004791 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 351607004792 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 351607004793 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 351607004794 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 351607004795 RNase E interface [polypeptide binding]; other site 351607004796 trimer interface [polypeptide binding]; other site 351607004797 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 351607004798 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 351607004799 RNase E interface [polypeptide binding]; other site 351607004800 trimer interface [polypeptide binding]; other site 351607004801 active site 351607004802 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 351607004803 putative nucleic acid binding region [nucleotide binding]; other site 351607004804 G-X-X-G motif; other site 351607004805 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 351607004806 RNA binding site [nucleotide binding]; other site 351607004807 domain interface; other site 351607004808 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 351607004809 16S/18S rRNA binding site [nucleotide binding]; other site 351607004810 S13e-L30e interaction site [polypeptide binding]; other site 351607004811 25S rRNA binding site [nucleotide binding]; other site 351607004812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607004813 NADH(P)-binding; Region: NAD_binding_10; pfam13460 351607004814 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 351607004815 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 351607004816 active site 351607004817 Riboflavin kinase; Region: Flavokinase; smart00904 351607004818 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 351607004819 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 351607004820 RNA binding site [nucleotide binding]; other site 351607004821 active site 351607004822 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 351607004823 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 351607004824 Protein of unknown function (DUF503); Region: DUF503; pfam04456 351607004825 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 351607004826 translation initiation factor IF-2; Region: IF-2; TIGR00487 351607004827 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 351607004828 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 351607004829 G1 box; other site 351607004830 putative GEF interaction site [polypeptide binding]; other site 351607004831 GTP/Mg2+ binding site [chemical binding]; other site 351607004832 Switch I region; other site 351607004833 G2 box; other site 351607004834 G3 box; other site 351607004835 Switch II region; other site 351607004836 G4 box; other site 351607004837 G5 box; other site 351607004838 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 351607004839 Translation-initiation factor 2; Region: IF-2; pfam11987 351607004840 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 351607004841 Protein of unknown function (DUF448); Region: DUF448; pfam04296 351607004842 putative RNA binding cleft [nucleotide binding]; other site 351607004843 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 351607004844 NusA N-terminal domain; Region: NusA_N; pfam08529 351607004845 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 351607004846 RNA binding site [nucleotide binding]; other site 351607004847 homodimer interface [polypeptide binding]; other site 351607004848 NusA-like KH domain; Region: KH_5; pfam13184 351607004849 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 351607004850 G-X-X-G motif; other site 351607004851 ribosome maturation protein RimP; Reviewed; Region: PRK00092 351607004852 Sm and related proteins; Region: Sm_like; cl00259 351607004853 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 351607004854 putative oligomer interface [polypeptide binding]; other site 351607004855 putative RNA binding site [nucleotide binding]; other site 351607004856 prolyl-tRNA synthetase; Provisional; Region: PRK09194 351607004857 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 351607004858 dimer interface [polypeptide binding]; other site 351607004859 motif 1; other site 351607004860 active site 351607004861 motif 2; other site 351607004862 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 351607004863 putative deacylase active site [active] 351607004864 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 351607004865 active site 351607004866 motif 3; other site 351607004867 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 351607004868 anticodon binding site; other site 351607004869 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 351607004870 Predicted acetyltransferase [General function prediction only]; Region: COG3393 351607004871 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 351607004872 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351607004873 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 351607004874 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351607004875 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 351607004876 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 351607004877 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 351607004878 active site 351607004879 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 351607004880 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 351607004881 putative substrate binding region [chemical binding]; other site 351607004882 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 351607004883 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 351607004884 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 351607004885 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 351607004886 MMPL family; Region: MMPL; pfam03176 351607004887 MMPL family; Region: MMPL; pfam03176 351607004888 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 351607004889 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607004890 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607004891 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 351607004892 substrate binding site; other site 351607004893 dimer interface; other site 351607004894 Phosphate transporter family; Region: PHO4; pfam01384 351607004895 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 351607004896 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 351607004897 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 351607004898 FeS/SAM binding site; other site 351607004899 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 351607004900 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 351607004901 dimer interface [polypeptide binding]; other site 351607004902 active site 351607004903 glycine-pyridoxal phosphate binding site [chemical binding]; other site 351607004904 folate binding site [chemical binding]; other site 351607004905 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 351607004906 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 351607004907 ribosome recycling factor; Reviewed; Region: frr; PRK00083 351607004908 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 351607004909 hinge region; other site 351607004910 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 351607004911 putative nucleotide binding site [chemical binding]; other site 351607004912 uridine monophosphate binding site [chemical binding]; other site 351607004913 homohexameric interface [polypeptide binding]; other site 351607004914 Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]; Region: Tsf; COG0264 351607004915 UBA/TS-N domain; Region: UBA; pfam00627 351607004916 Elongation factor TS; Region: EF_TS; pfam00889 351607004917 Elongation factor TS; Region: EF_TS; pfam00889 351607004918 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 351607004919 rRNA interaction site [nucleotide binding]; other site 351607004920 S8 interaction site; other site 351607004921 putative laminin-1 binding site; other site 351607004922 Peptidase family M23; Region: Peptidase_M23; pfam01551 351607004923 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 351607004924 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351607004925 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 351607004926 motif II; other site 351607004927 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 351607004928 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607004929 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351607004930 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 351607004931 DNA binding residues [nucleotide binding] 351607004932 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 351607004933 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 351607004934 active site 351607004935 DNA binding site [nucleotide binding] 351607004936 Int/Topo IB signature motif; other site 351607004937 DNA protecting protein DprA; Region: dprA; TIGR00732 351607004938 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 351607004939 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 351607004940 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 351607004941 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 351607004942 Walker A motif; other site 351607004943 ATP binding site [chemical binding]; other site 351607004944 Walker B motif; other site 351607004945 arginine finger; other site 351607004946 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 351607004947 hypothetical protein; Reviewed; Region: PRK12497 351607004948 Methyltransferase domain; Region: Methyltransf_31; pfam13847 351607004949 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 351607004950 S-adenosylmethionine binding site [chemical binding]; other site 351607004951 DNA binding site [nucleotide binding] 351607004952 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 351607004953 Bacterial transcriptional activator domain; Region: BTAD; smart01043 351607004954 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 351607004955 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 351607004956 RNA/DNA hybrid binding site [nucleotide binding]; other site 351607004957 active site 351607004958 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 351607004959 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 351607004960 Catalytic site [active] 351607004961 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 351607004962 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 351607004963 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 351607004964 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 351607004965 RimM N-terminal domain; Region: RimM; pfam01782 351607004966 PRC-barrel domain; Region: PRC; pfam05239 351607004967 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 351607004968 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 351607004969 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 351607004970 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 351607004971 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 351607004972 active site 351607004973 signal recognition particle protein; Provisional; Region: PRK10867 351607004974 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 351607004975 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 351607004976 P loop; other site 351607004977 GTP binding site [chemical binding]; other site 351607004978 Signal peptide binding domain; Region: SRP_SPB; pfam02978 351607004979 PII uridylyl-transferase; Provisional; Region: PRK03381 351607004980 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 351607004981 metal binding triad; other site 351607004982 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 351607004983 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 351607004984 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 351607004985 Nitrogen regulatory protein P-II; Region: P-II; smart00938 351607004986 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 351607004987 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 351607004988 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 351607004989 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 351607004990 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351607004991 Walker A/P-loop; other site 351607004992 ATP binding site [chemical binding]; other site 351607004993 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 351607004994 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 351607004995 ABC transporter signature motif; other site 351607004996 Walker B; other site 351607004997 D-loop; other site 351607004998 H-loop/switch region; other site 351607004999 Acylphosphatase; Region: Acylphosphatase; cl00551 351607005000 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 351607005001 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 351607005002 DNA binding site [nucleotide binding] 351607005003 catalytic residue [active] 351607005004 H2TH interface [polypeptide binding]; other site 351607005005 putative catalytic residues [active] 351607005006 turnover-facilitating residue; other site 351607005007 intercalation triad [nucleotide binding]; other site 351607005008 8OG recognition residue [nucleotide binding]; other site 351607005009 putative reading head residues; other site 351607005010 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 351607005011 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 351607005012 ribonuclease III; Reviewed; Region: rnc; PRK00102 351607005013 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 351607005014 dimerization interface [polypeptide binding]; other site 351607005015 active site 351607005016 metal binding site [ion binding]; metal-binding site 351607005017 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 351607005018 dsRNA binding site [nucleotide binding]; other site 351607005019 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 351607005020 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 351607005021 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 351607005022 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 351607005023 active site 351607005024 (T/H)XGH motif; other site 351607005025 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 351607005026 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 351607005027 S-adenosylmethionine binding site [chemical binding]; other site 351607005028 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 351607005029 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 351607005030 generic binding surface II; other site 351607005031 ssDNA binding site; other site 351607005032 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 351607005033 ATP binding site [chemical binding]; other site 351607005034 putative Mg++ binding site [ion binding]; other site 351607005035 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 351607005036 nucleotide binding region [chemical binding]; other site 351607005037 ATP-binding site [chemical binding]; other site 351607005038 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 351607005039 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 351607005040 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 351607005041 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 351607005042 dimer interface [polypeptide binding]; other site 351607005043 substrate binding site [chemical binding]; other site 351607005044 ATP binding site [chemical binding]; other site 351607005045 thiamine monophosphate kinase; Provisional; Region: PRK05731 351607005046 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 351607005047 dimerization interface [polypeptide binding]; other site 351607005048 ATP binding site [chemical binding]; other site 351607005049 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 351607005050 AsnC family; Region: AsnC_trans_reg; pfam01037 351607005051 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 351607005052 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 351607005053 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 351607005054 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 351607005055 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 351607005056 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 351607005057 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 351607005058 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 351607005059 putative acyl-acceptor binding pocket; other site 351607005060 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 351607005061 IHF - DNA interface [nucleotide binding]; other site 351607005062 IHF dimer interface [polypeptide binding]; other site 351607005063 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 351607005064 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 351607005065 substrate binding site [chemical binding]; other site 351607005066 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 351607005067 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 351607005068 substrate binding site [chemical binding]; other site 351607005069 ligand binding site [chemical binding]; other site 351607005070 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 351607005071 Transcriptional regulator [Transcription]; Region: IclR; COG1414 351607005072 Bacterial transcriptional regulator; Region: IclR; pfam01614 351607005073 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351607005074 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 351607005075 protein binding site [polypeptide binding]; other site 351607005076 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351607005077 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 351607005078 dimerization interface [polypeptide binding]; other site 351607005079 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 351607005080 dimer interface [polypeptide binding]; other site 351607005081 phosphorylation site [posttranslational modification] 351607005082 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 351607005083 ATP binding site [chemical binding]; other site 351607005084 Mg2+ binding site [ion binding]; other site 351607005085 G-X-G motif; other site 351607005086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607005087 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005088 active site 351607005089 phosphorylation site [posttranslational modification] 351607005090 intermolecular recognition site; other site 351607005091 dimerization interface [polypeptide binding]; other site 351607005092 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 351607005093 DNA binding site [nucleotide binding] 351607005094 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 351607005095 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607005096 active site 351607005097 catalytic tetrad [active] 351607005098 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351607005099 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 351607005100 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 351607005101 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 351607005102 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 351607005103 Amidase; Region: Amidase; pfam01425 351607005104 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 351607005105 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 351607005106 active site 351607005107 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 351607005108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607005109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351607005110 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 351607005111 dimerization interface [polypeptide binding]; other site 351607005112 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 351607005113 ATP binding site [chemical binding]; other site 351607005114 Mg2+ binding site [ion binding]; other site 351607005115 G-X-G motif; other site 351607005116 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607005117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005118 active site 351607005119 phosphorylation site [posttranslational modification] 351607005120 intermolecular recognition site; other site 351607005121 dimerization interface [polypeptide binding]; other site 351607005122 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 351607005123 DNA binding site [nucleotide binding] 351607005124 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 351607005125 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 351607005126 apolar tunnel; other site 351607005127 heme binding site [chemical binding]; other site 351607005128 dimerization interface [polypeptide binding]; other site 351607005129 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 351607005130 active site 351607005131 catalytic residues [active] 351607005132 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607005133 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607005134 metal binding site [ion binding]; metal-binding site 351607005135 active site 351607005136 I-site; other site 351607005137 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 351607005138 active site 351607005139 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 351607005140 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351607005141 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351607005142 ABC transporter; Region: ABC_tran_2; pfam12848 351607005143 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 351607005144 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 351607005145 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 351607005146 putative active site [active] 351607005147 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-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_C; cd03414 351607005148 putative active site [active] 351607005149 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 351607005150 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 351607005151 active site 351607005152 SAM binding site [chemical binding]; other site 351607005153 homodimer interface [polypeptide binding]; other site 351607005154 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 351607005155 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 351607005156 CysD dimerization site [polypeptide binding]; other site 351607005157 G1 box; other site 351607005158 putative GEF interaction site [polypeptide binding]; other site 351607005159 GTP/Mg2+ binding site [chemical binding]; other site 351607005160 Switch I region; other site 351607005161 G2 box; other site 351607005162 G3 box; other site 351607005163 Switch II region; other site 351607005164 G4 box; other site 351607005165 G5 box; other site 351607005166 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 351607005167 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 351607005168 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 351607005169 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 351607005170 Active Sites [active] 351607005171 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 351607005172 ligand-binding site [chemical binding]; other site 351607005173 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 351607005174 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 351607005175 dimer interface [polypeptide binding]; other site 351607005176 ssDNA binding site [nucleotide binding]; other site 351607005177 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351607005178 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 351607005179 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 351607005180 Walker A/P-loop; other site 351607005181 ATP binding site [chemical binding]; other site 351607005182 Q-loop/lid; other site 351607005183 ABC transporter signature motif; other site 351607005184 Walker B; other site 351607005185 D-loop; other site 351607005186 H-loop/switch region; other site 351607005187 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 351607005188 FtsX-like permease family; Region: FtsX; pfam02687 351607005189 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 351607005190 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 351607005191 active site 351607005192 dimer interfaces [polypeptide binding]; other site 351607005193 catalytic residues [active] 351607005194 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 351607005195 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351607005196 dimer interface [polypeptide binding]; other site 351607005197 putative CheW interface [polypeptide binding]; other site 351607005198 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 351607005199 metal-binding site 351607005200 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 351607005201 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 351607005202 XdhC Rossmann domain; Region: XdhC_C; pfam13478 351607005203 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 351607005204 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 351607005205 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 351607005206 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 351607005207 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 351607005208 active site 351607005209 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 351607005210 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 351607005211 catalytic residue [active] 351607005212 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 351607005213 putative hydrophobic ligand binding site [chemical binding]; other site 351607005214 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 351607005215 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 351607005216 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 351607005217 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 351607005218 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 351607005219 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 351607005220 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 351607005221 dimer interface [polypeptide binding]; other site 351607005222 conserved gate region; other site 351607005223 putative PBP binding loops; other site 351607005224 ABC-ATPase subunit interface; other site 351607005225 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 351607005226 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 351607005227 Walker A/P-loop; other site 351607005228 ATP binding site [chemical binding]; other site 351607005229 Q-loop/lid; other site 351607005230 ABC transporter signature motif; other site 351607005231 Walker B; other site 351607005232 D-loop; other site 351607005233 H-loop/switch region; other site 351607005234 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 351607005235 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 351607005236 substrate binding pocket [chemical binding]; other site 351607005237 membrane-bound complex binding site; other site 351607005238 hinge residues; other site 351607005239 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 351607005240 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 351607005241 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 351607005242 Coenzyme A transferase; Region: CoA_trans; cl17247 351607005243 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 351607005244 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 351607005245 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 351607005246 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 351607005247 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 351607005248 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 351607005249 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 351607005250 Malic enzyme, N-terminal domain; Region: malic; pfam00390 351607005251 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 351607005252 putative NAD(P) binding site [chemical binding]; other site 351607005253 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 351607005254 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 351607005255 FeS/SAM binding site; other site 351607005256 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 351607005257 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 351607005258 catalytic site [active] 351607005259 putative active site [active] 351607005260 putative substrate binding site [chemical binding]; other site 351607005261 dimer interface [polypeptide binding]; other site 351607005262 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 351607005263 putative homodimer interface [polypeptide binding]; other site 351607005264 putative homotetramer interface [polypeptide binding]; other site 351607005265 putative allosteric switch controlling residues; other site 351607005266 putative metal binding site [ion binding]; other site 351607005267 putative homodimer-homodimer interface [polypeptide binding]; other site 351607005268 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 351607005269 metal-binding site [ion binding] 351607005270 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 351607005271 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 351607005272 metal-binding site [ion binding] 351607005273 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 351607005274 Predicted membrane protein [Function unknown]; Region: COG3462 351607005275 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 351607005276 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 351607005277 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 351607005278 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 351607005279 tetramer interface [polypeptide binding]; other site 351607005280 active site 351607005281 Mg2+/Mn2+ binding site [ion binding]; other site 351607005282 citrate synthase; Provisional; Region: PRK14033 351607005283 Cold-active citrate synthase (CS) from an Antarctic bacterial strain DS2-3R (Ds)-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...; Region: DsCS_like; cd06111 351607005284 dimer interface [polypeptide binding]; other site 351607005285 active site 351607005286 citrylCoA binding site [chemical binding]; other site 351607005287 oxalacetate/citrate binding site [chemical binding]; other site 351607005288 coenzyme A binding site [chemical binding]; other site 351607005289 catalytic triad [active] 351607005290 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 351607005291 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 351607005292 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 351607005293 PA14 domain; Region: PA14; cl08459 351607005294 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 351607005295 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 351607005296 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 351607005297 CoenzymeA binding site [chemical binding]; other site 351607005298 subunit interaction site [polypeptide binding]; other site 351607005299 PHB binding site; other site 351607005300 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607005301 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607005302 metal binding site [ion binding]; metal-binding site 351607005303 active site 351607005304 I-site; other site 351607005305 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607005306 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 351607005307 peptidase domain interface [polypeptide binding]; other site 351607005308 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 351607005309 active site 351607005310 catalytic triad [active] 351607005311 calcium binding site [ion binding]; other site 351607005312 Predicted transcriptional regulator [Transcription]; Region: COG2345 351607005313 GTP cyclohydrolase I; Provisional; Region: PLN03044 351607005314 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 351607005315 active site 351607005316 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 351607005317 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 351607005318 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 351607005319 nucleotide binding site [chemical binding]; other site 351607005320 BioY family; Region: BioY; pfam02632 351607005321 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 351607005322 active site clefts [active] 351607005323 zinc binding site [ion binding]; other site 351607005324 dimer interface [polypeptide binding]; other site 351607005325 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 351607005326 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607005327 putative substrate translocation pore; other site 351607005328 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 351607005329 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 351607005330 active site 351607005331 catalytic residues [active] 351607005332 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 351607005333 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 351607005334 dimer interface [polypeptide binding]; other site 351607005335 active site 351607005336 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 351607005337 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 351607005338 NAD binding site [chemical binding]; other site 351607005339 homodimer interface [polypeptide binding]; other site 351607005340 active site 351607005341 substrate binding site [chemical binding]; other site 351607005342 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 351607005343 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 351607005344 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 351607005345 active site 351607005346 catalytic triad [active] 351607005347 calcium binding site [ion binding]; other site 351607005348 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607005349 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607005350 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 351607005351 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 351607005352 oligomerisation interface [polypeptide binding]; other site 351607005353 mobile loop; other site 351607005354 roof hairpin; other site 351607005355 Glucose dehydrogenase; Region: glucose_DH; cd08230 351607005356 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 351607005357 NADP binding site [chemical binding]; other site 351607005358 catalytic Zn binding site [ion binding]; other site 351607005359 structural Zn binding site [ion binding]; other site 351607005360 dimer interface [polypeptide binding]; other site 351607005361 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 351607005362 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 351607005363 catalytic triad [active] 351607005364 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 351607005365 active site 351607005366 dimerization interface [polypeptide binding]; other site 351607005367 ribonuclease PH; Reviewed; Region: rph; PRK00173 351607005368 Ribonuclease PH; Region: RNase_PH_bact; cd11362 351607005369 hexamer interface [polypeptide binding]; other site 351607005370 active site 351607005371 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 351607005372 glutamate racemase; Provisional; Region: PRK00865 351607005373 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 351607005374 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 351607005375 dimer interface [polypeptide binding]; other site 351607005376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607005377 catalytic residue [active] 351607005378 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 351607005379 MoaE interaction surface [polypeptide binding]; other site 351607005380 MoeB interaction surface [polypeptide binding]; other site 351607005381 thiocarboxylated glycine; other site 351607005382 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 351607005383 MPN+ (JAMM) motif; other site 351607005384 Zinc-binding site [ion binding]; other site 351607005385 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 351607005386 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 351607005387 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 351607005388 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 351607005389 active site 351607005390 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 351607005391 substrate binding pocket [chemical binding]; other site 351607005392 substrate-Mg2+ binding site; other site 351607005393 aspartate-rich region 1; other site 351607005394 aspartate-rich region 2; other site 351607005395 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 351607005396 active site lid residues [active] 351607005397 substrate binding pocket [chemical binding]; other site 351607005398 catalytic residues [active] 351607005399 substrate-Mg2+ binding site; other site 351607005400 aspartate-rich region 1; other site 351607005401 aspartate-rich region 2; other site 351607005402 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 351607005403 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 351607005404 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 351607005405 substrate binding pocket [chemical binding]; other site 351607005406 chain length determination region; other site 351607005407 substrate-Mg2+ binding site; other site 351607005408 catalytic residues [active] 351607005409 aspartate-rich region 1; other site 351607005410 active site lid residues [active] 351607005411 aspartate-rich region 2; other site 351607005412 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 351607005413 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 351607005414 Active site cavity [active] 351607005415 catalytic acid [active] 351607005416 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 351607005417 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 351607005418 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 351607005419 FeS/SAM binding site; other site 351607005420 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 351607005421 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 351607005422 endoglucanase; Region: PLN02420 351607005423 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; pfam00759 351607005424 Cellulose binding domain; Region: CBM_3; smart01067 351607005425 Cellulose binding domain; Region: CBM_3; smart01067 351607005426 Cellulose binding domain; Region: CBM_2; pfam00553 351607005427 Protein of unknown function (DUF3048); Region: DUF3048; pfam11258 351607005428 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 351607005429 hypothetical protein; Validated; Region: PRK00228 351607005430 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 351607005431 conserved cys residue [active] 351607005432 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 351607005433 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 351607005434 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 351607005435 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 351607005436 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 351607005437 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 351607005438 classical (c) SDRs; Region: SDR_c; cd05233 351607005439 NAD(P) binding site [chemical binding]; other site 351607005440 active site 351607005441 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351607005442 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 351607005443 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 351607005444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607005445 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 351607005446 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 351607005447 DNA binding residues [nucleotide binding] 351607005448 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 351607005449 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 351607005450 acyl-activating enzyme (AAE) consensus motif; other site 351607005451 putative AMP binding site [chemical binding]; other site 351607005452 putative active site [active] 351607005453 putative CoA binding site [chemical binding]; other site 351607005454 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 351607005455 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 351607005456 active site 351607005457 catalytic tetrad [active] 351607005458 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351607005459 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 351607005460 protein binding site [polypeptide binding]; other site 351607005461 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 351607005462 Isochorismatase family; Region: Isochorismatase; pfam00857 351607005463 catalytic triad [active] 351607005464 conserved cis-peptide bond; other site 351607005465 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607005466 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 351607005467 putative substrate translocation pore; other site 351607005468 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 351607005469 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 351607005470 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607005471 active site 351607005472 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 351607005473 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 351607005474 THF binding site; other site 351607005475 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 351607005476 substrate binding site [chemical binding]; other site 351607005477 THF binding site; other site 351607005478 zinc-binding site [ion binding]; other site 351607005479 ATP cone domain; Region: ATP-cone; pfam03477 351607005480 ribonucleoside-diphosphate reductase, alpha subunit; Region: NrdE_NrdA; TIGR02506 351607005481 Class I ribonucleotide reductase; Region: RNR_I; cd01679 351607005482 active site 351607005483 dimer interface [polypeptide binding]; other site 351607005484 catalytic residues [active] 351607005485 effector binding site; other site 351607005486 R2 peptide binding site; other site 351607005487 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 351607005488 dimer interface [polypeptide binding]; other site 351607005489 putative radical transfer pathway; other site 351607005490 diiron center [ion binding]; other site 351607005491 tyrosyl radical; other site 351607005492 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351607005493 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 351607005494 SmpB-tmRNA interface; other site 351607005495 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 351607005496 C-terminal peptidase (prc); Region: prc; TIGR00225 351607005497 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 351607005498 protein binding site [polypeptide binding]; other site 351607005499 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 351607005500 Catalytic dyad [active] 351607005501 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 351607005502 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 351607005503 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 351607005504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607005505 Walker A/P-loop; other site 351607005506 ATP binding site [chemical binding]; other site 351607005507 Q-loop/lid; other site 351607005508 ABC transporter signature motif; other site 351607005509 Walker B; other site 351607005510 D-loop; other site 351607005511 H-loop/switch region; other site 351607005512 peptide chain release factor 2; Validated; Region: prfB; PRK00578 351607005513 This domain is found in peptide chain release factors; Region: PCRF; smart00937 351607005514 RF-1 domain; Region: RF-1; pfam00472 351607005515 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 351607005516 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351607005517 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 351607005518 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 351607005519 ATP binding site [chemical binding]; other site 351607005520 Walker A motif; other site 351607005521 hexamer interface [polypeptide binding]; other site 351607005522 Walker B motif; other site 351607005523 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607005524 metal binding site [ion binding]; metal-binding site 351607005525 active site 351607005526 I-site; other site 351607005527 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607005528 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 351607005529 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 351607005530 phosphopeptide binding site; other site 351607005531 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 351607005532 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 351607005533 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 351607005534 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 351607005535 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated; Region: PRK07239 351607005536 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 351607005537 active site 351607005538 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 351607005539 nitrite reductase subunit NirD; Provisional; Region: PRK14989 351607005540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607005541 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351607005542 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351607005543 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351607005544 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 351607005545 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 351607005546 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 351607005547 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 351607005548 [4Fe-4S] binding site [ion binding]; other site 351607005549 molybdopterin cofactor binding site; other site 351607005550 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 351607005551 molybdopterin cofactor binding site; other site 351607005552 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 351607005553 LabA_like proteins; Region: LabA_like; cd06167 351607005554 putative metal binding site [ion binding]; other site 351607005555 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 351607005556 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 351607005557 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351607005558 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 351607005559 NAD(P) binding site [chemical binding]; other site 351607005560 catalytic residues [active] 351607005561 HAMP domain; Region: HAMP; pfam00672 351607005562 dimerization interface [polypeptide binding]; other site 351607005563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351607005564 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351607005565 dimer interface [polypeptide binding]; other site 351607005566 putative CheW interface [polypeptide binding]; other site 351607005567 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351607005568 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 351607005569 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 351607005570 Helix-turn-helix domain; Region: HTH_17; pfam12728 351607005571 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 351607005572 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 351607005573 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 351607005574 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 351607005575 nucleotide binding region [chemical binding]; other site 351607005576 SEC-C motif; Region: SEC-C; pfam02810 351607005577 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 351607005578 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005579 active site 351607005580 phosphorylation site [posttranslational modification] 351607005581 intermolecular recognition site; other site 351607005582 dimerization interface [polypeptide binding]; other site 351607005583 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 351607005584 DNA binding residues [nucleotide binding] 351607005585 dimerization interface [polypeptide binding]; other site 351607005586 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 351607005587 30S subunit binding site; other site 351607005588 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 351607005589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607005590 active site 351607005591 lipoprotein LpqB; Provisional; Region: PRK13613 351607005592 Sporulation and spore germination; Region: Germane; pfam10646 351607005593 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351607005594 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 351607005595 dimerization interface [polypeptide binding]; other site 351607005596 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 351607005597 dimer interface [polypeptide binding]; other site 351607005598 phosphorylation site [posttranslational modification] 351607005599 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 351607005600 ATP binding site [chemical binding]; other site 351607005601 Mg2+ binding site [ion binding]; other site 351607005602 G-X-G motif; other site 351607005603 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607005604 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005605 active site 351607005606 phosphorylation site [posttranslational modification] 351607005607 intermolecular recognition site; other site 351607005608 dimerization interface [polypeptide binding]; other site 351607005609 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 351607005610 DNA binding site [nucleotide binding] 351607005611 Protein of unknown function DUF45; Region: DUF45; cl00636 351607005612 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 351607005613 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 351607005614 ABC1 family; Region: ABC1; pfam03109 351607005615 serine/threonine protein kinase; Provisional; Region: PRK14879 351607005616 Transcription factor WhiB; Region: Whib; pfam02467 351607005617 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 351607005618 Part of AAA domain; Region: AAA_19; pfam13245 351607005619 Family description; Region: UvrD_C_2; pfam13538 351607005620 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 351607005621 catalytic residues [active] 351607005622 hypothetical protein; Provisional; Region: PRK08201 351607005623 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 351607005624 metal binding site [ion binding]; metal-binding site 351607005625 putative dimer interface [polypeptide binding]; other site 351607005626 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 351607005627 Ligand Binding Site [chemical binding]; other site 351607005628 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351607005629 Part of AAA domain; Region: AAA_19; pfam13245 351607005630 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 351607005631 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 351607005632 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 351607005633 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 351607005634 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 351607005635 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 351607005636 ATP binding site [chemical binding]; other site 351607005637 substrate interface [chemical binding]; other site 351607005638 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 351607005639 active site residue [active] 351607005640 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 351607005641 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351607005642 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 351607005643 catalytic site [active] 351607005644 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 351607005645 Methyltransferase domain; Region: Methyltransf_11; pfam08241 351607005646 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 351607005647 interchain domain interface [polypeptide binding]; other site 351607005648 intrachain domain interface; other site 351607005649 heme bH binding site [chemical binding]; other site 351607005650 Qi binding site; other site 351607005651 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 351607005652 heme bL binding site [chemical binding]; other site 351607005653 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 351607005654 Qo binding site; other site 351607005655 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 351607005656 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 351607005657 dinuclear metal binding motif [ion binding]; other site 351607005658 Response regulator receiver domain; Region: Response_reg; pfam00072 351607005659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005660 active site 351607005661 phosphorylation site [posttranslational modification] 351607005662 intermolecular recognition site; other site 351607005663 dimerization interface [polypeptide binding]; other site 351607005664 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 351607005665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005666 Response regulator receiver domain; Region: Response_reg; pfam00072 351607005667 active site 351607005668 phosphorylation site [posttranslational modification] 351607005669 intermolecular recognition site; other site 351607005670 dimerization interface [polypeptide binding]; other site 351607005671 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 351607005672 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 351607005673 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 351607005674 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 351607005675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005676 active site 351607005677 phosphorylation site [posttranslational modification] 351607005678 intermolecular recognition site; other site 351607005679 dimerization interface [polypeptide binding]; other site 351607005680 CheB methylesterase; Region: CheB_methylest; pfam01339 351607005681 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 351607005682 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 351607005683 putative binding surface; other site 351607005684 active site 351607005685 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 351607005686 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 351607005687 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 351607005688 ATP binding site [chemical binding]; other site 351607005689 Mg2+ binding site [ion binding]; other site 351607005690 G-X-G motif; other site 351607005691 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 351607005692 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 351607005693 Low molecular weight phosphatase family; Region: LMWPc; cd00115 351607005694 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 351607005695 active site 351607005696 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 351607005697 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 351607005698 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 351607005699 active site 351607005700 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 351607005701 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 351607005702 nudix motif; other site 351607005703 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607005704 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607005705 DNA binding site [nucleotide binding] 351607005706 domain linker motif; other site 351607005707 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 351607005708 putative dimerization interface [polypeptide binding]; other site 351607005709 putative ligand binding site [chemical binding]; other site 351607005710 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 351607005711 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 351607005712 tetrameric interface [polypeptide binding]; other site 351607005713 NAD binding site [chemical binding]; other site 351607005714 catalytic residues [active] 351607005715 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 351607005716 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 351607005717 PYR/PP interface [polypeptide binding]; other site 351607005718 dimer interface [polypeptide binding]; other site 351607005719 TPP binding site [chemical binding]; other site 351607005720 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 351607005721 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 351607005722 TPP-binding site; other site 351607005723 KduI/IolB family; Region: KduI; pfam04962 351607005724 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351607005725 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 351607005726 substrate binding site [chemical binding]; other site 351607005727 ATP binding site [chemical binding]; other site 351607005728 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 351607005729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351607005730 DNA-binding site [nucleotide binding]; DNA binding site 351607005731 UTRA domain; Region: UTRA; pfam07702 351607005732 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607005733 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607005734 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607005735 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 351607005736 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 351607005737 putative ligand binding site [chemical binding]; other site 351607005738 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 351607005739 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 351607005740 TM-ABC transporter signature motif; other site 351607005741 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 351607005742 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 351607005743 Walker A/P-loop; other site 351607005744 ATP binding site [chemical binding]; other site 351607005745 Q-loop/lid; other site 351607005746 ABC transporter signature motif; other site 351607005747 Walker B; other site 351607005748 D-loop; other site 351607005749 H-loop/switch region; other site 351607005750 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607005751 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607005752 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607005753 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 351607005754 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607005755 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607005756 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 351607005757 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 351607005758 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607005759 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607005760 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 351607005761 short chain dehydrogenase; Provisional; Region: PRK06198 351607005762 classical (c) SDRs; Region: SDR_c; cd05233 351607005763 NAD(P) binding site [chemical binding]; other site 351607005764 active site 351607005765 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 351607005766 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 351607005767 PRC-barrel domain; Region: PRC; pfam05239 351607005768 MgtE intracellular N domain; Region: MgtE_N; smart00924 351607005769 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 351607005770 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 351607005771 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 351607005772 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 351607005773 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 351607005774 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 351607005775 ligand binding site; other site 351607005776 oligomer interface; other site 351607005777 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 351607005778 dimer interface [polypeptide binding]; other site 351607005779 N-terminal domain interface [polypeptide binding]; other site 351607005780 sulfate 1 binding site; other site 351607005781 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 351607005782 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 351607005783 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351607005784 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351607005785 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 351607005786 Walker A motif; other site 351607005787 ATP binding site [chemical binding]; other site 351607005788 Walker B motif; other site 351607005789 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 351607005790 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 351607005791 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 351607005792 Putative zinc-finger; Region: zf-HC2; pfam13490 351607005793 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 351607005794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607005795 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 351607005796 DNA binding residues [nucleotide binding] 351607005797 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 351607005798 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 351607005799 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 351607005800 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 351607005801 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 351607005802 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 351607005803 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 351607005804 Sporulation and spore germination; Region: Germane; pfam10646 351607005805 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 351607005806 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 351607005807 dimer interface [polypeptide binding]; other site 351607005808 phosphorylation site [posttranslational modification] 351607005809 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 351607005810 ATP binding site [chemical binding]; other site 351607005811 Mg2+ binding site [ion binding]; other site 351607005812 G-X-G motif; other site 351607005813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607005814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005815 active site 351607005816 phosphorylation site [posttranslational modification] 351607005817 intermolecular recognition site; other site 351607005818 dimerization interface [polypeptide binding]; other site 351607005819 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 351607005820 DNA binding site [nucleotide binding] 351607005821 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 351607005822 anti sigma factor interaction site; other site 351607005823 regulatory phosphorylation site [posttranslational modification]; other site 351607005824 multifunctional aminopeptidase A; Provisional; Region: PRK00913 351607005825 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 351607005826 interface (dimer of trimers) [polypeptide binding]; other site 351607005827 Substrate-binding/catalytic site; other site 351607005828 Zn-binding sites [ion binding]; other site 351607005829 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 351607005830 enoyl-CoA hydratase; Provisional; Region: PRK06688 351607005831 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 351607005832 substrate binding site [chemical binding]; other site 351607005833 oxyanion hole (OAH) forming residues; other site 351607005834 trimer interface [polypeptide binding]; other site 351607005835 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 351607005836 DivIVA domain; Region: DivI1A_domain; TIGR03544 351607005837 dihydropteroate synthase; Region: DHPS; TIGR01496 351607005838 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 351607005839 substrate binding pocket [chemical binding]; other site 351607005840 dimer interface [polypeptide binding]; other site 351607005841 inhibitor binding site; inhibition site 351607005842 PA2301 is an uncharacterized Pseudomonas aeruginosa protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's...; Region: PA2301; cd04939 351607005843 putative deacylase active site [active] 351607005844 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 351607005845 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 351607005846 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 351607005847 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 351607005848 metal binding site [ion binding]; metal-binding site 351607005849 putative dimer interface [polypeptide binding]; other site 351607005850 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 351607005851 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 351607005852 trimer interface [polypeptide binding]; other site 351607005853 active site 351607005854 substrate binding site [chemical binding]; other site 351607005855 CoA binding site [chemical binding]; other site 351607005856 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 351607005857 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 351607005858 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 351607005859 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 351607005860 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 351607005861 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 351607005862 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 351607005863 catalytic triad [active] 351607005864 short chain dehydrogenase; Provisional; Region: PRK06057 351607005865 classical (c) SDRs; Region: SDR_c; cd05233 351607005866 NAD(P) binding site [chemical binding]; other site 351607005867 active site 351607005868 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351607005869 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 351607005870 NAD(P) binding site [chemical binding]; other site 351607005871 catalytic residues [active] 351607005872 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 351607005873 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 351607005874 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 351607005875 Transcriptional regulators [Transcription]; Region: FadR; COG2186 351607005876 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 351607005877 DNA-binding site [nucleotide binding]; DNA binding site 351607005878 FCD domain; Region: FCD; pfam07729 351607005879 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 351607005880 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 351607005881 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 351607005882 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 351607005883 succinyldiaminopimelate transaminase; Region: DapC; TIGR03537 351607005884 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607005885 homodimer interface [polypeptide binding]; other site 351607005886 catalytic residue [active] 351607005887 Ferredoxin [Energy production and conversion]; Region: COG1146 351607005888 4Fe-4S binding domain; Region: Fer4; pfam00037 351607005889 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 351607005890 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 351607005891 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 351607005892 RmuC family; Region: RmuC; pfam02646 351607005893 GTP-binding protein YchF; Reviewed; Region: PRK09601 351607005894 YchF GTPase; Region: YchF; cd01900 351607005895 G1 box; other site 351607005896 GTP/Mg2+ binding site [chemical binding]; other site 351607005897 Switch I region; other site 351607005898 G2 box; other site 351607005899 Switch II region; other site 351607005900 G3 box; other site 351607005901 G4 box; other site 351607005902 G5 box; other site 351607005903 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 351607005904 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 351607005905 aromatic arch; other site 351607005906 DCoH dimer interaction site [polypeptide binding]; other site 351607005907 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 351607005908 DCoH tetramer interaction site [polypeptide binding]; other site 351607005909 substrate binding site [chemical binding]; other site 351607005910 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 351607005911 active site 351607005912 8-oxo-dGMP binding site [chemical binding]; other site 351607005913 nudix motif; other site 351607005914 metal binding site [ion binding]; metal-binding site 351607005915 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 351607005916 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 351607005917 catalytic loop [active] 351607005918 iron binding site [ion binding]; other site 351607005919 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 351607005920 L-aspartate oxidase; Provisional; Region: PRK06175 351607005921 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 351607005922 Predicted membrane protein [General function prediction only]; Region: COG4194 351607005923 N-acetyl-1-D-myo-inositol-2-amino-2-deoxy-alpha-D- glucopyranoside deacetylase; Region: mycothiol_MshB; TIGR03445 351607005924 26S protease regulatory subunit 6B-like protein; Provisional; Region: PTZ00454 351607005925 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 351607005926 Walker A motif; other site 351607005927 ATP binding site [chemical binding]; other site 351607005928 Walker B motif; other site 351607005929 Peptidase family M41; Region: Peptidase_M41; pfam01434 351607005930 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 351607005931 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 351607005932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351607005933 dimer interface [polypeptide binding]; other site 351607005934 putative CheW interface [polypeptide binding]; other site 351607005935 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 351607005936 putative binding surface; other site 351607005937 active site 351607005938 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 351607005939 ATP binding site [chemical binding]; other site 351607005940 Mg2+ binding site [ion binding]; other site 351607005941 G-X-G motif; other site 351607005942 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 351607005943 Response regulator receiver domain; Region: Response_reg; pfam00072 351607005944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005945 active site 351607005946 phosphorylation site [posttranslational modification] 351607005947 intermolecular recognition site; other site 351607005948 dimerization interface [polypeptide binding]; other site 351607005949 Response regulator receiver domain; Region: Response_reg; pfam00072 351607005950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607005951 active site 351607005952 phosphorylation site [posttranslational modification] 351607005953 intermolecular recognition site; other site 351607005954 dimerization interface [polypeptide binding]; other site 351607005955 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 351607005956 GAF domain; Region: GAF; cl17456 351607005957 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 351607005958 generic binding surface II; other site 351607005959 generic binding surface I; other site 351607005960 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 351607005961 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 351607005962 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 351607005963 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 351607005964 putative active site [active] 351607005965 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 351607005966 fumarate hydratase; Reviewed; Region: fumC; PRK00485 351607005967 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 351607005968 active sites [active] 351607005969 tetramer interface [polypeptide binding]; other site 351607005970 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 351607005971 N-acetyl-D-glucosamine binding site [chemical binding]; other site 351607005972 catalytic residue [active] 351607005973 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 351607005974 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 351607005975 catalytic residue [active] 351607005976 putative FPP diphosphate binding site; other site 351607005977 putative FPP binding hydrophobic cleft; other site 351607005978 dimer interface [polypeptide binding]; other site 351607005979 putative IPP diphosphate binding site; other site 351607005980 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607005981 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 351607005982 putative active site [active] 351607005983 heme pocket [chemical binding]; other site 351607005984 PAS domain; Region: PAS; smart00091 351607005985 putative active site [active] 351607005986 heme pocket [chemical binding]; other site 351607005987 GAF domain; Region: GAF; cl17456 351607005988 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 351607005989 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 351607005990 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 351607005991 catalytic residues [active] 351607005992 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 351607005993 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 351607005994 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 351607005995 DNA binding site [nucleotide binding] 351607005996 active site 351607005997 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 351607005998 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 351607005999 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 351607006000 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 351607006001 threonine dehydratase; Provisional; Region: PRK08198 351607006002 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 351607006003 tetramer interface [polypeptide binding]; other site 351607006004 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607006005 catalytic residue [active] 351607006006 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 351607006007 MarR family; Region: MarR; pfam01047 351607006008 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 351607006009 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 351607006010 putative substrate translocation pore; other site 351607006011 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 351607006012 FIST N domain; Region: FIST; pfam08495 351607006013 FIST C domain; Region: FIST_C; pfam10442 351607006014 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 351607006015 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 351607006016 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 351607006017 metal ion-dependent adhesion site (MIDAS); other site 351607006018 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 351607006019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607006020 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 351607006021 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607006022 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 351607006023 Protein of unknown function DUF72; Region: DUF72; pfam01904 351607006024 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 351607006025 Mechanosensitive ion channel; Region: MS_channel; pfam00924 351607006026 methionine sulfoxide reductase A; Provisional; Region: PRK00058 351607006027 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 351607006028 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 351607006029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607006030 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 351607006031 Fe-S cluster binding site [ion binding]; other site 351607006032 DNA binding site [nucleotide binding] 351607006033 active site 351607006034 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 351607006035 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 351607006036 active site 351607006037 catalytic triad [active] 351607006038 GAF domain; Region: GAF_3; pfam13492 351607006039 GAF domain; Region: GAF_2; pfam13185 351607006040 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 351607006041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 351607006042 metal binding site [ion binding]; metal-binding site 351607006043 active site 351607006044 I-site; other site 351607006045 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607006046 exopolyphosphatase; Region: exo_poly_only; TIGR03706 351607006047 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 351607006048 Protein of unknown function (DUF501); Region: DUF501; pfam04417 351607006049 Septum formation initiator; Region: DivIC; pfam04977 351607006050 enolase; Provisional; Region: eno; PRK00077 351607006051 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 351607006052 dimer interface [polypeptide binding]; other site 351607006053 metal binding site [ion binding]; metal-binding site 351607006054 substrate binding pocket [chemical binding]; other site 351607006055 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 351607006056 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 351607006057 homodimer interface [polypeptide binding]; other site 351607006058 metal binding site [ion binding]; metal-binding site 351607006059 SurA N-terminal domain; Region: SurA_N; pfam09312 351607006060 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 351607006061 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 351607006062 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607006063 active site 351607006064 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607006065 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 351607006066 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 351607006067 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 351607006068 ATP binding site [chemical binding]; other site 351607006069 putative Mg++ binding site [ion binding]; other site 351607006070 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 351607006071 nucleotide binding region [chemical binding]; other site 351607006072 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 351607006073 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 351607006074 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 351607006075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607006076 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 351607006077 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 351607006078 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 351607006079 NodB motif; other site 351607006080 putative active site [active] 351607006081 putative catalytic site [active] 351607006082 putative Zn binding site [ion binding]; other site 351607006083 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 351607006084 Nucleotidyl transferase of unknown function (DUF2204); Region: DUF2204; cl17690 351607006085 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 351607006086 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607006087 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 351607006088 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607006089 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 351607006090 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607006091 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006092 Right handed beta helix region; Region: Beta_helix; pfam13229 351607006093 Pectate lyase; Region: Pec_lyase_C; cl01593 351607006094 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 351607006095 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 351607006096 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 351607006097 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 351607006098 putative homodimer interface [polypeptide binding]; other site 351607006099 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607006100 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 351607006101 Walker A/P-loop; other site 351607006102 ATP binding site [chemical binding]; other site 351607006103 Q-loop/lid; other site 351607006104 ABC transporter signature motif; other site 351607006105 Walker B; other site 351607006106 D-loop; other site 351607006107 H-loop/switch region; other site 351607006108 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 351607006109 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 351607006110 active site 351607006111 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006112 Bacterial Ig-like domain; Region: Big_5; pfam13205 351607006113 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006114 Bacterial Ig-like domain; Region: Big_5; pfam13205 351607006115 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006116 Bacterial Ig-like domain; Region: Big_5; pfam13205 351607006117 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006118 Domain of unknown function (DUF4082); Region: DUF4082; pfam13313 351607006119 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351607006120 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 351607006121 inhibitor-cofactor binding pocket; inhibition site 351607006122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607006123 catalytic residue [active] 351607006124 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 351607006125 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 351607006126 putative trimer interface [polypeptide binding]; other site 351607006127 putative CoA binding site [chemical binding]; other site 351607006128 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 351607006129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 351607006130 NAD(P) binding site [chemical binding]; other site 351607006131 active site 351607006132 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 351607006133 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 351607006134 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 351607006135 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 351607006136 inhibitor-cofactor binding pocket; inhibition site 351607006137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607006138 catalytic residue [active] 351607006139 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 351607006140 Bacterial sugar transferase; Region: Bac_transf; pfam02397 351607006141 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 351607006142 putative trimer interface [polypeptide binding]; other site 351607006143 putative active site [active] 351607006144 putative substrate binding site [chemical binding]; other site 351607006145 putative CoA binding site [chemical binding]; other site 351607006146 hydroxyglutarate oxidase; Provisional; Region: PRK11728 351607006147 Predicted dehydrogenase [General function prediction only]; Region: COG0579 351607006148 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 351607006149 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 351607006150 active site 351607006151 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 351607006152 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 351607006153 putative active site [active] 351607006154 catalytic residue [active] 351607006155 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 351607006156 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 351607006157 5S rRNA interface [nucleotide binding]; other site 351607006158 CTC domain interface [polypeptide binding]; other site 351607006159 L16 interface [polypeptide binding]; other site 351607006160 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 351607006161 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 351607006162 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607006163 active site 351607006164 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 351607006165 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 351607006166 Substrate binding site; other site 351607006167 Mg++ binding site; other site 351607006168 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 351607006169 active site 351607006170 substrate binding site [chemical binding]; other site 351607006171 CoA binding site [chemical binding]; other site 351607006172 Pirin-related protein [General function prediction only]; Region: COG1741 351607006173 Pirin; Region: Pirin; pfam02678 351607006174 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 351607006175 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 351607006176 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 351607006177 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 351607006178 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 351607006179 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 351607006180 active site 351607006181 homotetramer interface [polypeptide binding]; other site 351607006182 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 351607006183 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 351607006184 EamA-like transporter family; Region: EamA; pfam00892 351607006185 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 351607006186 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 351607006187 NAD(P) binding site [chemical binding]; other site 351607006188 catalytic residues [active] 351607006189 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 351607006190 Transcriptional regulators [Transcription]; Region: MarR; COG1846 351607006191 MarR family; Region: MarR_2; pfam12802 351607006192 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 351607006193 putative substrate translocation pore; other site 351607006194 Guanylyl transferase CofC like; Region: CofC; cl17472 351607006195 F420-0--gamma-glutamyl ligase; Provisional; Region: PRK13294 351607006196 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 351607006197 F420 biosynthesis protein FbiB, C-terminal domain; Region: F420_FbiB_CTERM; TIGR03553 351607006198 FMN binding site [chemical binding]; other site 351607006199 dimer interface [polypeptide binding]; other site 351607006200 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 351607006201 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 351607006202 PSP1 C-terminal conserved region; Region: PSP1; cl00770 351607006203 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 351607006204 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 351607006205 ATP-binding site [chemical binding]; other site 351607006206 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 351607006207 DNA polymerase III subunit delta'; Validated; Region: PRK07940 351607006208 DNA polymerase III subunit delta'; Validated; Region: PRK08485 351607006209 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 351607006210 putative substrate translocation pore; other site 351607006211 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 351607006212 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 351607006213 TMP-binding site; other site 351607006214 ATP-binding site [chemical binding]; other site 351607006215 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 351607006216 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 351607006217 active site 351607006218 interdomain interaction site; other site 351607006219 putative metal-binding site [ion binding]; other site 351607006220 nucleotide binding site [chemical binding]; other site 351607006221 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 351607006222 domain I; other site 351607006223 DNA binding groove [nucleotide binding] 351607006224 phosphate binding site [ion binding]; other site 351607006225 domain II; other site 351607006226 domain III; other site 351607006227 nucleotide binding site [chemical binding]; other site 351607006228 catalytic site [active] 351607006229 domain IV; other site 351607006230 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 351607006231 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 351607006232 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 351607006233 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 351607006234 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 351607006235 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 351607006236 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351607006237 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 351607006238 anti sigma factor interaction site; other site 351607006239 regulatory phosphorylation site [posttranslational modification]; other site 351607006240 DEAD-like helicases superfamily; Region: DEXDc; smart00487 351607006241 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 351607006242 putative Mg++ binding site [ion binding]; other site 351607006243 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 351607006244 nucleotide binding region [chemical binding]; other site 351607006245 ATP-binding site [chemical binding]; other site 351607006246 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 351607006247 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 351607006248 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 351607006249 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 351607006250 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 351607006251 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 351607006252 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 351607006253 ATP binding site [chemical binding]; other site 351607006254 Walker A motif; other site 351607006255 hexamer interface [polypeptide binding]; other site 351607006256 Walker B motif; other site 351607006257 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 351607006258 acetyl-CoA synthetase; Provisional; Region: PRK00174 351607006259 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 351607006260 active site 351607006261 CoA binding site [chemical binding]; other site 351607006262 acyl-activating enzyme (AAE) consensus motif; other site 351607006263 AMP binding site [chemical binding]; other site 351607006264 acetate binding site [chemical binding]; other site 351607006265 potassium/proton antiporter; Reviewed; Region: PRK05326 351607006266 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 351607006267 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 351607006268 Cu(I) binding site [ion binding]; other site 351607006269 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 351607006270 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 351607006271 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351607006272 Domain of unknown function (DUF309); Region: DUF309; pfam03745 351607006273 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 351607006274 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 351607006275 putative active site [active] 351607006276 putative CoA binding site [chemical binding]; other site 351607006277 nudix motif; other site 351607006278 metal binding site [ion binding]; metal-binding site 351607006279 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 351607006280 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 351607006281 catalytic residues [active] 351607006282 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 351607006283 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 351607006284 minor groove reading motif; other site 351607006285 helix-hairpin-helix signature motif; other site 351607006286 substrate binding pocket [chemical binding]; other site 351607006287 active site 351607006288 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 351607006289 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 351607006290 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 351607006291 ligand binding site [chemical binding]; other site 351607006292 flexible hinge region; other site 351607006293 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 351607006294 putative switch regulator; other site 351607006295 non-specific DNA interactions [nucleotide binding]; other site 351607006296 DNA binding site [nucleotide binding] 351607006297 sequence specific DNA binding site [nucleotide binding]; other site 351607006298 putative cAMP binding site [chemical binding]; other site 351607006299 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 351607006300 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 351607006301 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 351607006302 nudix motif; other site 351607006303 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 351607006304 homotrimer interaction site [polypeptide binding]; other site 351607006305 putative active site [active] 351607006306 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 351607006307 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 351607006308 DTAP/Switch II; other site 351607006309 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 351607006310 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 351607006311 DTAP/Switch II; other site 351607006312 Switch I; other site 351607006313 Transcription factor WhiB; Region: Whib; pfam02467 351607006314 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 351607006315 Transglycosylase; Region: Transgly; pfam00912 351607006316 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 351607006317 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 351607006318 Yqey-like protein; Region: YqeY; pfam09424 351607006319 phosphodiesterase YaeI; Provisional; Region: PRK11340 351607006320 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 351607006321 putative active site [active] 351607006322 putative metal binding site [ion binding]; other site 351607006323 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 351607006324 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 351607006325 dimerization interface [polypeptide binding]; other site 351607006326 DPS ferroxidase diiron center [ion binding]; other site 351607006327 ion pore; other site 351607006328 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 351607006329 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 351607006330 BNR repeat-like domain; Region: BNR_2; pfam13088 351607006331 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 351607006332 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 351607006333 aspartate kinase; Reviewed; Region: PRK06635 351607006334 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 351607006335 putative nucleotide binding site [chemical binding]; other site 351607006336 putative catalytic residues [active] 351607006337 putative Mg ion binding site [ion binding]; other site 351607006338 putative aspartate binding site [chemical binding]; other site 351607006339 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 351607006340 putative allosteric regulatory site; other site 351607006341 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 351607006342 putative allosteric regulatory residue; other site 351607006343 recombination protein RecR; Reviewed; Region: recR; PRK00076 351607006344 Helix-hairpin-helix motif; Region: HHH; pfam00633 351607006345 RecR protein; Region: RecR; pfam02132 351607006346 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 351607006347 putative active site [active] 351607006348 putative metal-binding site [ion binding]; other site 351607006349 tetramer interface [polypeptide binding]; other site 351607006350 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14952 351607006351 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 351607006352 Walker A motif; other site 351607006353 ATP binding site [chemical binding]; other site 351607006354 Walker B motif; other site 351607006355 arginine finger; other site 351607006356 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 351607006357 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 351607006358 DNA-binding site [nucleotide binding]; DNA binding site 351607006359 RNA-binding motif; other site 351607006360 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 351607006361 nucleoside/Zn binding site; other site 351607006362 dimer interface [polypeptide binding]; other site 351607006363 catalytic motif [active] 351607006364 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 351607006365 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 351607006366 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 351607006367 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 351607006368 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 351607006369 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 351607006370 ligand binding site [chemical binding]; other site 351607006371 homodimer interface [polypeptide binding]; other site 351607006372 NAD(P) binding site [chemical binding]; other site 351607006373 trimer interface B [polypeptide binding]; other site 351607006374 trimer interface A [polypeptide binding]; other site 351607006375 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 351607006376 Ubiquitin-like proteins; Region: UBQ; cl00155 351607006377 charged pocket; other site 351607006378 hydrophobic patch; other site 351607006379 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 351607006380 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 351607006381 DNA binding site [nucleotide binding] 351607006382 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 351607006383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607006384 Coenzyme A binding pocket [chemical binding]; other site 351607006385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 351607006386 Coenzyme A binding pocket [chemical binding]; other site 351607006387 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 351607006388 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 351607006389 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 351607006390 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607006391 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 351607006392 DNA binding residues [nucleotide binding] 351607006393 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 351607006394 active site 351607006395 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 351607006396 aromatic chitin/cellulose binding site residues [chemical binding]; other site 351607006397 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 351607006398 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; pfam04188 351607006399 PilZ domain; Region: PilZ; pfam07238 351607006400 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351607006401 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 351607006402 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 351607006403 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 351607006404 Walker A/P-loop; other site 351607006405 ATP binding site [chemical binding]; other site 351607006406 Q-loop/lid; other site 351607006407 ABC transporter signature motif; other site 351607006408 Walker B; other site 351607006409 D-loop; other site 351607006410 H-loop/switch region; other site 351607006411 TOBE domain; Region: TOBE; pfam03459 351607006412 sulfate transport protein; Provisional; Region: cysT; CHL00187 351607006413 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 351607006414 dimer interface [polypeptide binding]; other site 351607006415 conserved gate region; other site 351607006416 putative PBP binding loops; other site 351607006417 ABC-ATPase subunit interface; other site 351607006418 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 351607006419 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 351607006420 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 351607006421 DNA binding residues [nucleotide binding] 351607006422 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 351607006423 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 351607006424 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 351607006425 nudix motif; other site 351607006426 Acetyl xylan esterase (AXE1); Region: AXE1; pfam05448 351607006427 Transcriptional regulators [Transcription]; Region: PurR; COG1609 351607006428 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 351607006429 DNA binding site [nucleotide binding] 351607006430 domain linker motif; other site 351607006431 Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation; Region: PBP1_CatR_like; cd06296 351607006432 putative dimerization interface [polypeptide binding]; other site 351607006433 putative ligand binding site [chemical binding]; other site 351607006434 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 351607006435 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 351607006436 dimer interface [polypeptide binding]; other site 351607006437 conserved gate region; other site 351607006438 putative PBP binding loops; other site 351607006439 ABC-ATPase subunit interface; other site 351607006440 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 351607006441 dimer interface [polypeptide binding]; other site 351607006442 conserved gate region; other site 351607006443 putative PBP binding loops; other site 351607006444 ABC-ATPase subunit interface; other site 351607006445 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 351607006446 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 351607006447 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 351607006448 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 351607006449 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 351607006450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 351607006451 dimer interface [polypeptide binding]; other site 351607006452 putative CheW interface [polypeptide binding]; other site 351607006453 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 351607006454 catalytic triad [active] 351607006455 active site nucleophile [active] 351607006456 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 351607006457 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 351607006458 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 351607006459 Active Sites [active] 351607006460 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 351607006461 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351607006462 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 351607006463 Ubiquitin-like proteins; Region: UBQ; cl00155 351607006464 charged pocket; other site 351607006465 hydrophobic patch; other site 351607006466 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 351607006467 Na binding site [ion binding]; other site 351607006468 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 351607006469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607006470 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 351607006471 DNA binding residues [nucleotide binding] 351607006472 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 351607006473 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 351607006474 putative active site [active] 351607006475 putative metal binding site [ion binding]; other site 351607006476 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 351607006477 MarR family; Region: MarR; pfam01047 351607006478 Predicted transcriptional regulator [Transcription]; Region: COG1959 351607006479 Transcriptional regulator; Region: Rrf2; pfam02082 351607006480 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 351607006481 MT-A70; Region: MT-A70; cl01947 351607006482 xylose isomerase; Provisional; Region: PRK12677 351607006483 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 351607006484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 351607006485 D-xylulose kinase; Region: XylB; TIGR01312 351607006486 nucleotide binding site [chemical binding]; other site 351607006487 Vitamin K epoxide reductase family in archaea and some bacteria; Region: VKOR_arc; cd12918 351607006488 putative active site [active] 351607006489 redox center [active] 351607006490 Domain of unknown function (DUF929); Region: DUF929; pfam06053 351607006491 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 351607006492 DNA binding residues [nucleotide binding] 351607006493 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 351607006494 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 351607006495 dimerization interface [polypeptide binding]; other site 351607006496 putative ATP binding site [chemical binding]; other site 351607006497 amidophosphoribosyltransferase; Provisional; Region: PRK07847 351607006498 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 351607006499 active site 351607006500 tetramer interface [polypeptide binding]; other site 351607006501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607006502 active site 351607006503 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 351607006504 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 351607006505 dimerization interface [polypeptide binding]; other site 351607006506 ATP binding site [chemical binding]; other site 351607006507 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 351607006508 dimerization interface [polypeptide binding]; other site 351607006509 ATP binding site [chemical binding]; other site 351607006510 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 351607006511 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 351607006512 putative active site [active] 351607006513 catalytic triad [active] 351607006514 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 351607006515 Pseudomonas avirulence D protein (AvrD); Region: AvrD; pfam05655 351607006516 AAA domain; Region: AAA_28; pfam13521 351607006517 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 351607006518 Major Facilitator Superfamily; Region: MFS_1; pfam07690 351607006519 putative substrate translocation pore; other site 351607006520 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 351607006521 MarR family; Region: MarR_2; pfam12802 351607006522 replicative DNA helicase; Region: DnaB; TIGR00665 351607006523 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 351607006524 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 351607006525 Walker A motif; other site 351607006526 ATP binding site [chemical binding]; other site 351607006527 Walker B motif; other site 351607006528 DNA binding loops [nucleotide binding] 351607006529 Transcriptional regulators [Transcription]; Region: MarR; COG1846 351607006530 MarR family; Region: MarR_2; pfam12802 351607006531 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351607006532 metal binding site 2 [ion binding]; metal-binding site 351607006533 putative DNA binding helix; other site 351607006534 metal binding site 1 [ion binding]; metal-binding site 351607006535 dimer interface [polypeptide binding]; other site 351607006536 structural Zn2+ binding site [ion binding]; other site 351607006537 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 351607006538 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 351607006539 intersubunit interface [polypeptide binding]; other site 351607006540 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 351607006541 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 351607006542 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 351607006543 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 351607006544 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 351607006545 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 351607006546 ABC-ATPase subunit interface; other site 351607006547 dimer interface [polypeptide binding]; other site 351607006548 putative PBP binding regions; other site 351607006549 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 351607006550 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 351607006551 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 351607006552 Walker A motif; other site 351607006553 ATP binding site [chemical binding]; other site 351607006554 Walker B motif; other site 351607006555 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 351607006556 EamA-like transporter family; Region: EamA; pfam00892 351607006557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 351607006558 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 351607006559 active site 351607006560 substrate binding site [chemical binding]; other site 351607006561 catalytic site [active] 351607006562 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 351607006563 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 351607006564 tetramer interface [polypeptide binding]; other site 351607006565 heme binding pocket [chemical binding]; other site 351607006566 NADPH binding site [chemical binding]; other site 351607006567 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 351607006568 metal binding site 2 [ion binding]; metal-binding site 351607006569 putative DNA binding helix; other site 351607006570 metal binding site 1 [ion binding]; metal-binding site 351607006571 dimer interface [polypeptide binding]; other site 351607006572 structural Zn2+ binding site [ion binding]; other site 351607006573 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351607006574 NlpC/P60 family; Region: NLPC_P60; pfam00877 351607006575 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 351607006576 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 351607006577 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 351607006578 Response regulator receiver domain; Region: Response_reg; pfam00072 351607006579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607006580 active site 351607006581 phosphorylation site [posttranslational modification] 351607006582 intermolecular recognition site; other site 351607006583 dimerization interface [polypeptide binding]; other site 351607006584 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 351607006585 PAS fold; Region: PAS_4; pfam08448 351607006586 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 351607006587 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607006588 putative active site [active] 351607006589 heme pocket [chemical binding]; other site 351607006590 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 351607006591 dimer interface [polypeptide binding]; other site 351607006592 phosphorylation site [posttranslational modification] 351607006593 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 351607006594 ATP binding site [chemical binding]; other site 351607006595 Mg2+ binding site [ion binding]; other site 351607006596 G-X-G motif; other site 351607006597 Response regulator receiver domain; Region: Response_reg; pfam00072 351607006598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 351607006599 active site 351607006600 phosphorylation site [posttranslational modification] 351607006601 intermolecular recognition site; other site 351607006602 dimerization interface [polypeptide binding]; other site 351607006603 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 351607006604 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 351607006605 NAD(P) binding site [chemical binding]; other site 351607006606 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 351607006607 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 351607006608 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 351607006609 active site 351607006610 motif I; other site 351607006611 motif II; other site 351607006612 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 351607006613 seryl-tRNA synthetase; Provisional; Region: PRK05431 351607006614 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 351607006615 dimer interface [polypeptide binding]; other site 351607006616 active site 351607006617 motif 1; other site 351607006618 motif 2; other site 351607006619 motif 3; other site 351607006620 prephenate dehydratase; Provisional; Region: PRK11898 351607006621 Prephenate dehydratase; Region: PDT; pfam00800 351607006622 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 351607006623 putative L-Phe binding site [chemical binding]; other site 351607006624 PAS fold; Region: PAS; pfam00989 351607006625 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 351607006626 putative active site [active] 351607006627 heme pocket [chemical binding]; other site 351607006628 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 351607006629 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 351607006630 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 351607006631 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 351607006632 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 351607006633 trimer interface [polypeptide binding]; other site 351607006634 active site 351607006635 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 351607006636 4Fe-4S binding domain; Region: Fer4; pfam00037 351607006637 Cysteine-rich domain; Region: CCG; pfam02754 351607006638 Cysteine-rich domain; Region: CCG; pfam02754 351607006639 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 351607006640 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 351607006641 nucleotide binding site [chemical binding]; other site 351607006642 NEF interaction site [polypeptide binding]; other site 351607006643 SBD interface [polypeptide binding]; other site 351607006644 GrpE; Region: GrpE; pfam01025 351607006645 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 351607006646 dimer interface [polypeptide binding]; other site 351607006647 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 351607006648 chaperone protein DnaJ; Provisional; Region: PRK14295 351607006649 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 351607006650 HSP70 interaction site [polypeptide binding]; other site 351607006651 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 351607006652 Zn binding sites [ion binding]; other site 351607006653 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 351607006654 dimer interface [polypeptide binding]; other site 351607006655 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 351607006656 DNA binding residues [nucleotide binding] 351607006657 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 351607006658 putative dimer interface [polypeptide binding]; other site 351607006659 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 351607006660 Clp amino terminal domain; Region: Clp_N; pfam02861 351607006661 Clp amino terminal domain; Region: Clp_N; pfam02861 351607006662 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 351607006663 Walker A motif; other site 351607006664 ATP binding site [chemical binding]; other site 351607006665 Walker B motif; other site 351607006666 arginine finger; other site 351607006667 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 351607006668 Walker A motif; other site 351607006669 ATP binding site [chemical binding]; other site 351607006670 Walker B motif; other site 351607006671 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 351607006672 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 351607006673 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 351607006674 putative substrate binding site [chemical binding]; other site 351607006675 putative ATP binding site [chemical binding]; other site 351607006676 aminotransferase; Validated; Region: PRK07777 351607006677 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 351607006678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607006679 homodimer interface [polypeptide binding]; other site 351607006680 catalytic residue [active] 351607006681 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 351607006682 classical (c) SDRs; Region: SDR_c; cd05233 351607006683 NAD(P) binding site [chemical binding]; other site 351607006684 active site 351607006685 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 351607006686 active site 351607006687 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 351607006688 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 351607006689 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 351607006690 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 351607006691 active site 351607006692 intersubunit interface [polypeptide binding]; other site 351607006693 zinc binding site [ion binding]; other site 351607006694 Na+ binding site [ion binding]; other site 351607006695 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 351607006696 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 351607006697 GDP-binding site [chemical binding]; other site 351607006698 ACT binding site; other site 351607006699 IMP binding site; other site 351607006700 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 351607006701 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 351607006702 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 351607006703 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 351607006704 adenylosuccinate lyase; Region: purB; TIGR00928 351607006705 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 351607006706 tetramer interface [polypeptide binding]; other site 351607006707 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 351607006708 ATP binding site [chemical binding]; other site 351607006709 active site 351607006710 substrate binding site [chemical binding]; other site 351607006711 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 351607006712 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 351607006713 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 351607006714 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 351607006715 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 351607006716 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 351607006717 dimer interface [polypeptide binding]; other site 351607006718 ssDNA binding site [nucleotide binding]; other site 351607006719 tetramer (dimer of dimers) interface [polypeptide binding]; other site 351607006720 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 351607006721 Predicted integral membrane protein [Function unknown]; Region: COG5650 351607006722 Transglycosylase; Region: Transgly; pfam00912 351607006723 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 351607006724 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 351607006725 Predicted transcriptional regulators [Transcription]; Region: COG1695 351607006726 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 351607006727 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 351607006728 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 351607006729 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 351607006730 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 351607006731 active site 351607006732 NTP binding site [chemical binding]; other site 351607006733 metal binding triad [ion binding]; metal-binding site 351607006734 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 351607006735 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 351607006736 Zn2+ binding site [ion binding]; other site 351607006737 Mg2+ binding site [ion binding]; other site 351607006738 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 351607006739 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 351607006740 putative deacylase active site [active] 351607006741 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 351607006742 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 351607006743 NlpC/P60 family; Region: NLPC_P60; pfam00877 351607006744 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 351607006745 RNA polymerase sigma factor SigM; Reviewed; Region: PRK09643 351607006746 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 351607006747 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 351607006748 DNA binding residues [nucleotide binding] 351607006749 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 351607006750 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 351607006751 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 351607006752 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 351607006753 catalytic residues [active] 351607006754 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 351607006755 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351607006756 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 351607006757 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 351607006758 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 351607006759 active site 351607006760 metal binding site [ion binding]; metal-binding site 351607006761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 351607006762 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 351607006763 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 351607006764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 351607006765 homodimer interface [polypeptide binding]; other site 351607006766 catalytic residue [active] 351607006767 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 351607006768 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 351607006769 ATP-grasp domain; Region: ATP-grasp_4; cl17255 351607006770 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 351607006771 ParB-like nuclease domain; Region: ParB; smart00470 351607006772 KorB domain; Region: KorB; pfam08535 351607006773 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 351607006774 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 351607006775 Magnesium ion binding site [ion binding]; other site 351607006776 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 351607006777 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 351607006778 S-adenosylmethionine binding site [chemical binding]; other site 351607006779 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 351607006780 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 351607006781 G-X-X-G motif; other site 351607006782 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 351607006783 RxxxH motif; other site 351607006784 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 351607006785 Haemolytic domain; Region: Haemolytic; pfam01809 351607006786 Ribonuclease P; Region: Ribonuclease_P; cl00457 351607006787 Ribosomal protein L34; Region: Ribosomal_L34; cl00370