-- dump date 20120504_163558 -- class Genbank::misc_feature -- table misc_feature_note -- id note 269084000001 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269084000002 Photosystem II protein; Region: PSII; cl08223 269084000003 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 269084000004 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269084000005 oligomeric interface; other site 269084000006 putative active site [active] 269084000007 homodimer interface [polypeptide binding]; other site 269084000008 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 269084000009 RNB domain; Region: RNB; pfam00773 269084000010 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 269084000011 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 269084000012 Catalytic site [active] 269084000013 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 269084000014 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 269084000015 active site 269084000016 DNA binding site [nucleotide binding] 269084000017 ketol-acid reductoisomerase; Provisional; Region: PRK05479 269084000018 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000019 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 269084000020 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 269084000021 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 269084000022 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269084000023 oligomer interface [polypeptide binding]; other site 269084000024 active site residues [active] 269084000025 Thylakoid formation protein; Region: ThylakoidFormat; cl12138 269084000026 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 269084000027 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084000028 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084000029 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084000030 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 269084000031 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 269084000032 trimer interface [polypeptide binding]; other site 269084000033 active site 269084000034 substrate binding site [chemical binding]; other site 269084000035 CoA binding site [chemical binding]; other site 269084000036 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 269084000037 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 269084000038 tellurium resistance terB-like protein; Region: terB_like; cd07177 269084000039 metal binding site [ion binding]; metal-binding site 269084000040 polyphosphate kinase; Provisional; Region: PRK05443 269084000041 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 269084000042 putative domain interface [polypeptide binding]; other site 269084000043 putative active site [active] 269084000044 catalytic site [active] 269084000045 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 269084000046 putative domain interface [polypeptide binding]; other site 269084000047 putative active site [active] 269084000048 catalytic site [active] 269084000049 Domain of unknown function (DUF305); Region: DUF305; pfam03713 269084000050 Plastocyanin domain containing protein [General function prediction only]; Region: COG4633 269084000051 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 269084000052 metal-binding site [ion binding] 269084000053 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 269084000054 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269084000055 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084000056 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 269084000057 amphipathic channel; other site 269084000058 Asn-Pro-Ala signature motifs; other site 269084000059 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269084000060 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269084000061 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269084000062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000063 NAD(P) binding site [chemical binding]; other site 269084000064 active site 269084000065 alpha-glucosidase; Provisional; Region: PRK10137 269084000066 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 269084000067 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 269084000068 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 269084000069 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 269084000070 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 269084000071 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 269084000072 Cl- selectivity filter; other site 269084000073 Cl- binding residues [ion binding]; other site 269084000074 pore gating glutamate residue; other site 269084000075 dimer interface [polypeptide binding]; other site 269084000076 H+/Cl- coupling transport residue; other site 269084000077 arginine-tRNA ligase; Region: PLN02286 269084000078 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 269084000079 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 269084000080 active site 269084000081 HIGH motif; other site 269084000082 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 269084000083 KMSK motif region; other site 269084000084 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 269084000085 tRNA binding surface [nucleotide binding]; other site 269084000086 anticodon binding site; other site 269084000087 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 269084000088 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269084000089 active site 269084000090 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 269084000091 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_8; cd06905 269084000092 putative active site [active] 269084000093 Zn binding site [ion binding]; other site 269084000094 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 269084000095 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 269084000096 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 269084000097 G1 box; other site 269084000098 GTP/Mg2+ binding site [chemical binding]; other site 269084000099 Switch I region; other site 269084000100 G2 box; other site 269084000101 Switch II region; other site 269084000102 G3 box; other site 269084000103 G4 box; other site 269084000104 G5 box; other site 269084000105 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 269084000106 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 269084000107 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 269084000108 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 269084000109 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 269084000110 amidase catalytic site [active] 269084000111 Zn binding residues [ion binding]; other site 269084000112 substrate binding site [chemical binding]; other site 269084000113 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 269084000114 dimer interface [polypeptide binding]; other site 269084000115 phosphorylation site [posttranslational modification] 269084000116 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 269084000117 ATP binding site [chemical binding]; other site 269084000118 Mg2+ binding site [ion binding]; other site 269084000119 G-X-G motif; other site 269084000120 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 269084000121 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 269084000122 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 269084000123 Cl- selectivity filter; other site 269084000124 Cl- binding residues [ion binding]; other site 269084000125 pore gating glutamate residue; other site 269084000126 dimer interface [polypeptide binding]; other site 269084000127 H+/Cl- coupling transport residue; other site 269084000128 FOG: CBS domain [General function prediction only]; Region: COG0517 269084000129 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 269084000130 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 269084000131 Ligand Binding Site [chemical binding]; other site 269084000132 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269084000133 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269084000134 Protein of unknown function (DUF1092); Region: DUF1092; pfam06485 269084000135 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 269084000136 RNA binding site [nucleotide binding]; other site 269084000137 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 269084000138 RNA binding site [nucleotide binding]; other site 269084000139 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 269084000140 RNA binding site [nucleotide binding]; other site 269084000141 Creatinine amidohydrolase; Region: Creatininase; cl00618 269084000142 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269084000143 dinuclear metal binding motif [ion binding]; other site 269084000144 acyl-ACP reductase; Provisional; Region: PRK14982 269084000145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000146 NAD(P) binding pocket [chemical binding]; other site 269084000147 WAX2 C-terminal domain; Region: Wax2_C; pfam12076 269084000148 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 269084000149 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 269084000150 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 269084000151 classical (c) SDRs; Region: SDR_c; cd05233 269084000152 NAD(P) binding site [chemical binding]; other site 269084000153 active site 269084000154 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 269084000155 homodecamer interface [polypeptide binding]; other site 269084000156 GTP cyclohydrolase I; Provisional; Region: PLN03044 269084000157 active site 269084000158 putative catalytic site residues [active] 269084000159 zinc binding site [ion binding]; other site 269084000160 GTP-CH-I/GFRP interaction surface; other site 269084000161 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 269084000162 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 269084000163 Stage II sporulation protein; Region: SpoIID; pfam08486 269084000164 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 269084000165 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 269084000166 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 269084000167 nucleotide binding site/active site [active] 269084000168 HIT family signature motif; other site 269084000169 catalytic residue [active] 269084000170 ATP adenylyltransferase; Region: ATP_transf; pfam09830 269084000171 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 269084000172 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 269084000173 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269084000174 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084000175 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 269084000176 Fasciclin domain; Region: Fasciclin; cl02663 269084000177 S-layer homology domain; Region: SLH; pfam00395 269084000178 Membrane fusogenic activity; Region: BMFP; cl01115 269084000179 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269084000180 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269084000181 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269084000182 Substrate binding site; other site 269084000183 Cupin domain; Region: Cupin_2; cl09118 269084000184 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 269084000185 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 269084000186 protein-splicing catalytic site; other site 269084000187 thioester formation/cholesterol transfer; other site 269084000188 DNA endonuclease related to intein-encoded endonucleases [DNA replication, recombination, and repair]; Region: COG3780 269084000189 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 269084000190 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 269084000191 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 269084000192 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 269084000193 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 269084000194 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 269084000195 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 269084000196 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 269084000197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000198 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 269084000199 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 269084000200 Ribonuclease P; Region: Ribonuclease_P; cl00457 269084000201 Bacterial PH domain; Region: DUF304; cl01348 269084000202 putative inner membrane protein translocase component YidC; Provisional; Region: PRK02654 269084000203 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 269084000204 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 269084000205 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 269084000206 G-X-X-G motif; other site 269084000207 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 269084000208 RxxxH motif; other site 269084000209 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 269084000210 Ycf46; Provisional; Region: ycf46; CHL00195 269084000211 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 269084000212 Walker A motif; other site 269084000213 ATP binding site [chemical binding]; other site 269084000214 Walker B motif; other site 269084000215 arginine finger; other site 269084000216 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 269084000217 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 269084000218 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 269084000219 Peptidase family U32; Region: Peptidase_U32; cl03113 269084000220 Collagenase; Region: DUF3656; pfam12392 269084000221 Peptidase family U32; Region: Peptidase_U32; cl03113 269084000222 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 269084000223 Lumazine binding domain; Region: Lum_binding; pfam00677 269084000224 Lumazine binding domain; Region: Lum_binding; pfam00677 269084000225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084000226 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 269084000227 putative ADP-binding pocket [chemical binding]; other site 269084000228 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 269084000229 Cytochrome c; Region: Cytochrom_C; cl11414 269084000230 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 269084000231 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 269084000232 binding surface 269084000233 TPR motif; other site 269084000234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000235 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 269084000236 S-layer homology domain; Region: SLH; pfam00395 269084000237 Membrane fusogenic activity; Region: BMFP; cl01115 269084000238 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269084000239 Imelysin; Region: Peptidase_M75; cl09159 269084000240 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 269084000241 Hypothetical chloroplast protein Ycf34; Region: Ycf34; pfam10718 269084000242 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 269084000243 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 269084000244 putative active site [active] 269084000245 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269084000246 putative acyl-acceptor binding pocket; other site 269084000247 Acyl transferase domain; Region: Acyl_transf_1; cl08282 269084000248 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 269084000249 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 269084000250 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 269084000251 dimer interface [polypeptide binding]; other site 269084000252 active site 269084000253 CoA binding pocket [chemical binding]; other site 269084000254 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 269084000255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084000256 active site 269084000257 phosphorylation site [posttranslational modification] 269084000258 intermolecular recognition site; other site 269084000259 dimerization interface [polypeptide binding]; other site 269084000260 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 269084000261 DNA binding site [nucleotide binding] 269084000262 DNA repair protein RadA; Provisional; Region: PRK11823 269084000263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000264 Walker A motif; other site 269084000265 ATP binding site [chemical binding]; other site 269084000266 Walker B motif; other site 269084000267 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 269084000268 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 269084000269 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 269084000270 Walker A/P-loop; other site 269084000271 ATP binding site [chemical binding]; other site 269084000272 Q-loop/lid; other site 269084000273 ABC transporter signature motif; other site 269084000274 Walker B; other site 269084000275 D-loop; other site 269084000276 H-loop/switch region; other site 269084000277 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 269084000278 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 269084000279 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 269084000280 trimer interface [polypeptide binding]; other site 269084000281 active site 269084000282 UDP-GlcNAc binding site [chemical binding]; other site 269084000283 lipid binding site [chemical binding]; lipid-binding site 269084000284 Quinolinate synthetase A protein; Region: NadA; cl00420 269084000285 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 269084000286 active site clefts [active] 269084000287 zinc binding site [ion binding]; other site 269084000288 dimer interface [polypeptide binding]; other site 269084000289 Domain of unknown function DUF11; Region: DUF11; cl15273 269084000290 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 269084000291 hypothetical protein; Provisional; Region: PRK08185 269084000292 intersubunit interface [polypeptide binding]; other site 269084000293 active site 269084000294 zinc binding site [ion binding]; other site 269084000295 Na+ binding site [ion binding]; other site 269084000296 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084000297 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269084000298 active site 269084000299 metal binding site [ion binding]; metal-binding site 269084000300 CobD/Cbib protein; Region: CobD_Cbib; cl00561 269084000301 homoserine kinase; Provisional; Region: PRK01212 269084000302 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 269084000303 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK12561 269084000304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084000305 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 269084000306 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 269084000307 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 269084000308 dimer interface [polypeptide binding]; other site 269084000309 tetramer interface [polypeptide binding]; other site 269084000310 PYR/PP interface [polypeptide binding]; other site 269084000311 TPP binding site [chemical binding]; other site 269084000312 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 269084000313 TPP-binding site; other site 269084000314 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 269084000315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000316 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 269084000317 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II/unknown domain fusion protein; Provisional; Region: PRK09319 269084000318 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 269084000319 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 269084000320 dimerization interface [polypeptide binding]; other site 269084000321 active site 269084000322 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; cd00317 269084000323 active site 269084000324 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 269084000325 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084000326 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 269084000327 multimerization interface [polypeptide binding]; other site 269084000328 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 269084000329 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 269084000330 homodimer interface [polypeptide binding]; other site 269084000331 active site 269084000332 heterodimer interface [polypeptide binding]; other site 269084000333 catalytic residue [active] 269084000334 metal binding site [ion binding]; metal-binding site 269084000335 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 269084000336 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 269084000337 Hexamer interface [polypeptide binding]; other site 269084000338 Hexagonal pore residue; other site 269084000339 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 269084000340 Hexamer interface [polypeptide binding]; other site 269084000341 Hexagonal pore residue; other site 269084000342 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 269084000343 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 269084000344 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 269084000345 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 269084000346 trimer interface [polypeptide binding]; other site 269084000347 active site 269084000348 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 269084000349 putative multimerization interface [polypeptide binding]; other site 269084000350 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 269084000351 putative multimerization interface [polypeptide binding]; other site 269084000352 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of...; Region: RuBisCO_small_like; cd00307 269084000353 putative multimerization interface [polypeptide binding]; other site 269084000354 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 269084000355 Hexamer/Pentamer interface [polypeptide binding]; other site 269084000356 central pore; other site 269084000357 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 269084000358 Hexamer interface [polypeptide binding]; other site 269084000359 Hexagonal pore residue; other site 269084000360 Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_N; cd01979 269084000361 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 269084000362 photochlorophyllide reductase subunit L; Region: chlL; CHL00072 269084000363 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 269084000364 P-loop; other site 269084000365 S-layer homology domain; Region: SLH; pfam00395 269084000366 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 269084000367 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 269084000368 active site 269084000369 interdomain interaction site; other site 269084000370 putative metal-binding site [ion binding]; other site 269084000371 nucleotide binding site [chemical binding]; other site 269084000372 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 269084000373 domain I; other site 269084000374 DNA binding groove [nucleotide binding] 269084000375 phosphate binding site [ion binding]; other site 269084000376 domain II; other site 269084000377 domain III; other site 269084000378 nucleotide binding site [chemical binding]; other site 269084000379 catalytic site [active] 269084000380 domain IV; other site 269084000381 NAD(P)H-quinone oxidoreductase subunit 2; Provisional; Region: PRK02504 269084000382 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084000383 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269084000384 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269084000385 Walker A/P-loop; other site 269084000386 ATP binding site [chemical binding]; other site 269084000387 Q-loop/lid; other site 269084000388 ABC transporter signature motif; other site 269084000389 Walker B; other site 269084000390 D-loop; other site 269084000391 H-loop/switch region; other site 269084000392 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 269084000393 Domain of unknown function (DUF1821); Region: DUF1821; pfam08851 269084000394 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 269084000395 2-isopropylmalate synthase; Validated; Region: PRK00915 269084000396 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 269084000397 active site 269084000398 catalytic residues [active] 269084000399 metal binding site [ion binding]; metal-binding site 269084000400 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 269084000401 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084000402 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269084000403 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 269084000404 S-adenosylmethionine binding site [chemical binding]; other site 269084000405 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 269084000406 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 269084000407 dimer interface [polypeptide binding]; other site 269084000408 conserved gate region; other site 269084000409 putative PBP binding loops; other site 269084000410 ABC-ATPase subunit interface; other site 269084000411 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269084000412 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269084000413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000414 Walker A/P-loop; other site 269084000415 ATP binding site [chemical binding]; other site 269084000416 Q-loop/lid; other site 269084000417 ABC transporter signature motif; other site 269084000418 Walker B; other site 269084000419 D-loop; other site 269084000420 H-loop/switch region; other site 269084000421 TOBE domain; Region: TOBE_2; cl01440 269084000422 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 269084000423 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084000424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084000425 active site 269084000426 phosphorylation site [posttranslational modification] 269084000427 intermolecular recognition site; other site 269084000428 dimerization interface [polypeptide binding]; other site 269084000429 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 269084000430 DNA binding site [nucleotide binding] 269084000431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084000432 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 269084000433 Double zinc ribbon; Region: DZR; pfam12773 269084000434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084000435 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269084000436 active site 269084000437 metal binding site [ion binding]; metal-binding site 269084000438 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 269084000439 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 269084000440 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269084000441 DXD motif; other site 269084000442 N-glycosyltransferase; Provisional; Region: PRK11204 269084000443 PilZ domain; Region: PilZ; cl01260 269084000444 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 269084000445 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 269084000446 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269084000447 Zn binding site [ion binding]; other site 269084000448 PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to...; Region: PDZ_glycyl_aminopeptidase; cd00990 269084000449 protein binding site [polypeptide binding]; other site 269084000450 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269084000451 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 269084000452 putative active site [active] 269084000453 putative metal binding site [ion binding]; other site 269084000454 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 269084000455 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269084000456 Mg chelatase-related protein; Region: TIGR00368 269084000457 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 269084000458 Walker A motif; other site 269084000459 ATP binding site [chemical binding]; other site 269084000460 Walker B motif; other site 269084000461 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 269084000462 nucleotide binding site/active site [active] 269084000463 HIT family signature motif; other site 269084000464 catalytic residue [active] 269084000465 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 269084000466 protein I interface; other site 269084000467 D2 interface; other site 269084000468 protein T interface; other site 269084000469 chlorophyll binding site; other site 269084000470 beta carotene binding site; other site 269084000471 pheophytin binding site; other site 269084000472 manganese-stabilizing polypeptide interface; other site 269084000473 CP43 interface; other site 269084000474 protein L interface; other site 269084000475 oxygen evolving complex binding site; other site 269084000476 bromide binding site; other site 269084000477 quinone binding site; other site 269084000478 Fe binding site [ion binding]; other site 269084000479 core light harvesting interface; other site 269084000480 cytochrome b559 alpha subunit interface; other site 269084000481 cytochrome c-550 interface; other site 269084000482 protein J interface; other site 269084000483 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 269084000484 active site 269084000485 zinc binding site [ion binding]; other site 269084000486 TIGR00268 family protein; Region: TIGR00268 269084000487 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 269084000488 Ligand Binding Site [chemical binding]; other site 269084000489 hypothetical protein; Validated; Region: PRK07413 269084000490 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 269084000491 Walker A motif; other site 269084000492 homodimer interface [polypeptide binding]; other site 269084000493 ATP binding site [chemical binding]; other site 269084000494 hydroxycobalamin binding site [chemical binding]; other site 269084000495 Walker B motif; other site 269084000496 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000497 Walker A motif; other site 269084000498 ATP binding site [chemical binding]; other site 269084000499 Walker B motif; other site 269084000500 META domain; Region: META; cl01245 269084000501 META domain; Region: META; cl01245 269084000502 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 269084000503 dimer interface [polypeptide binding]; other site 269084000504 substrate binding site [chemical binding]; other site 269084000505 metal binding sites [ion binding]; metal-binding site 269084000506 PAS domain S-box; Region: sensory_box; TIGR00229 269084000507 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 269084000508 putative active site [active] 269084000509 heme pocket [chemical binding]; other site 269084000510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084000511 metal binding site [ion binding]; metal-binding site 269084000512 active site 269084000513 I-site; other site 269084000514 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 269084000515 ABC transporter ATPase component; Reviewed; Region: PRK11147 269084000516 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 269084000517 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000518 Walker A/P-loop; other site 269084000519 ATP binding site [chemical binding]; other site 269084000520 Q-loop/lid; other site 269084000521 ABC transporter signature motif; other site 269084000522 Walker B; other site 269084000523 D-loop; other site 269084000524 H-loop/switch region; other site 269084000525 ABC transporter; Region: ABC_tran_2; pfam12848 269084000526 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269084000527 Sulfate transporter family; Region: Sulfate_transp; cl15842 269084000528 high affinity sulphate transporter 1; Region: sulP; TIGR00815 269084000529 Sulfate transporter family; Region: Sulfate_transp; cl15842 269084000530 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269084000531 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 269084000532 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269084000533 ATP-grasp domain; Region: ATP-grasp_4; cl03087 269084000534 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 269084000535 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 269084000536 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269084000537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269084000538 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 269084000539 synthetase active site [active] 269084000540 NTP binding site [chemical binding]; other site 269084000541 metal binding site [ion binding]; metal-binding site 269084000542 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 269084000543 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 269084000544 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269084000545 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 269084000546 active site 269084000547 HupE / UreJ protein; Region: HupE_UreJ; cl01011 269084000548 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 269084000549 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 269084000550 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 269084000551 substrate binding pocket [chemical binding]; other site 269084000552 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 269084000553 B12 binding site [chemical binding]; other site 269084000554 cobalt ligand [ion binding]; other site 269084000555 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 269084000556 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 269084000557 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 269084000558 recombination protein RecR; Reviewed; Region: recR; PRK00076 269084000559 RecR protein; Region: RecR; pfam02132 269084000560 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 269084000561 putative active site [active] 269084000562 putative metal-binding site [ion binding]; other site 269084000563 tetramer interface [polypeptide binding]; other site 269084000564 3-epi-6-deoxocathasterone 23-monooxygenase; Provisional; Region: PLN03141 269084000565 Cytochrome P450; Region: p450; cl12078 269084000566 UbiA prenyltransferase family; Region: UbiA; cl00337 269084000567 MarC family integral membrane protein; Region: MarC; cl00919 269084000568 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084000569 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084000570 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 269084000571 Coenzyme F420-reducing hydrogenase, beta subunit [Energy production and conversion]; Region: FrhB; COG1035 269084000572 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 269084000573 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 269084000574 SWIM zinc finger; Region: SWIM; cl15408 269084000575 CHASE domain; Region: CHASE; cl01369 269084000576 PAS domain S-box; Region: sensory_box; TIGR00229 269084000577 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 269084000578 putative active site [active] 269084000579 heme pocket [chemical binding]; other site 269084000580 GAF domain; Region: GAF; cl00853 269084000581 PAS domain S-box; Region: sensory_box; TIGR00229 269084000582 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 269084000583 putative active site [active] 269084000584 heme pocket [chemical binding]; other site 269084000585 GAF domain; Region: GAF; cl00853 269084000586 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 269084000587 putative diguanylate cyclase; Provisional; Region: PRK09776 269084000588 putative active site [active] 269084000589 heme pocket [chemical binding]; other site 269084000590 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269084000591 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084000592 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 269084000593 dimer interface [polypeptide binding]; other site 269084000594 phosphorylation site [posttranslational modification] 269084000595 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 269084000596 ATP binding site [chemical binding]; other site 269084000597 Mg2+ binding site [ion binding]; other site 269084000598 G-X-G motif; other site 269084000599 Response regulator receiver domain; Region: Response_reg; pfam00072 269084000600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084000601 active site 269084000602 phosphorylation site [posttranslational modification] 269084000603 intermolecular recognition site; other site 269084000604 dimerization interface [polypeptide binding]; other site 269084000605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084000606 active site 269084000607 phosphorylation site [posttranslational modification] 269084000608 intermolecular recognition site; other site 269084000609 dimerization interface [polypeptide binding]; other site 269084000610 PAS domain S-box; Region: sensory_box; TIGR00229 269084000611 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084000612 PAS domain S-box; Region: sensory_box; TIGR00229 269084000613 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 269084000614 putative active site [active] 269084000615 heme pocket [chemical binding]; other site 269084000616 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084000617 metal binding site [ion binding]; metal-binding site 269084000618 active site 269084000619 I-site; other site 269084000620 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 269084000621 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 269084000622 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269084000623 putative substrate translocation pore; other site 269084000624 Protein of unknown function (DUF3120); Region: DUF3120; pfam11318 269084000625 acetyl-CoA synthetase; Provisional; Region: PRK00174 269084000626 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 269084000627 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 269084000628 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 269084000629 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 269084000630 motif II; other site 269084000631 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 269084000632 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084000633 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269084000634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000635 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 269084000636 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 269084000637 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 269084000638 NADH dehydrogenase subunit J; Provisional; Region: PRK06439 269084000639 NADH-plastoquinone oxidoreductase subunit I protein; Region: ndhI; TIGR00403 269084000640 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269084000641 NADH dehydrogenase; Region: NADHdh; cl00469 269084000642 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 269084000643 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 269084000644 NADP-binding site; other site 269084000645 homotetramer interface [polypeptide binding]; other site 269084000646 substrate binding site [chemical binding]; other site 269084000647 homodimer interface [polypeptide binding]; other site 269084000648 active site 269084000649 Domain of unknown function DUF20; Region: UPF0118; cl00465 269084000650 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 269084000651 active site 269084000652 catalytic residues [active] 269084000653 metal binding site [ion binding]; metal-binding site 269084000654 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 269084000655 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 269084000656 metal binding site [ion binding]; metal-binding site 269084000657 FG-GAP repeat; Region: FG-GAP; cl15299 269084000658 FG-GAP repeat; Region: FG-GAP; cl15299 269084000659 FG-GAP repeat; Region: FG-GAP; cl15299 269084000660 FG-GAP repeat; Region: FG-GAP; cl15299 269084000661 FG-GAP repeat; Region: FG-GAP; cl15299 269084000662 FG-GAP repeat; Region: FG-GAP; cl15299 269084000663 FG-GAP repeat; Region: FG-GAP; cl15299 269084000664 FG-GAP repeat; Region: FG-GAP; cl15299 269084000665 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 269084000666 TIGR03032 family protein; Region: TIGR03032 269084000667 TIGR03032 family protein; Region: TIGR03032 269084000668 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 269084000669 homodimer interface [polypeptide binding]; other site 269084000670 substrate-cofactor binding pocket; other site 269084000671 Aminotransferase class IV; Region: Aminotran_4; pfam01063 269084000672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084000673 catalytic residue [active] 269084000674 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 269084000675 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 269084000676 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269084000677 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 269084000678 Ligand Binding Site [chemical binding]; other site 269084000679 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 269084000680 light-harvesting-like protein 3; Provisional; Region: PLN00014 269084000681 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 269084000682 Domain of unknown function (DUF477); Region: DUF477; cl01535 269084000683 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 269084000684 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 269084000685 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 269084000686 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 269084000687 ATP binding site [chemical binding]; other site 269084000688 putative Mg++ binding site [ion binding]; other site 269084000689 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 269084000690 nucleotide binding region [chemical binding]; other site 269084000691 ATP-binding site [chemical binding]; other site 269084000692 TRCF domain; Region: TRCF; cl04088 269084000693 replicative DNA helicase; Region: DnaB; TIGR00665 269084000694 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269084000695 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 269084000696 Walker A motif; other site 269084000697 ATP binding site [chemical binding]; other site 269084000698 Walker B motif; other site 269084000699 DNA binding loops [nucleotide binding] 269084000700 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 269084000701 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 269084000702 ATP binding site [chemical binding]; other site 269084000703 putative Mg++ binding site [ion binding]; other site 269084000704 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 269084000705 nucleotide binding region [chemical binding]; other site 269084000706 ATP-binding site [chemical binding]; other site 269084000707 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 269084000708 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 269084000709 DNA binding site [nucleotide binding] 269084000710 putative catalytic residues [active] 269084000711 turnover-facilitating residue; other site 269084000712 intercalation triad [nucleotide binding]; other site 269084000713 8OG recognition residue [nucleotide binding]; other site 269084000714 putative reading head residues; other site 269084000715 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 269084000716 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269084000717 Photosystem I reaction centre subunit IV / PsaE; Region: PSI_PsaE; cl03585 269084000718 CHAD domain; Region: CHAD; cl10506 269084000719 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084000720 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269084000721 ABC-ATPase subunit interface; other site 269084000722 dimer interface [polypeptide binding]; other site 269084000723 putative PBP binding regions; other site 269084000724 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 269084000725 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 269084000726 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 269084000727 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 269084000728 intersubunit interface [polypeptide binding]; other site 269084000729 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 269084000730 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 269084000731 FtsH Extracellular; Region: FtsH_ext; pfam06480 269084000732 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269084000733 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 269084000734 Walker A motif; other site 269084000735 ATP binding site [chemical binding]; other site 269084000736 Walker B motif; other site 269084000737 arginine finger; other site 269084000738 Peptidase family M41; Region: Peptidase_M41; pfam01434 269084000739 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 269084000740 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 269084000741 dimer interface [polypeptide binding]; other site 269084000742 anticodon binding site; other site 269084000743 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 269084000744 homodimer interface [polypeptide binding]; other site 269084000745 motif 1; other site 269084000746 active site 269084000747 motif 2; other site 269084000748 GAD domain; Region: GAD; pfam02938 269084000749 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 269084000750 active site 269084000751 motif 3; other site 269084000752 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084000753 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084000754 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 269084000755 Walker A/P-loop; other site 269084000756 ATP binding site [chemical binding]; other site 269084000757 Q-loop/lid; other site 269084000758 ABC transporter signature motif; other site 269084000759 Walker B; other site 269084000760 D-loop; other site 269084000761 H-loop/switch region; other site 269084000762 Transposase; Region: HTH_Tnp_IS630; pfam01710 269084000763 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 269084000764 Helix-turn-helix domains; Region: HTH; cl00088 269084000765 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 269084000766 putative dimerization interface [polypeptide binding]; other site 269084000767 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 269084000768 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 269084000769 FAD binding site [chemical binding]; other site 269084000770 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 269084000771 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 269084000772 active site 269084000773 HIGH motif; other site 269084000774 dimer interface [polypeptide binding]; other site 269084000775 KMSKS motif; other site 269084000776 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269084000777 Protein of unknown function (DUF3172); Region: DUF3172; pfam11371 269084000778 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269084000779 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269084000780 Walker A/P-loop; other site 269084000781 ATP binding site [chemical binding]; other site 269084000782 Q-loop/lid; other site 269084000783 ABC transporter signature motif; other site 269084000784 Walker B; other site 269084000785 D-loop; other site 269084000786 H-loop/switch region; other site 269084000787 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269084000788 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269084000789 Walker A/P-loop; other site 269084000790 ATP binding site [chemical binding]; other site 269084000791 Q-loop/lid; other site 269084000792 ABC transporter signature motif; other site 269084000793 Walker B; other site 269084000794 D-loop; other site 269084000795 H-loop/switch region; other site 269084000796 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269084000797 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269084000798 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269084000799 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 269084000800 ATP binding site [chemical binding]; other site 269084000801 putative Mg++ binding site [ion binding]; other site 269084000802 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 269084000803 nucleotide binding region [chemical binding]; other site 269084000804 ATP-binding site [chemical binding]; other site 269084000805 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 269084000806 Uncharacterized conserved protein [Function unknown]; Region: COG2006 269084000807 Domain of unknown function (DUF362); Region: DUF362; pfam04015 269084000808 CHASE3 domain; Region: CHASE3; cl05000 269084000809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084000810 metal binding site [ion binding]; metal-binding site 269084000811 active site 269084000812 I-site; other site 269084000813 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269084000814 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269084000815 putative NAD(P) binding site [chemical binding]; other site 269084000816 conserved hypothetical protein; Region: TIGR02466 269084000817 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269084000818 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084000819 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 269084000820 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269084000821 active site 269084000822 ATP binding site [chemical binding]; other site 269084000823 substrate binding site [chemical binding]; other site 269084000824 activation loop (A-loop); other site 269084000825 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084000826 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084000827 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 269084000828 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 269084000829 putative tRNA-binding site [nucleotide binding]; other site 269084000830 B3/4 domain; Region: B3_4; cl11458 269084000831 tRNA synthetase B5 domain; Region: B5; cl08394 269084000832 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 269084000833 dimer interface [polypeptide binding]; other site 269084000834 motif 1; other site 269084000835 motif 3; other site 269084000836 motif 2; other site 269084000837 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 269084000838 DNA primase; Validated; Region: dnaG; PRK05667 269084000839 CHC2 zinc finger; Region: zf-CHC2; cl15369 269084000840 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269084000841 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269084000842 active site 269084000843 metal binding site [ion binding]; metal-binding site 269084000844 interdomain interaction site; other site 269084000845 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 269084000846 dimerization interface [polypeptide binding]; other site 269084000847 putative DNA binding site [nucleotide binding]; other site 269084000848 putative Zn2+ binding site [ion binding]; other site 269084000849 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 269084000850 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269084000851 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269084000852 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 269084000853 VCBS repeat; Region: VCBS_repeat; TIGR01965 269084000854 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 269084000855 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 269084000856 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 269084000857 dimer interface [polypeptide binding]; other site 269084000858 putative functional site; other site 269084000859 putative MPT binding site; other site 269084000860 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 269084000861 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 269084000862 trimer interface [polypeptide binding]; other site 269084000863 dimer interface [polypeptide binding]; other site 269084000864 putative active site [active] 269084000865 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 269084000866 MPT binding site; other site 269084000867 trimer interface [polypeptide binding]; other site 269084000868 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 269084000869 MoaE homodimer interface [polypeptide binding]; other site 269084000870 MoaD interaction [polypeptide binding]; other site 269084000871 active site residues [active] 269084000872 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 269084000873 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 269084000874 FeS/SAM binding site; other site 269084000875 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 269084000876 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 269084000877 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 269084000878 ribosomal protein L20; Region: rpl20; CHL00068 269084000879 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 269084000880 23S rRNA binding site [nucleotide binding]; other site 269084000881 L21 binding site [polypeptide binding]; other site 269084000882 L13 binding site [polypeptide binding]; other site 269084000883 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 269084000884 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269084000885 substrate binding pocket [chemical binding]; other site 269084000886 membrane-bound complex binding site; other site 269084000887 hinge residues; other site 269084000888 Domain of unknown function (DUF389); Region: DUF389; cl00781 269084000889 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 269084000890 binding surface 269084000891 TPR motif; other site 269084000892 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 269084000893 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 269084000894 putative substrate binding site [chemical binding]; other site 269084000895 putative ATP binding site [chemical binding]; other site 269084000896 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 269084000897 hydrophobic ligand binding site; other site 269084000898 Mg2+ transporter (mgtE); Region: mgtE; TIGR00400 269084000899 MgtE intracellular N domain; Region: MgtE_N; cl15244 269084000900 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 269084000901 Divalent cation transporter; Region: MgtE; cl00786 269084000902 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 269084000903 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 269084000904 active site 269084000905 substrate binding site [chemical binding]; other site 269084000906 metal binding site [ion binding]; metal-binding site 269084000907 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 269084000908 active site 269084000909 dimerization interface [polypeptide binding]; other site 269084000910 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 269084000911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000912 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269084000913 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084000914 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 269084000915 THUMP domain; Region: THUMP; cl12076 269084000916 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084000917 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 269084000918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000920 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 269084000921 substrate binding site [chemical binding]; other site 269084000922 dimer interface [polypeptide binding]; other site 269084000923 catalytic triad [active] 269084000924 Peptidase family M48; Region: Peptidase_M48; cl12018 269084000925 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 269084000926 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 269084000927 P loop; other site 269084000928 Nucleotide binding site [chemical binding]; other site 269084000929 DTAP/Switch II; other site 269084000930 Switch I; other site 269084000931 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269084000932 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 269084000933 Cl- selectivity filter; other site 269084000934 Cl- binding residues [ion binding]; other site 269084000935 pore gating glutamate residue; other site 269084000936 dimer interface [polypeptide binding]; other site 269084000937 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in bacteria and archaea. These ion channels are proteins with a seemingly simple task of allowing the passive flow of...; Region: CBS_pair_EriC_assoc_bac_arch; cd04593 269084000938 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269084000939 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 269084000940 putative C-terminal domain interface [polypeptide binding]; other site 269084000941 putative GSH binding site (G-site) [chemical binding]; other site 269084000942 putative dimer interface [polypeptide binding]; other site 269084000943 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 269084000944 N-terminal domain interface [polypeptide binding]; other site 269084000945 dimer interface [polypeptide binding]; other site 269084000946 substrate binding pocket (H-site) [chemical binding]; other site 269084000947 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 269084000948 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 269084000949 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084000950 catalytic residue [active] 269084000951 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 269084000952 ligand binding site [chemical binding]; other site 269084000953 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 269084000954 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269084000955 active site 269084000956 metal binding site [ion binding]; metal-binding site 269084000957 DNA binding site [nucleotide binding] 269084000958 UGMP family protein; Validated; Region: PRK09604 269084000959 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 269084000960 Photosystem I reaction centre subunit III; Region: PSI_PsaF; cl03627 269084000961 Photosystem I reaction centre subunit IX / PsaJ; Region: PSI_PsaJ; cl03320 269084000962 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 269084000963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084000964 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 269084000965 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 269084000966 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 269084000967 Walker A/P-loop; other site 269084000968 ATP binding site [chemical binding]; other site 269084000969 Q-loop/lid; other site 269084000970 ABC transporter signature motif; other site 269084000971 Walker B; other site 269084000972 D-loop; other site 269084000973 H-loop/switch region; other site 269084000974 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 269084000975 putative carbohydrate binding site [chemical binding]; other site 269084000976 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269084000977 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 269084000978 ligand binding site [chemical binding]; other site 269084000979 flexible hinge region; other site 269084000980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269084000981 Helix-turn-helix domains; Region: HTH; cl00088 269084000982 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269084000983 dimerization interface [polypeptide binding]; other site 269084000984 putative oxidoreductase/HEAT repeat-containing protein; Provisional; Region: PRK13800 269084000985 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09566 269084000986 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084000987 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084000988 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269084000989 NMT1-like family; Region: NMT1_2; cl15260 269084000990 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269084000991 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 269084000992 dimer interface [polypeptide binding]; other site 269084000993 conserved gate region; other site 269084000994 putative PBP binding loops; other site 269084000995 ABC-ATPase subunit interface; other site 269084000996 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269084000997 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 269084000998 Walker A/P-loop; other site 269084000999 ATP binding site [chemical binding]; other site 269084001000 Q-loop/lid; other site 269084001001 ABC transporter signature motif; other site 269084001002 Walker B; other site 269084001003 D-loop; other site 269084001004 H-loop/switch region; other site 269084001005 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269084001006 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269084001007 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 269084001008 Walker A/P-loop; other site 269084001009 ATP binding site [chemical binding]; other site 269084001010 Q-loop/lid; other site 269084001011 ABC transporter signature motif; other site 269084001012 Walker B; other site 269084001013 D-loop; other site 269084001014 H-loop/switch region; other site 269084001015 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 269084001016 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 269084001017 [4Fe-4S] binding site [ion binding]; other site 269084001018 molybdopterin cofactor binding site; other site 269084001019 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 269084001020 molybdopterin cofactor binding site; other site 269084001021 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 269084001022 Ion channel; Region: Ion_trans_2; cl11596 269084001023 cytochrome b6-f complex iron-sulfur subunit; Provisional; Region: PRK13474 269084001024 Cytochrome B6-F complex Fe-S subunit; Region: CytB6-F_Fe-S; pfam08802 269084001025 Iron-sulfur protein (ISP) component of the b6f complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The cytochrome b6f complex from Mastigocladus laminosus, a thermophilic cyanobacterium; Region: Rieske_cytochrome_b6f; cd03471 269084001026 cytochrome b subunit interaction site [polypeptide binding]; other site 269084001027 [2Fe-2S] cluster binding site [ion binding]; other site 269084001028 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 269084001029 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 269084001030 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084001031 hypothetical protein; Reviewed; Region: PRK00024 269084001032 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 269084001033 MPN+ (JAMM) motif; other site 269084001034 Zinc-binding site [ion binding]; other site 269084001035 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 269084001036 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 269084001037 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 269084001038 Ferredoxin-dependent bilin reductase; Region: Fe_bilin_red; cl07930 269084001039 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 269084001040 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 269084001041 DevC protein; Region: devC; TIGR01185 269084001042 FtsX-like permease family; Region: FtsX; pfam02687 269084001043 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02755 269084001044 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 269084001045 RNA binding site [nucleotide binding]; other site 269084001046 active site 269084001047 Response regulator receiver domain; Region: Response_reg; pfam00072 269084001048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084001049 active site 269084001050 phosphorylation site [posttranslational modification] 269084001051 intermolecular recognition site; other site 269084001052 dimerization interface [polypeptide binding]; other site 269084001053 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 269084001054 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 269084001055 KaiA domain; Region: KaiA; pfam07688 269084001056 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 269084001057 tetramer interface [polypeptide binding]; other site 269084001058 dimer interface [polypeptide binding]; other site 269084001059 circadian clock protein KaiC; Region: circ_KaiC; TIGR02655 269084001060 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 269084001061 Walker A motif; other site 269084001062 ATP binding site [chemical binding]; other site 269084001063 Walker B motif; other site 269084001064 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001065 ATP binding site [chemical binding]; other site 269084001066 Walker B motif; other site 269084001067 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269084001068 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 269084001069 catalytic residues [active] 269084001070 dimer interface [polypeptide binding]; other site 269084001071 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269084001072 oligomeric interface; other site 269084001073 putative active site [active] 269084001074 homodimer interface [polypeptide binding]; other site 269084001075 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 269084001076 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 269084001077 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 269084001078 Protein of unknown function (DUF3532); Region: DUF3532; pfam12050 269084001079 Phd_YefM; Region: PhdYeFM; cl09153 269084001080 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 269084001081 Protein of unknown function (DUF2281); Region: DUF2281; cl02355 269084001082 similar to a part of phage_integrase 269084001083 Phd_YefM; Region: PhdYeFM; cl09153 269084001084 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 269084001085 putative active site [active] 269084001086 homotetrameric interface [polypeptide binding]; other site 269084001087 metal binding site [ion binding]; metal-binding site 269084001088 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269084001089 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 269084001090 TPR motif; other site 269084001091 binding surface 269084001092 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084001093 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 269084001094 Ligand binding site; other site 269084001095 Putative Catalytic site; other site 269084001096 DXD motif; other site 269084001097 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 269084001098 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 269084001099 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 269084001100 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269084001101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001102 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 269084001103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001104 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269084001105 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 269084001106 active site 269084001107 ribulose/triose binding site [chemical binding]; other site 269084001108 phosphate binding site [ion binding]; other site 269084001109 substrate (anthranilate) binding pocket [chemical binding]; other site 269084001110 product (indole) binding pocket [chemical binding]; other site 269084001111 Protein of unknown function (DUF3148); Region: DUF3148; pfam11347 269084001112 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 269084001113 active site 269084001114 hydrophilic channel; other site 269084001115 dimerization interface [polypeptide binding]; other site 269084001116 catalytic residues [active] 269084001117 active site lid [active] 269084001118 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084001119 putative acyl-acceptor binding pocket; other site 269084001120 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 269084001121 catalytic site [active] 269084001122 G-X2-G-X-G-K; other site 269084001123 multifunctional aminopeptidase A; Provisional; Region: PRK00913 269084001124 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 269084001125 interface (dimer of trimers) [polypeptide binding]; other site 269084001126 Substrate-binding/catalytic site; other site 269084001127 Zn-binding sites [ion binding]; other site 269084001128 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 269084001129 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 269084001130 GTP binding site; other site 269084001131 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 269084001132 FemAB family; Region: FemAB; cl11444 269084001133 Protein of unknown function, DUF482; Region: DUF482; pfam04339 269084001134 similar to a part of riboflavin biosynthesis protein RibD 269084001135 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269084001136 active site 269084001137 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269084001138 active site 269084001139 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15698 269084001140 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 269084001141 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 269084001142 Rubredoxin; Region: Rubredoxin; pfam00301 269084001143 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269084001144 iron binding site [ion binding]; other site 269084001145 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 269084001146 Ycf48-like protein; Provisional; Region: PRK13684 269084001147 cytochrome b559 subunit alpha; Provisional; Region: psbE; PRK02557 269084001148 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; cl02834 269084001149 Lumenal portion of Cytochrome b559, alpha (gene psbE) subunit; Region: Cytochrom_B559a; pfam00284 269084001150 Cytochrome b559, alpha (gene psbE) and beta (gene psbF)subunits; Region: Cytochrom_B559; cl02834 269084001151 PsbL protein; Region: PsbL; cl03581 269084001152 PsbJ; Region: PsbJ; cl09469 269084001153 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 269084001154 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 269084001155 Probable Catalytic site; other site 269084001156 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 269084001157 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 269084001158 putative active site [active] 269084001159 catalytic triad [active] 269084001160 putative dimer interface [polypeptide binding]; other site 269084001161 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 269084001162 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 269084001163 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 269084001164 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 269084001165 homotrimer interaction site [polypeptide binding]; other site 269084001166 zinc binding site [ion binding]; other site 269084001167 CDP-binding sites; other site 269084001168 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 269084001169 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 269084001170 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 269084001171 AIR carboxylase; Region: AIRC; cl00310 269084001172 CpeS-like protein; Region: CpeS; pfam09367 269084001173 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 269084001174 catalytic residues [active] 269084001175 Recombinase; Region: Recombinase; pfam07508 269084001176 ATP adenylyltransferase; Region: ATP_transf; pfam09830 269084001177 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 269084001178 Protein of unknown function, DUF606; Region: DUF606; cl01273 269084001179 Protein of unknown function, DUF606; Region: DUF606; cl01273 269084001180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001181 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269084001182 NAD(P) binding site [chemical binding]; other site 269084001183 active site 269084001184 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269084001185 Helix-turn-helix domains; Region: HTH; cl00088 269084001186 PAS fold; Region: PAS; pfam00989 269084001187 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 269084001188 putative active site [active] 269084001189 heme pocket [chemical binding]; other site 269084001190 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084001191 GAF domain; Region: GAF; cl00853 269084001192 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 269084001193 PAS fold; Region: PAS_3; pfam08447 269084001194 putative active site [active] 269084001195 heme pocket [chemical binding]; other site 269084001196 PAS domain S-box; Region: sensory_box; TIGR00229 269084001197 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 269084001198 putative active site [active] 269084001199 heme pocket [chemical binding]; other site 269084001200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084001201 metal binding site [ion binding]; metal-binding site 269084001202 active site 269084001203 I-site; other site 269084001204 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 269084001205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001206 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001207 putative recombination protein RecB; Provisional; Region: PRK13909 269084001208 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269084001209 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269084001210 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 269084001211 G1 box; other site 269084001212 GTP/Mg2+ binding site [chemical binding]; other site 269084001213 Switch I region; other site 269084001214 G2 box; other site 269084001215 Switch II region; other site 269084001216 G3 box; other site 269084001217 G4 box; other site 269084001218 Domain of unknown function (DUF697); Region: DUF697; cl12064 269084001219 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 269084001220 G1 box; other site 269084001221 GTP/Mg2+ binding site [chemical binding]; other site 269084001222 Switch I region; other site 269084001223 G2 box; other site 269084001224 Switch II region; other site 269084001225 G3 box; other site 269084001226 G4 box; other site 269084001227 G5 box; other site 269084001228 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 269084001229 bifunctional pantoate ligase/cytidylate kinase; Provisional; Region: PRK13477 269084001230 Pantoate-beta-alanine ligase; Region: PanC; cd00560 269084001231 active site 269084001232 ATP-binding site [chemical binding]; other site 269084001233 pantoate-binding site; other site 269084001234 HXXH motif; other site 269084001235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001236 active site 269084001237 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 269084001238 CMP-binding site; other site 269084001239 The sites determining sugar specificity; other site 269084001240 Domain of unknown function (DUF305); Region: DUF305; cl15795 269084001241 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269084001242 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 269084001243 NAD binding site [chemical binding]; other site 269084001244 putative substrate binding site 2 [chemical binding]; other site 269084001245 putative substrate binding site 1 [chemical binding]; other site 269084001246 active site 269084001247 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084001248 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269084001249 Zn2+ binding site [ion binding]; other site 269084001250 Mg2+ binding site [ion binding]; other site 269084001251 YcfA-like protein; Region: YcfA; cl00752 269084001252 BolA-like protein; Region: BolA; cl00386 269084001253 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 269084001254 putative GSH binding site [chemical binding]; other site 269084001255 catalytic residues [active] 269084001256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 269084001257 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 269084001258 Uncharacterized conserved protein [Function unknown]; Region: COG1432 269084001259 LabA_like proteins; Region: LabA; cd10911 269084001260 putative metal binding site [ion binding]; other site 269084001261 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 269084001262 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 269084001263 active site 269084001264 HIGH motif; other site 269084001265 KMSKS motif; other site 269084001266 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 269084001267 tRNA binding surface [nucleotide binding]; other site 269084001268 anticodon binding site; other site 269084001269 tellurium resistance terB-like protein; Region: terB_like; cd07177 269084001270 metal binding site [ion binding]; metal-binding site 269084001271 Mo-dependent nitrogenase C-terminus; Region: Mo-nitro_C; pfam06967 269084001272 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 269084001273 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 269084001274 TilS substrate binding domain; Region: TilS; pfam09179 269084001275 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 269084001276 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 269084001277 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 269084001278 Zn binding site [ion binding]; other site 269084001279 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269084001280 putative active site pocket [active] 269084001281 dimerization interface [polypeptide binding]; other site 269084001282 putative catalytic residue [active] 269084001283 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 269084001284 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins; Region: Peptidase_C39B; cd02418 269084001285 putative active site [active] 269084001286 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084001287 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001288 Walker A/P-loop; other site 269084001289 ATP binding site [chemical binding]; other site 269084001290 Q-loop/lid; other site 269084001291 ABC transporter signature motif; other site 269084001292 Walker B; other site 269084001293 D-loop; other site 269084001294 H-loop/switch region; other site 269084001295 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 269084001296 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 269084001297 Ferredoxin thioredoxin reductase variable alpha chain; Region: FeThRed_A; pfam02941 269084001298 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 269084001299 active site 269084001300 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 269084001301 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269084001302 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269084001303 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269084001304 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 269084001305 putative binding surface; other site 269084001306 active site 269084001307 Exoribonuclease R [Transcription]; Region: VacB; COG0557 269084001308 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 269084001309 RNB domain; Region: RNB; pfam00773 269084001310 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 269084001311 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 269084001312 Protein kinase domain; Region: Pkinase; pfam00069 269084001313 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269084001314 active site 269084001315 ATP binding site [chemical binding]; other site 269084001316 substrate binding site [chemical binding]; other site 269084001317 activation loop (A-loop); other site 269084001318 light-harvesting-like protein 3; Provisional; Region: PLN00014 269084001319 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269084001320 mercuric reductase; Validated; Region: PRK06370 269084001321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001322 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269084001323 EcsC protein family; Region: EcsC; pfam12787 269084001324 Phosphoglycerate kinase; Region: PGK; pfam00162 269084001325 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 269084001326 substrate binding site [chemical binding]; other site 269084001327 hinge regions; other site 269084001328 ADP binding site [chemical binding]; other site 269084001329 catalytic site [active] 269084001330 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 269084001331 Ligand Binding Site [chemical binding]; other site 269084001332 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 269084001333 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 269084001334 GTP/Mg2+ binding site [chemical binding]; other site 269084001335 G4 box; other site 269084001336 G5 box; other site 269084001337 G1 box; other site 269084001338 Switch I region; other site 269084001339 G2 box; other site 269084001340 G3 box; other site 269084001341 Switch II region; other site 269084001342 Domain of unknown function DUF20; Region: UPF0118; cl00465 269084001343 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 269084001344 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 269084001345 RNA binding surface [nucleotide binding]; other site 269084001346 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 269084001347 active site 269084001348 Protein kinase domain; Region: Pkinase; pfam00069 269084001349 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269084001350 active site 269084001351 ATP binding site [chemical binding]; other site 269084001352 substrate binding site [chemical binding]; other site 269084001353 activation loop (A-loop); other site 269084001354 Response regulator receiver domain; Region: Response_reg; pfam00072 269084001355 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084001356 active site 269084001357 phosphorylation site [posttranslational modification] 269084001358 intermolecular recognition site; other site 269084001359 dimerization interface [polypeptide binding]; other site 269084001360 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 269084001361 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 269084001362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084001363 homodimer interface [polypeptide binding]; other site 269084001364 catalytic residue [active] 269084001365 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 269084001366 IHF dimer interface [polypeptide binding]; other site 269084001367 IHF - DNA interface [nucleotide binding]; other site 269084001368 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084001369 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084001370 secreted effector protein PipB; Provisional; Region: PRK15197 269084001371 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 269084001372 Domain of unknown function (DUF1817); Region: DUF1817; cl02292 269084001373 Domain of unknown function DUF59; Region: DUF59; cl00941 269084001374 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 269084001375 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 269084001376 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 269084001377 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 269084001378 active site 269084001379 trimer interface [polypeptide binding]; other site 269084001380 allosteric site; other site 269084001381 active site lid [active] 269084001382 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 269084001383 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269084001384 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 269084001385 protein binding site [polypeptide binding]; other site 269084001386 hypothetical protein; Validated; Region: PRK06672 269084001387 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 269084001388 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 269084001389 Walker A motif; other site 269084001390 ATP binding site [chemical binding]; other site 269084001391 Walker B motif; other site 269084001392 arginine finger; other site 269084001393 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 269084001394 DnaA box-binding interface [nucleotide binding]; other site 269084001395 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269084001396 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 269084001397 S-adenosylmethionine binding site [chemical binding]; other site 269084001398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 269084001399 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 269084001400 ThiC family; Region: ThiC; cl08031 269084001401 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 269084001402 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 269084001403 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 269084001404 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 269084001405 S-adenosylmethionine binding site [chemical binding]; other site 269084001406 Uncharacterized conserved protein [Function unknown]; Region: COG1565 269084001407 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 269084001408 Domain of unknown function (DUF477); Region: DUF477; cl01535 269084001409 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 269084001410 Clp amino terminal domain; Region: Clp_N; pfam02861 269084001411 Clp amino terminal domain; Region: Clp_N; pfam02861 269084001412 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 269084001413 Walker A motif; other site 269084001414 ATP binding site [chemical binding]; other site 269084001415 Walker B motif; other site 269084001416 arginine finger; other site 269084001417 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 269084001418 Walker A motif; other site 269084001419 ATP binding site [chemical binding]; other site 269084001420 Walker B motif; other site 269084001421 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269084001422 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269084001423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001424 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 269084001425 NAD(P) binding site [chemical binding]; other site 269084001426 active site 269084001427 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 269084001428 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 269084001429 substrate binding site [chemical binding]; other site 269084001430 active site 269084001431 glycogen branching enzyme; Provisional; Region: PRK05402 269084001432 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 269084001433 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 269084001434 active site 269084001435 catalytic site [active] 269084001436 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 269084001437 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 269084001438 DXD motif; other site 269084001439 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 269084001440 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 269084001441 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269084001442 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 269084001443 motif II; other site 269084001444 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 269084001445 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 269084001446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001447 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269084001448 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 269084001449 Cation transport protein; Region: TrkH; cl10514 269084001450 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 269084001451 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 269084001452 generic binding surface II; other site 269084001453 ssDNA binding site; other site 269084001454 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 269084001455 ATP binding site [chemical binding]; other site 269084001456 putative Mg++ binding site [ion binding]; other site 269084001457 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 269084001458 nucleotide binding region [chemical binding]; other site 269084001459 ATP-binding site [chemical binding]; other site 269084001460 Protein of unknown function (DUF3067); Region: DUF3067; pfam11267 269084001461 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 269084001462 Myosin heavy chain [Cytoskeleton]; Region: COG5022 269084001463 ribonuclease PH; Reviewed; Region: rph; PRK00173 269084001464 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 269084001465 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 269084001466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001467 Walker A motif; other site 269084001468 ATP binding site [chemical binding]; other site 269084001469 Walker B motif; other site 269084001470 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 269084001471 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 269084001472 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 269084001473 active site 269084001474 catalytic tetrad [active] 269084001475 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269084001476 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 269084001477 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 269084001478 E3 interaction surface; other site 269084001479 lipoyl attachment site [posttranslational modification]; other site 269084001480 e3 binding domain; Region: E3_binding; pfam02817 269084001481 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 269084001482 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 269084001483 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 269084001484 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 269084001485 ATP binding site [chemical binding]; other site 269084001486 putative Mg++ binding site [ion binding]; other site 269084001487 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 269084001488 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 269084001489 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 269084001490 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 269084001491 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 269084001492 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 269084001493 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 269084001494 HsdM N-terminal domain; Region: HsdM_N; pfam12161 269084001495 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 269084001496 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 269084001497 thiS-thiF/thiG interaction site; other site 269084001498 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 269084001499 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 269084001500 thiamine phosphate binding site [chemical binding]; other site 269084001501 active site 269084001502 pyrophosphate binding site [ion binding]; other site 269084001503 Helix-turn-helix domains; Region: HTH; cl00088 269084001504 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 269084001505 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 269084001506 Phycobilisome protein; Region: Phycobilisome; cl08227 269084001507 Phycobilisome protein; Region: Phycobilisome; cl08227 269084001508 CpcD/allophycocyanin linker domain; Region: CpcD; cl03191 269084001509 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 269084001510 CpcD/allophycocyanin linker domain; Region: CpcD; cl03191 269084001511 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 269084001512 CpcD/allophycocyanin linker domain; Region: CpcD; cl03191 269084001513 Phycobilisome protein; Region: Phycobilisome; cl08227 269084001514 Phycobilisome protein; Region: Phycobilisome; cl08227 269084001515 Stage II sporulation protein; Region: SpoIID; pfam08486 269084001516 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 269084001517 Thymidylate synthase complementing protein; Region: Thy1; cl03630 269084001518 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 269084001519 GIY-YIG domain found in CAXIP1-like proteins, iron-sulfur cluster assembly proteins, and similar proteins; Region: GIY-YIG_AtGrxS16_like; cd10450 269084001520 GIY-YIG motif/motif A; other site 269084001521 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 269084001522 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269084001523 PsbP; Region: PsbP; cl03356 269084001524 arginine decarboxylase; Provisional; Region: PRK05354 269084001525 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 269084001526 dimer interface [polypeptide binding]; other site 269084001527 active site 269084001528 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269084001529 catalytic residues [active] 269084001530 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 269084001531 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 269084001532 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 269084001533 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269084001534 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269084001535 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 269084001536 Uncharacterized conserved protein [Function unknown]; Region: COG2308 269084001537 Domain of unknown function (DUF404); Region: DUF404; pfam04169 269084001538 Domain of unknown function (DUF407); Region: DUF407; pfam04174 269084001539 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 269084001540 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 269084001541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084001542 homodimer interface [polypeptide binding]; other site 269084001543 catalytic residue [active] 269084001544 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 269084001545 homodimer interface [polypeptide binding]; other site 269084001546 substrate-cofactor binding pocket; other site 269084001547 Aminotransferase class IV; Region: Aminotran_4; pfam01063 269084001548 catalytic residue [active] 269084001549 hydrolase, alpha/beta fold family protein; Region: PLN02824 269084001550 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084001551 Domain of unknown function (DUF370); Region: DUF370; cl00898 269084001552 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 269084001553 Domain of unknown function (DUF814); Region: DUF814; pfam05670 269084001554 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 269084001555 binding surface 269084001556 TPR motif; other site 269084001557 EamA-like transporter family; Region: EamA; cl01037 269084001558 EamA-like transporter family; Region: EamA; cl01037 269084001559 Protein of unknown function (DUF1350); Region: DUF1350; pfam07082 269084001560 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 269084001561 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 269084001562 O-succinylbenzoate synthase; Provisional; Region: PRK02714 269084001563 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 269084001564 active site 269084001565 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 269084001566 Domain of unknown function DUF28; Region: DUF28; cl00361 269084001567 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 269084001568 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 269084001569 binding surface 269084001570 TPR motif; other site 269084001571 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 269084001572 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269084001573 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 269084001574 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 269084001575 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 269084001576 putative binding surface; other site 269084001577 active site 269084001578 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 269084001579 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 269084001580 ATP binding site [chemical binding]; other site 269084001581 Mg2+ binding site [ion binding]; other site 269084001582 G-X-G motif; other site 269084001583 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 269084001584 Response regulator receiver domain; Region: Response_reg; pfam00072 269084001585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084001586 active site 269084001587 phosphorylation site [posttranslational modification] 269084001588 intermolecular recognition site; other site 269084001589 dimerization interface [polypeptide binding]; other site 269084001590 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084001591 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084001592 active site 269084001593 phosphorylation site [posttranslational modification] 269084001594 intermolecular recognition site; other site 269084001595 dimerization interface [polypeptide binding]; other site 269084001596 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 269084001597 DNA binding site [nucleotide binding] 269084001598 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269084001599 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 269084001600 dimer interface [polypeptide binding]; other site 269084001601 phosphorylation site [posttranslational modification] 269084001602 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 269084001603 ATP binding site [chemical binding]; other site 269084001604 Mg2+ binding site [ion binding]; other site 269084001605 G-X-G motif; other site 269084001606 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 269084001607 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 269084001608 RNA binding surface [nucleotide binding]; other site 269084001609 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 269084001610 active site 269084001611 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 269084001612 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 269084001613 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 269084001614 putative active site [active] 269084001615 putative substrate binding site [chemical binding]; other site 269084001616 putative cosubstrate binding site; other site 269084001617 catalytic site [active] 269084001618 fumarate hydratase; Reviewed; Region: fumC; PRK00485 269084001619 Class II fumarases; Region: Fumarase_classII; cd01362 269084001620 active site 269084001621 tetramer interface [polypeptide binding]; other site 269084001622 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 269084001623 TPR motif; other site 269084001624 binding surface 269084001625 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 269084001626 binding surface 269084001627 TPR motif; other site 269084001628 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 269084001629 binding surface 269084001630 TPR motif; other site 269084001631 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 269084001632 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 269084001633 motif II; other site 269084001634 Cupin domain; Region: Cupin_2; cl09118 269084001635 anthranilate synthase component I; Provisional; Region: PRK13565 269084001636 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 269084001637 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269084001638 PsaD; Region: PsaD; cl03639 269084001639 aspartate kinase; Provisional; Region: PRK07431 269084001640 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 269084001641 putative nucleotide binding site [chemical binding]; other site 269084001642 putative catalytic residues [active] 269084001643 putative Mg ion binding site [ion binding]; other site 269084001644 putative aspartate binding site [chemical binding]; other site 269084001645 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 269084001646 putative allosteric regulatory site; other site 269084001647 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 269084001648 putative allosteric regulatory residue; other site 269084001649 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 269084001650 putative allosteric regulatory site; other site 269084001651 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 269084001652 putative allosteric regulatory residue; other site 269084001653 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 269084001654 generic binding surface II; other site 269084001655 generic binding surface I; other site 269084001656 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 269084001657 putative active site [active] 269084001658 putative catalytic site [active] 269084001659 putative Mg binding site IVb [ion binding]; other site 269084001660 putative DNA binding site [nucleotide binding]; other site 269084001661 putative phosphate binding site [ion binding]; other site 269084001662 putative Mg binding site IVa [ion binding]; other site 269084001663 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 269084001664 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 269084001665 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269084001666 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 269084001667 Walker A motif; other site 269084001668 ATP binding site [chemical binding]; other site 269084001669 Walker B motif; other site 269084001670 arginine finger; other site 269084001671 Peptidase family M41; Region: Peptidase_M41; pfam01434 269084001672 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 269084001673 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001674 active site 269084001675 Protein of unknown function (DUF565); Region: DUF565; pfam04483 269084001676 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 269084001677 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 269084001678 G1 box; other site 269084001679 GTP/Mg2+ binding site [chemical binding]; other site 269084001680 Switch I region; other site 269084001681 Switch II region; other site 269084001682 G3 box; other site 269084001683 G4 box; other site 269084001684 G5 box; other site 269084001685 Domain of unknown function (DUF697); Region: DUF697; cl12064 269084001686 CemA family; Region: CemA; cl03855 269084001687 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 269084001688 homotrimer interface [polypeptide binding]; other site 269084001689 Walker A motif; other site 269084001690 GTP binding site [chemical binding]; other site 269084001691 Walker B motif; other site 269084001692 Protein of unknown function (DUF2488); Region: Ycf54; pfam10674 269084001693 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269084001694 metal binding site 2 [ion binding]; metal-binding site 269084001695 putative DNA binding helix; other site 269084001696 metal binding site 1 [ion binding]; metal-binding site 269084001697 dimer interface [polypeptide binding]; other site 269084001698 structural Zn2+ binding site [ion binding]; other site 269084001699 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084001700 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 269084001701 H+ Antiporter protein; Region: 2A0121; TIGR00900 269084001702 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 269084001703 putative substrate translocation pore; other site 269084001704 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 269084001705 Recombination protein O N terminal; Region: RecO_N; pfam11967 269084001706 Recombination protein O C terminal; Region: RecO_C; pfam02565 269084001707 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 269084001708 intersubunit interface [polypeptide binding]; other site 269084001709 active site 269084001710 catalytic residue [active] 269084001711 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_11; cd08866 269084001712 putative hydrophobic ligand binding site [chemical binding]; other site 269084001713 HerA helicase [Replication, recombination, and repair]; Region: COG0433 269084001714 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001715 LysE type translocator; Region: LysE; cl00565 269084001716 DinB superfamily; Region: DinB_2; cl00986 269084001717 CpcD/allophycocyanin linker domain; Region: CpcD; cl03191 269084001718 ferredoxin--NADP+ reductase; Provisional; Region: PLN03116 269084001719 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 269084001720 dimerization interface [polypeptide binding]; other site 269084001721 FAD binding pocket [chemical binding]; other site 269084001722 FAD binding motif [chemical binding]; other site 269084001723 catalytic residues [active] 269084001724 NAD binding pocket [chemical binding]; other site 269084001725 phosphate binding motif [ion binding]; other site 269084001726 beta-alpha-beta structure motif; other site 269084001727 phosphoribulokinase; Provisional; Region: PRK07429 269084001728 Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH...; Region: PRK; cd02026 269084001729 active site 269084001730 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 269084001731 DHH family; Region: DHH; pfam01368 269084001732 FOG: CBS domain [General function prediction only]; Region: COG0517 269084001733 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 269084001734 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269084001735 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 269084001736 active site 269084001737 NTP binding site [chemical binding]; other site 269084001738 metal binding triad [ion binding]; metal-binding site 269084001739 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 269084001740 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084001741 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269084001742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001743 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269084001744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001745 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 269084001746 homotrimer interaction site [polypeptide binding]; other site 269084001747 putative active site [active] 269084001748 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 269084001749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 269084001750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001751 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 269084001752 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 269084001753 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 269084001754 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 269084001755 domain interfaces; other site 269084001756 active site 269084001757 Domain of unknown function (DUF1821); Region: DUF1821; pfam08851 269084001758 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 269084001759 active site 269084001760 putative lithium-binding site [ion binding]; other site 269084001761 substrate binding site [chemical binding]; other site 269084001762 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 269084001763 DNA binding site [nucleotide binding] 269084001764 active site 269084001765 16S rRNA methyltransferase B; Provisional; Region: PRK14901 269084001766 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 269084001767 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 269084001768 S-adenosylmethionine binding site [chemical binding]; other site 269084001769 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 269084001770 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 269084001771 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269084001772 Walker A/P-loop; other site 269084001773 ATP binding site [chemical binding]; other site 269084001774 Q-loop/lid; other site 269084001775 ABC transporter signature motif; other site 269084001776 Walker B; other site 269084001777 D-loop; other site 269084001778 H-loop/switch region; other site 269084001779 TOBE domain; Region: TOBE_2; cl01440 269084001780 GTPase CgtA; Reviewed; Region: obgE; PRK12299 269084001781 GTP1/OBG; Region: GTP1_OBG; pfam01018 269084001782 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 269084001783 G1 box; other site 269084001784 GTP/Mg2+ binding site [chemical binding]; other site 269084001785 Switch I region; other site 269084001786 G2 box; other site 269084001787 G3 box; other site 269084001788 Switch II region; other site 269084001789 G4 box; other site 269084001790 G5 box; other site 269084001791 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 269084001792 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 269084001793 active site 269084001794 substrate binding site [chemical binding]; other site 269084001795 cosubstrate binding site; other site 269084001796 catalytic site [active] 269084001797 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 269084001798 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 269084001799 homodimer interface [polypeptide binding]; other site 269084001800 Walker A motif; other site 269084001801 ATP binding site [chemical binding]; other site 269084001802 hydroxycobalamin binding site [chemical binding]; other site 269084001803 Walker B motif; other site 269084001804 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 269084001805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001806 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 269084001807 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 269084001808 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 269084001809 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269084001810 EVE domain; Region: EVE; cl00728 269084001811 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269084001812 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269084001813 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07428 269084001814 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 269084001815 dimerization interface [polypeptide binding]; other site 269084001816 active site 269084001817 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269084001818 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084001819 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 269084001820 dimer interface [polypeptide binding]; other site 269084001821 conserved gate region; other site 269084001822 putative PBP binding loops; other site 269084001823 ABC-ATPase subunit interface; other site 269084001824 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269084001825 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 269084001826 dimer interface [polypeptide binding]; other site 269084001827 ABC-ATPase subunit interface; other site 269084001828 putative PBP binding loops; other site 269084001829 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269084001830 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001831 Walker A/P-loop; other site 269084001832 ATP binding site [chemical binding]; other site 269084001833 Q-loop/lid; other site 269084001834 ABC transporter signature motif; other site 269084001835 Walker B; other site 269084001836 D-loop; other site 269084001837 H-loop/switch region; other site 269084001838 TOBE domain; Region: TOBE_2; cl01440 269084001839 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 269084001840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084001841 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 269084001842 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 269084001843 FeS/SAM binding site; other site 269084001844 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 269084001845 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 269084001846 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269084001847 acetylornithine aminotransferase; Provisional; Region: PRK02627 269084001848 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 269084001849 inhibitor-cofactor binding pocket; inhibition site 269084001850 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084001851 catalytic residue [active] 269084001852 cell division protein; Validated; Region: ftsH; CHL00176 269084001853 FtsH Extracellular; Region: FtsH_ext; pfam06480 269084001854 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 269084001855 Walker A motif; other site 269084001856 ATP binding site [chemical binding]; other site 269084001857 Walker B motif; other site 269084001858 arginine finger; other site 269084001859 Peptidase family M41; Region: Peptidase_M41; pfam01434 269084001860 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 269084001861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084001862 Walker A/P-loop; other site 269084001863 ATP binding site [chemical binding]; other site 269084001864 Q-loop/lid; other site 269084001865 ABC transporter signature motif; other site 269084001866 Walker B; other site 269084001867 D-loop; other site 269084001868 H-loop/switch region; other site 269084001869 ABC transporter; Region: ABC_tran_2; pfam12848 269084001870 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 269084001871 Helix-turn-helix domains; Region: HTH; cl00088 269084001872 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 269084001873 ligand-binding site [chemical binding]; other site 269084001874 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 269084001875 dimerization interface [polypeptide binding]; other site 269084001876 putative DNA binding site [nucleotide binding]; other site 269084001877 putative Zn2+ binding site [ion binding]; other site 269084001878 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084001879 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 269084001880 active site residue [active] 269084001881 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 269084001882 hypothetical protein; Provisional; Region: PRK07394 269084001883 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269084001884 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; cl09869 269084001885 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 269084001886 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 269084001887 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 269084001888 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 269084001889 active site 269084001890 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 269084001891 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 269084001892 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 269084001893 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269084001894 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269084001895 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 269084001896 Surface antigen; Region: Bac_surface_Ag; cl03097 269084001897 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 269084001898 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 269084001899 ATP binding site [chemical binding]; other site 269084001900 active site 269084001901 substrate binding site [chemical binding]; other site 269084001902 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 269084001903 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 269084001904 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084001905 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 269084001906 sensory histidine kinase AtoS; Provisional; Region: PRK11360 269084001907 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 269084001908 dimerization interface [polypeptide binding]; other site 269084001909 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 269084001910 dimer interface [polypeptide binding]; other site 269084001911 phosphorylation site [posttranslational modification] 269084001912 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 269084001913 ATP binding site [chemical binding]; other site 269084001914 Mg2+ binding site [ion binding]; other site 269084001915 G-X-G motif; other site 269084001916 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 269084001917 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269084001918 active site 269084001919 HIGH motif; other site 269084001920 nucleotide binding site [chemical binding]; other site 269084001921 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269084001922 active site 269084001923 KMSKS motif; other site 269084001924 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 269084001925 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 269084001926 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 269084001927 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 269084001928 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 269084001929 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 269084001930 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 269084001931 NIL domain; Region: NIL; cl09633 269084001932 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 269084001933 trimer interface [polypeptide binding]; other site 269084001934 active site 269084001935 dimer interface [polypeptide binding]; other site 269084001936 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 269084001937 active site 269084001938 dinuclear metal binding site [ion binding]; other site 269084001939 dimerization interface [polypeptide binding]; other site 269084001940 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084001941 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 269084001942 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 269084001943 Walker A motif; other site 269084001944 ATP binding site [chemical binding]; other site 269084001945 Walker B motif; other site 269084001946 arginine finger; other site 269084001947 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 269084001948 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 269084001949 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 269084001950 binding surface 269084001951 TPR motif; other site 269084001952 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269084001953 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 269084001954 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 269084001955 substrate binding site [chemical binding]; other site 269084001956 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 269084001957 substrate binding site [chemical binding]; other site 269084001958 ligand binding site [chemical binding]; other site 269084001959 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 269084001960 alpha/beta hydrolase fold protein; Provisional; Region: PLN03084 269084001961 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 269084001962 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269084001963 dimer interface [polypeptide binding]; other site 269084001964 [2Fe-2S] cluster binding site [ion binding]; other site 269084001965 Septum formation topological specificity factor MinE; Region: MinE; cl00538 269084001966 septum-site determining protein; Validated; Region: minD; CHL00175 269084001967 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 269084001968 Switch I; other site 269084001969 Switch II; other site 269084001970 putative mercuric reductase; Provisional; Region: PRK14694 269084001971 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269084001972 shikimate kinase; Reviewed; Region: aroK; PRK00131 269084001973 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 269084001974 ADP binding site [chemical binding]; other site 269084001975 magnesium binding site [ion binding]; other site 269084001976 putative shikimate binding site; other site 269084001977 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 269084001978 protein I interface; other site 269084001979 D2 interface; other site 269084001980 protein T interface; other site 269084001981 chlorophyll binding site; other site 269084001982 beta carotene binding site; other site 269084001983 pheophytin binding site; other site 269084001984 manganese-stabilizing polypeptide interface; other site 269084001985 CP43 interface; other site 269084001986 protein L interface; other site 269084001987 oxygen evolving complex binding site; other site 269084001988 bromide binding site; other site 269084001989 quinone binding site; other site 269084001990 Fe binding site [ion binding]; other site 269084001991 core light harvesting interface; other site 269084001992 cytochrome b559 alpha subunit interface; other site 269084001993 cytochrome c-550 interface; other site 269084001994 protein J interface; other site 269084001995 FO synthase subunit 1; Reviewed; Region: cofG; PRK06245 269084001996 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 269084001997 FeS/SAM binding site; other site 269084001998 Domain of unknown function (DUF1830); Region: DUF1830; pfam08865 269084001999 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 269084002000 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 269084002001 active site 269084002002 dimer interface [polypeptide binding]; other site 269084002003 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 269084002004 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 269084002005 active site 269084002006 FMN binding site [chemical binding]; other site 269084002007 substrate binding site [chemical binding]; other site 269084002008 3Fe-4S cluster binding site [ion binding]; other site 269084002009 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 269084002010 domain interface; other site 269084002011 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 269084002012 Cupin domain; Region: Cupin_2; cl09118 269084002013 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 269084002014 S17 interaction site [polypeptide binding]; other site 269084002015 S8 interaction site; other site 269084002016 16S rRNA interaction site [nucleotide binding]; other site 269084002017 streptomycin interaction site [chemical binding]; other site 269084002018 23S rRNA interaction site [nucleotide binding]; other site 269084002019 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 269084002020 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 269084002021 elongation factor G; Reviewed; Region: PRK00007 269084002022 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 269084002023 G1 box; other site 269084002024 putative GEF interaction site [polypeptide binding]; other site 269084002025 GTP/Mg2+ binding site [chemical binding]; other site 269084002026 Switch I region; other site 269084002027 G2 box; other site 269084002028 G3 box; other site 269084002029 Switch II region; other site 269084002030 G4 box; other site 269084002031 G5 box; other site 269084002032 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 269084002033 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 269084002034 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 269084002035 elongation factor Tu; Region: tufA; CHL00071 269084002036 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 269084002037 G1 box; other site 269084002038 GEF interaction site [polypeptide binding]; other site 269084002039 GTP/Mg2+ binding site [chemical binding]; other site 269084002040 Switch I region; other site 269084002041 G2 box; other site 269084002042 G3 box; other site 269084002043 Switch II region; other site 269084002044 G4 box; other site 269084002045 G5 box; other site 269084002046 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 269084002047 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 269084002048 Antibiotic Binding Site [chemical binding]; other site 269084002049 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 269084002050 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 269084002051 prephenate dehydratase; Provisional; Region: PRK11898 269084002052 Prephenate dehydratase; Region: PDT; pfam00800 269084002053 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 269084002054 putative L-Phe binding site [chemical binding]; other site 269084002055 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 269084002056 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 269084002057 RNA/DNA hybrid binding site [nucleotide binding]; other site 269084002058 active site 269084002059 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 269084002060 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 269084002061 homodimer interface [polypeptide binding]; other site 269084002062 oligonucleotide binding site [chemical binding]; other site 269084002063 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 269084002064 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 269084002065 B12 binding site [chemical binding]; other site 269084002066 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 269084002067 FeS/SAM binding site; other site 269084002068 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 269084002069 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 269084002070 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 269084002071 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 269084002072 motif 1; other site 269084002073 active site 269084002074 motif 2; other site 269084002075 motif 3; other site 269084002076 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 269084002077 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 269084002078 SNF2 Helicase protein; Region: DUF3670; pfam12419 269084002079 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 269084002080 ATP binding site [chemical binding]; other site 269084002081 putative Mg++ binding site [ion binding]; other site 269084002082 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 269084002083 nucleotide binding region [chemical binding]; other site 269084002084 ATP-binding site [chemical binding]; other site 269084002085 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 269084002086 Uncharacterised protein family (UPF0150); Region: UPF0150; cl00691 269084002087 YcfA-like protein; Region: YcfA; cl00752 269084002088 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 269084002089 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 269084002090 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 269084002091 Protein of unknown function (DUF520); Region: DUF520; cl00723 269084002092 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 269084002093 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 269084002094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002095 DRTGG domain; Region: DRTGG; cl12147 269084002096 bifunctional sterol desaturase/short chain dehydrogenase; Validated; Region: PRK07424 269084002097 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 269084002098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002099 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 269084002100 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 269084002101 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 269084002102 putative binding surface; other site 269084002103 active site 269084002104 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 269084002105 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 269084002106 ATP binding site [chemical binding]; other site 269084002107 Mg2+ binding site [ion binding]; other site 269084002108 G-X-G motif; other site 269084002109 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 269084002110 Response regulator receiver domain; Region: Response_reg; pfam00072 269084002111 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084002112 active site 269084002113 phosphorylation site [posttranslational modification] 269084002114 intermolecular recognition site; other site 269084002115 dimerization interface [polypeptide binding]; other site 269084002116 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084002117 GAF domain; Region: GAF; cl00853 269084002118 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084002119 GAF domain; Region: GAF; cl00853 269084002120 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084002121 GAF domain; Region: GAF; cl00853 269084002122 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084002123 GAF domain; Region: GAF; cl00853 269084002124 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084002125 GAF domain; Region: GAF; cl00853 269084002126 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269084002127 Methyl-accepting chemotaxis protein (MCP) signaling domain; Region: MCPsignal; pfam00015 269084002128 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 269084002129 Response regulator receiver domain; Region: Response_reg; pfam00072 269084002130 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084002131 active site 269084002132 phosphorylation site [posttranslational modification] 269084002133 intermolecular recognition site; other site 269084002134 dimerization interface [polypeptide binding]; other site 269084002135 Response regulator receiver domain; Region: Response_reg; pfam00072 269084002136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084002137 active site 269084002138 phosphorylation site [posttranslational modification] 269084002139 intermolecular recognition site; other site 269084002140 dimerization interface [polypeptide binding]; other site 269084002141 Predicted bile acid beta-glucosidase [Carbohydrate transport and metabolism]; Region: COG4354 269084002142 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 269084002143 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 269084002144 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 269084002145 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 269084002146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084002147 homodimer interface [polypeptide binding]; other site 269084002148 catalytic residue [active] 269084002149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 269084002150 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 269084002151 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 269084002152 dimerization interface [polypeptide binding]; other site 269084002153 putative ATP binding site [chemical binding]; other site 269084002154 Protein of unknown function (DUF2811); Region: DUF2811; pfam10929 269084002155 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 269084002156 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 269084002157 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269084002158 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 269084002159 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 269084002160 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 269084002161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002162 Walker A motif; other site 269084002163 ATP binding site [chemical binding]; other site 269084002164 Walker B motif; other site 269084002165 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 269084002166 active site 269084002167 phosphate binding residues; other site 269084002168 catalytic residues [active] 269084002169 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 269084002170 glutathione reductase; Validated; Region: PRK06116 269084002171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002173 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269084002174 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 269084002175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002177 DsrE/DsrF-like family; Region: DrsE; cl00672 269084002178 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269084002179 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 269084002180 putative active site [active] 269084002181 catalytic triad [active] 269084002182 putative dimer interface [polypeptide binding]; other site 269084002183 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 269084002184 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084002185 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 269084002186 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 269084002187 dimerization interface [polypeptide binding]; other site 269084002188 putative ATP binding site [chemical binding]; other site 269084002189 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 269084002190 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 269084002191 Walker A motif; other site 269084002192 ATP binding site [chemical binding]; other site 269084002193 Walker B motif; other site 269084002194 arginine finger; other site 269084002195 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 269084002196 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084002197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 269084002198 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269084002199 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 269084002200 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 269084002201 putative dimer interface [polypeptide binding]; other site 269084002202 putative anticodon binding site; other site 269084002203 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 269084002204 homodimer interface [polypeptide binding]; other site 269084002205 motif 1; other site 269084002206 motif 2; other site 269084002207 active site 269084002208 motif 3; other site 269084002209 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 269084002210 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 269084002211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002212 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 269084002213 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 269084002214 NlpC/P60 family; Region: NLPC_P60; cl11438 269084002215 Uncharacterized conserved protein [Function unknown]; Region: COG2898 269084002216 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 269084002217 Domain of unknown function DUF20; Region: UPF0118; cl00465 269084002218 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269084002219 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269084002220 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 269084002221 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269084002222 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 269084002223 putative active site [active] 269084002224 catalytic triad [active] 269084002225 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 269084002226 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269084002227 metal binding site 2 [ion binding]; metal-binding site 269084002228 putative DNA binding helix; other site 269084002229 metal binding site 1 [ion binding]; metal-binding site 269084002230 dimer interface [polypeptide binding]; other site 269084002231 structural Zn2+ binding site [ion binding]; other site 269084002232 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084002233 PAS fold; Region: PAS_4; pfam08448 269084002234 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084002235 metal binding site [ion binding]; metal-binding site 269084002236 active site 269084002237 I-site; other site 269084002238 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 269084002239 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269084002240 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269084002241 Walker A/P-loop; other site 269084002242 ATP binding site [chemical binding]; other site 269084002243 Q-loop/lid; other site 269084002244 ABC transporter signature motif; other site 269084002245 Walker B; other site 269084002246 D-loop; other site 269084002247 H-loop/switch region; other site 269084002248 Ferredoxin [Energy production and conversion]; Region: COG1146 269084002249 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269084002250 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 269084002251 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 269084002252 dimer interface [polypeptide binding]; other site 269084002253 motif 1; other site 269084002254 active site 269084002255 motif 2; other site 269084002256 motif 3; other site 269084002257 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 269084002258 HSP70 interaction site [polypeptide binding]; other site 269084002259 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 269084002260 binding surface 269084002261 TPR motif; other site 269084002262 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084002263 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269084002264 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 269084002265 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 269084002266 putative ADP-binding pocket [chemical binding]; other site 269084002267 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 269084002268 Protein of unknown function (DUF2887); Region: DUF2887; pfam11103 269084002269 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 269084002270 RNA methyltransferase, RsmE family; Region: TIGR00046 269084002271 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084002272 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 269084002273 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 269084002274 Protein of unknown function (DUF990); Region: DUF990; cl01496 269084002275 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 269084002276 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 269084002277 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 269084002278 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269084002279 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 269084002280 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 269084002281 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 269084002282 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 269084002283 FeS/SAM binding site; other site 269084002284 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 269084002285 active site 269084002286 putative DNA-binding cleft [nucleotide binding]; other site 269084002287 dimer interface [polypeptide binding]; other site 269084002288 Protein of unknown function (DUF721); Region: DUF721; cl02324 269084002289 phage shock protein A; Region: phageshock_pspA; TIGR02977 269084002290 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 269084002291 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269084002292 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 269084002293 active site 269084002294 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 269084002295 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 269084002296 RNA/DNA binding site [nucleotide binding]; other site 269084002297 RRM dimerization site [polypeptide binding]; other site 269084002298 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 269084002299 C-terminal domain interface [polypeptide binding]; other site 269084002300 GSH binding site (G-site) [chemical binding]; other site 269084002301 dimer interface [polypeptide binding]; other site 269084002302 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 269084002303 N-terminal domain interface [polypeptide binding]; other site 269084002304 Homo sapiens acid phosphatase 5 and related proteins, metallophosphatase domain; Region: MPP_ACP5; cd07378 269084002305 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269084002306 active site 269084002307 metal binding site [ion binding]; metal-binding site 269084002308 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269084002309 Transglycosylase; Region: Transgly; cl07896 269084002310 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084002311 ATP phosphoribosyltransferase; Region: HisG; cl15266 269084002312 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 269084002313 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084002314 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 269084002315 Walker A/P-loop; other site 269084002316 ATP binding site [chemical binding]; other site 269084002317 Q-loop/lid; other site 269084002318 ABC transporter signature motif; other site 269084002319 Walker B; other site 269084002320 D-loop; other site 269084002321 H-loop/switch region; other site 269084002322 phosphoenolpyruvate synthase; Validated; Region: PRK06464 269084002323 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 269084002324 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 269084002325 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269084002326 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 269084002327 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269084002328 active site 269084002329 ATP binding site [chemical binding]; other site 269084002330 substrate binding site [chemical binding]; other site 269084002331 activation loop (A-loop); other site 269084002332 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 269084002333 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 269084002334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269084002335 Zn2+ binding site [ion binding]; other site 269084002336 Mg2+ binding site [ion binding]; other site 269084002337 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 269084002338 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 269084002339 homodimer interface [polypeptide binding]; other site 269084002340 NADP binding site [chemical binding]; other site 269084002341 substrate binding site [chemical binding]; other site 269084002342 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269084002343 substrate binding pocket [chemical binding]; other site 269084002344 chain length determination region; other site 269084002345 substrate-Mg2+ binding site; other site 269084002346 catalytic residues [active] 269084002347 aspartate-rich region 1; other site 269084002348 active site lid residues [active] 269084002349 aspartate-rich region 2; other site 269084002350 Divergent PAP2 family; Region: DUF212; cl00855 269084002351 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084002352 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084002353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084002354 Coenzyme A binding pocket [chemical binding]; other site 269084002355 CpeT/CpcT family (DUF1001); Region: CpeT; pfam06206 269084002356 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 269084002357 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269084002358 C-terminal domain interface [polypeptide binding]; other site 269084002359 GSH binding site (G-site) [chemical binding]; other site 269084002360 dimer interface [polypeptide binding]; other site 269084002361 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 269084002362 N-terminal domain interface [polypeptide binding]; other site 269084002363 Drosophila melanogaster CG11883 and related proteins, N-terminal metallophosphatase domain; Region: MPP_CG11883_N; cd07406 269084002364 putative active site [active] 269084002365 putative metal binding site [ion binding]; other site 269084002366 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 269084002367 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 269084002368 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 269084002369 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 269084002370 Helix-turn-helix domains; Region: HTH; cl00088 269084002371 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 269084002372 non-specific DNA binding site [nucleotide binding]; other site 269084002373 salt bridge; other site 269084002374 sequence-specific DNA binding site [nucleotide binding]; other site 269084002375 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 269084002376 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 269084002377 Uncharacterized conserved protein (DUF2039); Region: DUF2039; pfam10217 269084002378 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269084002379 catalytic residue [active] 269084002380 Peptidase M15; Region: Peptidase_M15_3; cl01194 269084002381 Phage protein D [General function prediction only]; Region: COG3500; cl12180 269084002382 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269084002383 NlpC/P60 family; Region: NLPC_P60; cl11438 269084002384 Phage Tail Protein X; Region: Phage_tail_X; cl02088 269084002385 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 269084002386 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 269084002387 Phage-related protein [Function unknown]; Region: COG5412 269084002388 Phage tail tube protein FII; Region: Phage_tube; cl01390 269084002389 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 269084002390 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 269084002391 Phage Tail Collar Domain; Region: Collar; pfam07484 269084002392 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 269084002393 Baseplate J-like protein; Region: Baseplate_J; cl01294 269084002394 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 269084002395 PAAR motif; Region: PAAR_motif; pfam05488 269084002396 PAAR motif; Region: PAAR_motif; pfam05488 269084002397 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 269084002398 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 269084002399 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 269084002400 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 269084002401 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; cl05448 269084002402 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 269084002403 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269084002404 CHC2 zinc finger; Region: zf-CHC2; cl15369 269084002405 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 269084002406 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269084002407 active site 269084002408 metal binding site [ion binding]; metal-binding site 269084002409 active site 269084002410 interdomain interaction site; other site 269084002411 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269084002412 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 269084002413 ATP binding site [chemical binding]; other site 269084002414 putative Mg++ binding site [ion binding]; other site 269084002415 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 269084002416 nucleotide binding region [chemical binding]; other site 269084002417 ATP-binding site [chemical binding]; other site 269084002418 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 269084002419 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269084002420 trimer interface [polypeptide binding]; other site 269084002421 active site 269084002422 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269084002423 DNA binding site [nucleotide binding] 269084002424 Int/Topo IB signature motif; other site 269084002425 active site 269084002426 catalytic residues [active] 269084002427 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 269084002428 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 269084002429 active site 269084002430 hinge; other site 269084002431 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 269084002432 Bacterial SH3 domain; Region: SH3_3; cl02551 269084002433 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 269084002434 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 269084002435 active site 269084002436 metal binding site [ion binding]; metal-binding site 269084002437 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 269084002438 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 269084002439 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 269084002440 C-terminal peptidase (prc); Region: prc; TIGR00225 269084002441 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 269084002442 protein binding site [polypeptide binding]; other site 269084002443 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 269084002444 Catalytic dyad [active] 269084002445 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 269084002446 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269084002447 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084002448 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269084002449 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084002450 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 269084002451 IMP binding site; other site 269084002452 dimer interface [polypeptide binding]; other site 269084002453 interdomain contacts; other site 269084002454 partial ornithine binding site; other site 269084002455 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 269084002456 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269084002457 active site 269084002458 metal binding site [ion binding]; metal-binding site 269084002459 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 269084002460 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 269084002461 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 269084002462 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 269084002463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084002464 catalytic residue [active] 269084002465 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 269084002466 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 269084002467 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 269084002468 S-adenosylmethionine binding site [chemical binding]; other site 269084002469 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269084002470 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 269084002471 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 269084002472 trimer interface [polypeptide binding]; other site 269084002473 active site 269084002474 substrate binding site [chemical binding]; other site 269084002475 CoA binding site [chemical binding]; other site 269084002476 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269084002477 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 269084002478 Uncharacterized conserved protein [Function unknown]; Region: COG1912 269084002479 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 269084002480 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 269084002481 active site 269084002482 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 269084002483 Ligand Binding Site [chemical binding]; other site 269084002484 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 269084002485 Ligand Binding Site [chemical binding]; other site 269084002486 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 269084002487 catalytic loop [active] 269084002488 iron binding site [ion binding]; other site 269084002489 Photosystem II protein; Region: PSII; cl08223 269084002490 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 269084002491 ATP cone domain; Region: ATP-cone; pfam03477 269084002492 30S ribosomal protein S1; Reviewed; Region: PRK07400 269084002493 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 269084002494 RNA binding site [nucleotide binding]; other site 269084002495 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 269084002496 RNA binding site [nucleotide binding]; other site 269084002497 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 269084002498 RNA binding site [nucleotide binding]; other site 269084002499 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 269084002500 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 269084002501 motif II; other site 269084002502 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084002503 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 269084002504 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 269084002505 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 269084002506 dimerization interface [polypeptide binding]; other site 269084002507 putative DNA binding site [nucleotide binding]; other site 269084002508 putative Zn2+ binding site [ion binding]; other site 269084002509 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 269084002510 FO synthase subunit 2; Reviewed; Region: PRK07360 269084002511 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269084002512 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 269084002513 ring oligomerisation interface [polypeptide binding]; other site 269084002514 ATP/Mg binding site [chemical binding]; other site 269084002515 stacking interactions; other site 269084002516 hinge regions; other site 269084002517 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269084002518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002519 NAD(P) binding site [chemical binding]; other site 269084002520 active site 269084002521 Ion channel; Region: Ion_trans_2; cl11596 269084002522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002523 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269084002524 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269084002525 putative active site [active] 269084002526 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 269084002527 substrate binding site; other site 269084002528 dimer interface; other site 269084002529 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 269084002530 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 269084002531 RNA/DNA binding site [nucleotide binding]; other site 269084002532 RRM dimerization site [polypeptide binding]; other site 269084002533 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 269084002534 putative active site [active] 269084002535 catalytic site [active] 269084002536 putative substrate binding site [chemical binding]; other site 269084002537 Helix-turn-helix domains; Region: HTH; cl00088 269084002538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 269084002539 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 269084002540 Protein of unknown function (DUF3529); Region: DUF3529; pfam12046 269084002541 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 269084002542 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 269084002543 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269084002544 minor groove reading motif; other site 269084002545 helix-hairpin-helix signature motif; other site 269084002546 substrate binding pocket [chemical binding]; other site 269084002547 active site 269084002548 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 269084002549 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 269084002550 active site 269084002551 8-oxo-dGMP binding site [chemical binding]; other site 269084002552 nudix motif; other site 269084002553 metal binding site [ion binding]; metal-binding site 269084002554 RNA polymerase sigma factor SigD; Validated; Region: PRK07405 269084002555 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084002556 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084002557 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084002558 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 269084002559 DNA binding residues [nucleotide binding] 269084002560 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 269084002561 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 269084002562 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269084002563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002564 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 269084002565 active site 269084002566 DNA binding site [nucleotide binding] 269084002567 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 269084002568 HSP70 interaction site [polypeptide binding]; other site 269084002569 Creatinine amidohydrolase; Region: Creatininase; cl00618 269084002570 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269084002571 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 269084002572 ligand binding site [chemical binding]; other site 269084002573 flexible hinge region; other site 269084002574 CHASE2 domain; Region: CHASE2; cl01732 269084002575 cyclase homology domain; Region: CHD; cd07302 269084002576 nucleotidyl binding site; other site 269084002577 metal binding site [ion binding]; metal-binding site 269084002578 dimer interface [polypeptide binding]; other site 269084002579 FecR protein; Region: FecR; pfam04773 269084002580 arogenate dehydrogenase; Reviewed; Region: PRK07417 269084002581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002582 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269084002583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002584 Protein of unknown function (DUF2839); Region: DUF2839; pfam10999 269084002585 Domain of unknown function (DUF1815); Region: DUF1815; pfam08844 269084002586 Photosystem II protein; Region: PSII; cl08223 269084002587 photosystem II 44 kDa subunit reaction center protein (also called P6 protein, CP43), bacterial and chloroplast; Region: psbC; TIGR01153 269084002588 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 269084002589 D1 interface; other site 269084002590 chlorophyll binding site; other site 269084002591 pheophytin binding site; other site 269084002592 beta carotene binding site; other site 269084002593 cytochrome b559 beta interface; other site 269084002594 quinone binding site; other site 269084002595 cytochrome b559 alpha interface; other site 269084002596 protein J interface; other site 269084002597 protein H interface; other site 269084002598 protein X interface; other site 269084002599 core light harvesting protein interface; other site 269084002600 protein L interface; other site 269084002601 CP43 interface; other site 269084002602 protein T interface; other site 269084002603 Fe binding site [ion binding]; other site 269084002604 protein M interface; other site 269084002605 Mn-stabilizing polypeptide interface; other site 269084002606 bromide binding site; other site 269084002607 cytochrome c-550 interface; other site 269084002608 Ycf4; Region: Ycf4; cl03567 269084002609 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 269084002610 active site 269084002611 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269084002612 primosome assembly protein PriA; Validated; Region: PRK05580 269084002613 primosome assembly protein PriA; Validated; Region: PRK05580 269084002614 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 269084002615 ATP binding site [chemical binding]; other site 269084002616 putative Mg++ binding site [ion binding]; other site 269084002617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002618 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084002619 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084002620 RNA polymerase sigma factor RpoD; Validated; Region: PRK07406 269084002621 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084002622 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084002623 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084002624 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 269084002625 DNA binding residues [nucleotide binding] 269084002626 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 269084002627 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 269084002628 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 269084002629 inhibitor-cofactor binding pocket; inhibition site 269084002630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084002631 catalytic residue [active] 269084002632 GAF domain; Region: GAF; cl00853 269084002633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269084002634 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 269084002635 dimer interface [polypeptide binding]; other site 269084002636 phosphorylation site [posttranslational modification] 269084002637 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 269084002638 ATP binding site [chemical binding]; other site 269084002639 Mg2+ binding site [ion binding]; other site 269084002640 G-X-G motif; other site 269084002641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084002642 active site 269084002643 phosphorylation site [posttranslational modification] 269084002644 intermolecular recognition site; other site 269084002645 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 269084002646 catalytic triad [active] 269084002647 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 269084002648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002649 domain; Region: Succ_DH_flav_C; pfam02910 269084002650 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084002651 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269084002652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002653 Walker A/P-loop; other site 269084002654 ATP binding site [chemical binding]; other site 269084002655 Q-loop/lid; other site 269084002656 ABC transporter signature motif; other site 269084002657 Walker B; other site 269084002658 D-loop; other site 269084002659 H-loop/switch region; other site 269084002660 enolase; Provisional; Region: eno; PRK00077 269084002661 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 269084002662 dimer interface [polypeptide binding]; other site 269084002663 metal binding site [ion binding]; metal-binding site 269084002664 substrate binding pocket [chemical binding]; other site 269084002665 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084002666 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 269084002667 dimer interface [polypeptide binding]; other site 269084002668 active site 269084002669 metal binding site [ion binding]; metal-binding site 269084002670 glutathione binding site [chemical binding]; other site 269084002671 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 269084002672 Clp amino terminal domain; Region: Clp_N; pfam02861 269084002673 Clp amino terminal domain; Region: Clp_N; pfam02861 269084002674 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 269084002675 Walker A motif; other site 269084002676 ATP binding site [chemical binding]; other site 269084002677 Walker B motif; other site 269084002678 arginine finger; other site 269084002679 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 269084002680 Walker A motif; other site 269084002681 ATP binding site [chemical binding]; other site 269084002682 Walker B motif; other site 269084002683 arginine finger; other site 269084002684 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269084002685 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 269084002686 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 269084002687 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 269084002688 putative homodimer interface [polypeptide binding]; other site 269084002689 KOW motif; Region: KOW; cl00354 269084002690 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 269084002691 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 269084002692 23S rRNA interface [nucleotide binding]; other site 269084002693 L7/L12 interface [polypeptide binding]; other site 269084002694 putative thiostrepton binding site; other site 269084002695 L25 interface [polypeptide binding]; other site 269084002696 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 269084002697 mRNA/rRNA interface [nucleotide binding]; other site 269084002698 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 269084002699 23S rRNA interface [nucleotide binding]; other site 269084002700 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 269084002701 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 269084002702 L11 interface [polypeptide binding]; other site 269084002703 putative EF-Tu interaction site [polypeptide binding]; other site 269084002704 putative EF-G interaction site [polypeptide binding]; other site 269084002705 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 269084002706 spermidine synthase; Provisional; Region: PRK00811 269084002707 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 269084002708 S-adenosylmethionine binding site [chemical binding]; other site 269084002709 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 269084002710 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084002711 Dehydratase family; Region: ILVD_EDD; cl00340 269084002712 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 269084002713 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002714 R3H domain of a group of proteins with unknown function, who also contain a AAA-ATPase (AAA) domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is...; Region: R3H_AAA; cd02645 269084002715 RxxxH motif; other site 269084002716 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 269084002717 Iron-Sulfur binding protein C terminal; Region: LdpA_C; pfam12617 269084002718 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 269084002719 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002721 TRX domain, novel NADPH thioredoxin reductase (NTR) family; composed of fusion proteins found only in oxygenic photosynthetic organisms containing both TRX and NTR domains. The TRX domain functions as a protein disulfide reductase via the reversible...; Region: TRX_NTR; cd02949 269084002722 catalytic residues [active] 269084002723 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 269084002724 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084002725 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 269084002726 Protein of unknown function (DUF541); Region: SIMPL; cl01077 269084002727 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269084002728 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 269084002729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002730 oligomerization interface [polypeptide binding]; other site 269084002731 active site 269084002732 NAD+ binding site [chemical binding]; other site 269084002733 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 269084002734 Helix-turn-helix domains; Region: HTH; cl00088 269084002735 HrcA protein C terminal domain; Region: HrcA; pfam01628 269084002736 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269084002737 active site residue [active] 269084002738 Protein of unknown function (DUF3352); Region: DUF3352; pfam11832 269084002739 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 269084002740 catalytic core [active] 269084002741 citrate synthase; Provisional; Region: PRK14036 269084002742 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 269084002743 dimer interface [polypeptide binding]; other site 269084002744 active site 269084002745 citrylCoA binding site [chemical binding]; other site 269084002746 oxalacetate/citrate binding site [chemical binding]; other site 269084002747 coenzyme A binding site [chemical binding]; other site 269084002748 catalytic triad [active] 269084002749 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 269084002750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002751 Walker A/P-loop; other site 269084002752 ATP binding site [chemical binding]; other site 269084002753 Q-loop/lid; other site 269084002754 ABC transporter signature motif; other site 269084002755 Walker B; other site 269084002756 D-loop; other site 269084002757 H-loop/switch region; other site 269084002758 Smr domain; Region: Smr; cl02619 269084002759 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269084002760 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269084002761 NAD(P)H-quinone oxidoreductase subunit D4; Validated; Region: PRK06473 269084002762 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084002763 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 269084002764 Cupin domain; Region: Cupin_2; cl09118 269084002765 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 269084002766 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 269084002767 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 269084002768 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 269084002769 substrate binding site [chemical binding]; other site 269084002770 hexamer interface [polypeptide binding]; other site 269084002771 metal binding site [ion binding]; metal-binding site 269084002772 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 269084002773 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 269084002774 ligand binding site; other site 269084002775 oligomer interface; other site 269084002776 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 269084002777 dimer interface [polypeptide binding]; other site 269084002778 N-terminal domain interface [polypeptide binding]; other site 269084002779 sulfate 1 binding site; other site 269084002780 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 269084002781 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269084002782 active site 269084002783 ATP binding site [chemical binding]; other site 269084002784 substrate binding site [chemical binding]; other site 269084002785 activation loop (A-loop); other site 269084002786 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 269084002787 Helix-turn-helix domains; Region: HTH; cl00088 269084002788 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 269084002789 putative peptidoglycan binding site; other site 269084002790 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 269084002791 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 269084002792 putative peptidoglycan binding site; other site 269084002793 Peptidase family M23; Region: Peptidase_M23; pfam01551 269084002794 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 269084002795 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 269084002796 substrate binding site [chemical binding]; other site 269084002797 oxyanion hole (OAH) forming residues; other site 269084002798 trimer interface [polypeptide binding]; other site 269084002799 tocopherol O-methyltransferase; Region: PLN02244 269084002800 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 269084002801 S-adenosylmethionine binding site [chemical binding]; other site 269084002802 Protein of unknown function (DUF2808); Region: DUF2808; pfam10989 269084002803 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 269084002804 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 269084002805 6-phosphofructokinase; Provisional; Region: PRK03202 269084002806 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 269084002807 active site 269084002808 ADP/pyrophosphate binding site [chemical binding]; other site 269084002809 dimerization interface [polypeptide binding]; other site 269084002810 allosteric effector site; other site 269084002811 fructose-1,6-bisphosphate binding site; other site 269084002812 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269084002813 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269084002814 Flagellin N-methylase; Region: FliB; cl00497 269084002815 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 269084002816 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084002817 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 269084002818 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269084002819 HIGH motif; other site 269084002820 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269084002821 active site 269084002822 KMSKS motif; other site 269084002823 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 269084002824 tRNA binding surface [nucleotide binding]; other site 269084002825 anticodon binding site; other site 269084002826 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 269084002827 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269084002828 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 269084002829 active site 269084002830 metal binding site [ion binding]; metal-binding site 269084002831 hexamer interface [polypeptide binding]; other site 269084002832 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269084002833 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 269084002834 protein binding site [polypeptide binding]; other site 269084002835 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 269084002836 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269084002837 active site 269084002838 dimer interface [polypeptide binding]; other site 269084002839 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084002840 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 269084002841 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 269084002842 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 269084002843 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269084002844 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084002845 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084002846 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 269084002847 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084002848 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269084002849 NAD(P) binding site [chemical binding]; other site 269084002850 active site 269084002851 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 269084002852 ThiS interaction site; other site 269084002853 putative active site [active] 269084002854 tetramer interface [polypeptide binding]; other site 269084002855 Domain of unknown function (DUF3598); Region: DUF3598; pfam12204 269084002856 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269084002857 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084002858 active site 269084002859 metal binding site [ion binding]; metal-binding site 269084002860 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 269084002861 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 269084002862 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 269084002863 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 269084002864 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 269084002865 generic binding surface I; other site 269084002866 generic binding surface II; other site 269084002867 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084002868 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 269084002869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084002870 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084002871 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 269084002872 DNA binding residues [nucleotide binding] 269084002873 cytosine deaminase-like protein; Validated; Region: PRK07583 269084002874 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 269084002875 active site 269084002876 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269084002877 FAD binding domain; Region: FAD_binding_4; pfam01565 269084002878 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 269084002879 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 269084002880 active site 269084002881 motif I; other site 269084002882 motif II; other site 269084002883 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 269084002884 phosphopeptide binding site; other site 269084002885 ABC exporter ATP-binding subunit, DevA family; Region: heterocyst_DevA; TIGR02982 269084002886 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 269084002887 Walker A/P-loop; other site 269084002888 ATP binding site [chemical binding]; other site 269084002889 Q-loop/lid; other site 269084002890 ABC transporter signature motif; other site 269084002891 Walker B; other site 269084002892 D-loop; other site 269084002893 H-loop/switch region; other site 269084002894 excinuclease ABC subunit B; Provisional; Region: PRK05298 269084002895 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 269084002896 ATP binding site [chemical binding]; other site 269084002897 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 269084002898 nucleotide binding region [chemical binding]; other site 269084002899 ATP-binding site [chemical binding]; other site 269084002900 Ultra-violet resistance protein B; Region: UvrB; pfam12344 269084002901 UvrB/uvrC motif; Region: UVR; pfam02151 269084002902 Protein of unknown function (DUF3531); Region: DUF3531; pfam12049 269084002903 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 269084002904 TPR motif; other site 269084002905 binding surface 269084002906 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 269084002907 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 269084002908 Walker A/P-loop; other site 269084002909 ATP binding site [chemical binding]; other site 269084002910 Q-loop/lid; other site 269084002911 ABC transporter signature motif; other site 269084002912 Walker B; other site 269084002913 D-loop; other site 269084002914 H-loop/switch region; other site 269084002915 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 269084002916 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 269084002917 dimerization interface [polypeptide binding]; other site 269084002918 domain crossover interface; other site 269084002919 redox-dependent activation switch; other site 269084002920 Protein of unknown function (DUF3353); Region: DUF3353; pfam11833 269084002921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084002922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084002923 active site 269084002924 phosphorylation site [posttranslational modification] 269084002925 intermolecular recognition site; other site 269084002926 dimerization interface [polypeptide binding]; other site 269084002927 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 269084002928 DNA binding site [nucleotide binding] 269084002929 Protein of unknown function DUF45; Region: DUF45; cl00636 269084002930 GTP-binding protein YchF; Reviewed; Region: PRK09601 269084002931 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 269084002932 G1 box; other site 269084002933 GTP/Mg2+ binding site [chemical binding]; other site 269084002934 Switch I region; other site 269084002935 G2 box; other site 269084002936 Switch II region; other site 269084002937 G3 box; other site 269084002938 G4 box; other site 269084002939 G5 box; other site 269084002940 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 269084002941 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 269084002942 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269084002943 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 269084002944 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 269084002945 active site 269084002946 homodimer interface [polypeptide binding]; other site 269084002947 Integral membrane protein TerC family; Region: TerC; cl10468 269084002948 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084002949 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 269084002950 The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial...; Region: Na_H_Antiporter_C; cd01988 269084002951 Ligand Binding Site [chemical binding]; other site 269084002952 YCII-related domain; Region: YCII; cl00999 269084002953 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269084002954 lipoyl synthase; Provisional; Region: PRK05481 269084002955 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15367 269084002956 FeS/SAM binding site; other site 269084002957 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 269084002958 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 269084002959 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 269084002960 transketolase; Region: PLN02790 269084002961 TPP-binding site [chemical binding]; other site 269084002962 dimer interface [polypeptide binding]; other site 269084002963 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 269084002964 PYR/PP interface [polypeptide binding]; other site 269084002965 dimer interface [polypeptide binding]; other site 269084002966 TPP binding site [chemical binding]; other site 269084002967 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269084002968 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 269084002969 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 269084002970 dimer interface [polypeptide binding]; other site 269084002971 active site 269084002972 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269084002973 photosystem I subunit VII; Region: psaC; CHL00065 269084002974 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269084002975 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269084002976 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 269084002977 glutaminase active site [active] 269084002978 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 269084002979 dimer interface [polypeptide binding]; other site 269084002980 active site 269084002981 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 269084002982 dimer interface [polypeptide binding]; other site 269084002983 active site 269084002984 Protein of unknown function (DUF433); Region: DUF433; cl01030 269084002985 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 269084002986 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 269084002987 binding surface 269084002988 TPR motif; other site 269084002989 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 269084002990 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 269084002991 binding surface 269084002992 TPR motif; other site 269084002993 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 269084002994 binding surface 269084002995 TPR motif; other site 269084002996 iron-sulfur cluster binding protein, putative; Region: TIGR00276 269084002997 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 269084002998 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 269084002999 putative active site [active] 269084003000 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 269084003001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269084003002 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 269084003003 active site 269084003004 dimer interface [polypeptide binding]; other site 269084003005 metal binding site [ion binding]; metal-binding site 269084003006 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269084003007 MAPEG family; Region: MAPEG; cl09190 269084003008 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003009 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003010 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003011 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 269084003012 putative hexamer interface [polypeptide binding]; other site 269084003013 putative hexagonal pore; other site 269084003014 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 269084003015 Hexamer interface [polypeptide binding]; other site 269084003016 Hexagonal pore residue; other site 269084003017 Domain of unknown function DUF20; Region: UPF0118; cl00465 269084003018 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 269084003019 DHH family; Region: DHH; pfam01368 269084003020 DHHA1 domain; Region: DHHA1; pfam02272 269084003021 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269084003022 C-terminal peptidase (prc); Region: prc; TIGR00225 269084003023 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 269084003024 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 269084003025 Catalytic dyad [active] 269084003026 Domain of unknown function (DUF309); Region: DUF309; cl00667 269084003027 OstA-like protein; Region: OstA; cl00844 269084003028 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 269084003029 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 269084003030 Walker A/P-loop; other site 269084003031 ATP binding site [chemical binding]; other site 269084003032 Q-loop/lid; other site 269084003033 ABC transporter signature motif; other site 269084003034 Walker B; other site 269084003035 D-loop; other site 269084003036 H-loop/switch region; other site 269084003037 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 269084003038 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 269084003039 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269084003040 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 269084003041 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084003042 SprT-like family; Region: SprT-like; pfam10263 269084003043 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 269084003044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084003045 ribosome recycling factor; Reviewed; Region: frr; PRK00083 269084003046 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 269084003047 hinge region; other site 269084003048 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 269084003049 putative nucleotide binding site [chemical binding]; other site 269084003050 uridine monophosphate binding site [chemical binding]; other site 269084003051 homohexameric interface [polypeptide binding]; other site 269084003052 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 269084003053 putative active site [active] 269084003054 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 269084003055 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 269084003056 tRNA; other site 269084003057 putative tRNA binding site [nucleotide binding]; other site 269084003058 putative NADP binding site [chemical binding]; other site 269084003059 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 269084003060 uncharacterized cyanobacterial protein, TIGR03792 family; Region: TIGR03792 269084003061 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269084003062 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084003063 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 269084003064 NAD(P) binding site [chemical binding]; other site 269084003065 putative active site [active] 269084003066 O-methyltransferase; Region: Methyltransf_2; pfam00891 269084003067 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 269084003068 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 269084003069 active site 269084003070 Substrate binding site; other site 269084003071 Mg++ binding site; other site 269084003072 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 269084003073 putative trimer interface [polypeptide binding]; other site 269084003074 putative CoA binding site [chemical binding]; other site 269084003075 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 269084003076 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 269084003077 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 269084003078 S-adenosylmethionine binding site [chemical binding]; other site 269084003079 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 269084003080 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269084003081 RES domain; Region: RES; cl02411 269084003082 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 269084003083 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 269084003084 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003085 active site 269084003086 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 269084003087 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 269084003088 active site 269084003089 Riboflavin kinase; Region: Flavokinase; cl03312 269084003090 PAS domain S-box; Region: sensory_box; TIGR00229 269084003091 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 269084003092 putative active site [active] 269084003093 heme pocket [chemical binding]; other site 269084003094 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 269084003095 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084003096 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 269084003097 PAS fold; Region: PAS_3; pfam08447 269084003098 putative active site [active] 269084003099 heme pocket [chemical binding]; other site 269084003100 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084003101 metal binding site [ion binding]; metal-binding site 269084003102 active site 269084003103 I-site; other site 269084003104 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 269084003105 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 269084003106 NAD(P) binding site [chemical binding]; other site 269084003107 catalytic residues [active] 269084003108 dihydroorotase; Provisional; Region: PRK07575 269084003109 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 269084003110 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 269084003111 active site 269084003112 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 269084003113 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 269084003114 Catalytic site [active] 269084003115 dihydroorotase, multifunctional complex type; Region: pyrC_multi; TIGR00857 269084003116 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 269084003117 active site 269084003118 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 269084003119 catalytic core [active] 269084003120 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 269084003121 catalytic core [active] 269084003122 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 269084003123 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 269084003124 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269084003125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084003126 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269084003127 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 269084003128 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084003129 GAF domain; Region: GAF; cl00853 269084003130 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 269084003131 dimer interface [polypeptide binding]; other site 269084003132 phosphorylation site [posttranslational modification] 269084003133 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 269084003134 ATP binding site [chemical binding]; other site 269084003135 Mg2+ binding site [ion binding]; other site 269084003136 G-X-G motif; other site 269084003137 GTP-binding protein LepA; Provisional; Region: PRK05433 269084003138 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 269084003139 G1 box; other site 269084003140 putative GEF interaction site [polypeptide binding]; other site 269084003141 GTP/Mg2+ binding site [chemical binding]; other site 269084003142 Switch I region; other site 269084003143 G2 box; other site 269084003144 G3 box; other site 269084003145 Switch II region; other site 269084003146 G4 box; other site 269084003147 G5 box; other site 269084003148 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 269084003149 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 269084003150 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 269084003151 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 269084003152 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 269084003153 Catalytic site [active] 269084003154 YGGT family; Region: YGGT; cl00508 269084003155 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 269084003156 PetN; Region: PetN; cl15376 269084003157 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269084003158 FMN binding site [chemical binding]; other site 269084003159 active site 269084003160 substrate binding site [chemical binding]; other site 269084003161 catalytic residue [active] 269084003162 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 269084003163 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269084003164 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 269084003165 dimer interface [polypeptide binding]; other site 269084003166 conserved gate region; other site 269084003167 putative PBP binding loops; other site 269084003168 ABC-ATPase subunit interface; other site 269084003169 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 269084003170 Sulfatase; Region: Sulfatase; cl10460 269084003171 Zinc-dependent metalloprotease; MMP_like sub-family 1. A group of bacterial, archaeal, and fungal metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_1; cd04279 269084003172 active site 269084003173 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269084003174 DXD motif; other site 269084003175 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 269084003176 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 269084003177 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 269084003178 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 269084003179 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269084003180 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269084003181 active site 269084003182 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 269084003183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084003184 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 269084003185 Coenzyme A binding pocket [chemical binding]; other site 269084003186 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 269084003187 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 269084003188 substrate binding site [chemical binding]; other site 269084003189 catalytic Zn binding site [ion binding]; other site 269084003190 NAD binding site [chemical binding]; other site 269084003191 structural Zn binding site [ion binding]; other site 269084003192 dimer interface [polypeptide binding]; other site 269084003193 Predicted esterase [General function prediction only]; Region: COG0627 269084003194 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084003195 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 269084003196 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 269084003197 GAF domain; Region: GAF; cl00853 269084003198 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 269084003199 phosphorylation site [posttranslational modification] 269084003200 dimer interface [polypeptide binding]; other site 269084003201 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 269084003202 ATP binding site [chemical binding]; other site 269084003203 Mg2+ binding site [ion binding]; other site 269084003204 G-X-G motif; other site 269084003205 Protein of unknown function (DUF3155); Region: DUF3155; pfam11352 269084003206 Predicted esterase [General function prediction only]; Region: COG0400 269084003207 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084003208 NifU-like domain; Region: NifU; cl00484 269084003209 seryl-tRNA synthetase; Provisional; Region: PRK05431 269084003210 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 269084003211 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 269084003212 dimer interface [polypeptide binding]; other site 269084003213 active site 269084003214 motif 1; other site 269084003215 motif 2; other site 269084003216 motif 3; other site 269084003217 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 269084003218 active site 269084003219 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 269084003220 protein binding site [polypeptide binding]; other site 269084003221 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 269084003222 putative substrate binding region [chemical binding]; other site 269084003223 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 269084003224 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269084003225 minor groove reading motif; other site 269084003226 helix-hairpin-helix signature motif; other site 269084003227 substrate binding pocket [chemical binding]; other site 269084003228 active site 269084003229 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 269084003230 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 269084003231 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 269084003232 dimer interface [polypeptide binding]; other site 269084003233 conserved gate region; other site 269084003234 putative PBP binding loops; other site 269084003235 ABC-ATPase subunit interface; other site 269084003236 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269084003237 S-layer homology domain; Region: SLH; pfam00395 269084003238 S-layer homology domain; Region: SLH; pfam00395 269084003239 S-layer homology domain; Region: SLH; pfam00395 269084003240 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 269084003241 AIR carboxylase; Region: AIRC; cl00310 269084003242 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 269084003243 active site 269084003244 dimer interface [polypeptide binding]; other site 269084003245 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 269084003246 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 269084003247 S-adenosylmethionine binding site [chemical binding]; other site 269084003248 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084003249 Competence protein CoiA-like family; Region: CoiA; cl11541 269084003250 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 269084003251 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 269084003252 Predicted permeases [General function prediction only]; Region: COG0701 269084003253 Predicted permease; Region: DUF318; pfam03773 269084003254 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 269084003255 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269084003256 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 269084003257 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 269084003258 TPP-binding site; other site 269084003259 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 269084003260 PYR/PP interface [polypeptide binding]; other site 269084003261 dimer interface [polypeptide binding]; other site 269084003262 TPP binding site [chemical binding]; other site 269084003263 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269084003264 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 269084003265 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 269084003266 active site 269084003267 catalytic residues [active] 269084003268 metal binding site [ion binding]; metal-binding site 269084003269 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 269084003270 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269084003271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003272 Walker A/P-loop; other site 269084003273 ATP binding site [chemical binding]; other site 269084003274 Q-loop/lid; other site 269084003275 ABC transporter signature motif; other site 269084003276 Walker B; other site 269084003277 D-loop; other site 269084003278 H-loop/switch region; other site 269084003279 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 269084003280 Protein of unknown function (DUF760); Region: DUF760; pfam05542 269084003281 D1 subunit of photosystem II (PS II); Region: Photosystem-II_D1; cd09289 269084003282 protein I interface; other site 269084003283 D2 interface; other site 269084003284 protein T interface; other site 269084003285 chlorophyll binding site; other site 269084003286 beta carotene binding site; other site 269084003287 pheophytin binding site; other site 269084003288 manganese-stabilizing polypeptide interface; other site 269084003289 CP43 interface; other site 269084003290 protein L interface; other site 269084003291 oxygen evolving complex binding site; other site 269084003292 bromide binding site; other site 269084003293 quinone binding site; other site 269084003294 Fe binding site [ion binding]; other site 269084003295 core light harvesting interface; other site 269084003296 cytochrome b559 alpha subunit interface; other site 269084003297 cytochrome c-550 interface; other site 269084003298 protein J interface; other site 269084003299 MAPEG family; Region: MAPEG; cl09190 269084003300 biotin synthase; Region: bioB; TIGR00433 269084003301 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 269084003302 FeS/SAM binding site; other site 269084003303 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 269084003304 Protein of unknown function (DUF1257); Region: DUF1257; cl06088 269084003305 Ycf46; Provisional; Region: ycf46; CHL00195 269084003306 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 269084003307 Walker A motif; other site 269084003308 ATP binding site [chemical binding]; other site 269084003309 Walker B motif; other site 269084003310 arginine finger; other site 269084003311 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003312 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003313 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003314 Domain of unknown function DUF39; Region: DUF39; cl14897 269084003315 Protein of unknown function (DUF3007); Region: DUF3007; pfam11460 269084003316 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 269084003317 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 269084003318 substrate binding site [chemical binding]; other site 269084003319 active site 269084003320 catalytic residues [active] 269084003321 heterodimer interface [polypeptide binding]; other site 269084003322 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 269084003323 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 269084003324 active site 269084003325 Photosystem I psaG / psaK; Region: PSI_PSAK; cl11425 269084003326 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 269084003327 DNA polymerase III subunit delta; Validated; Region: PRK07452 269084003328 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 269084003329 RF-1 domain; Region: RF-1; cl02875 269084003330 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 269084003331 RF-1 domain; Region: RF-1; cl02875 269084003332 Protein of unknown function (DUF3285); Region: DUF3285; pfam11688 269084003333 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 269084003334 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 269084003335 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 269084003336 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 269084003337 glutamine binding [chemical binding]; other site 269084003338 catalytic triad [active] 269084003339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084003340 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 269084003341 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 269084003342 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 269084003343 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 269084003344 purine monophosphate binding site [chemical binding]; other site 269084003345 dimer interface [polypeptide binding]; other site 269084003346 putative catalytic residues [active] 269084003347 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 269084003348 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 269084003349 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269084003350 DNA-binding interface [nucleotide binding]; DNA binding site 269084003351 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 269084003352 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 269084003353 MltA specific insert domain; Region: MltA; cl08398 269084003354 3D domain; Region: 3D; cl01439 269084003355 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084003356 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 269084003357 isoform II; Region: PAF-AH_p_II; pfam03403 269084003358 Chromate transporter; Region: Chromate_transp; pfam02417 269084003359 Chromate transporter; Region: Chromate_transp; pfam02417 269084003360 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 269084003361 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 269084003362 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 269084003363 Uncharacterised protein family UPF0052; Region: UPF0052; pfam01933 269084003364 phosphate binding site [ion binding]; other site 269084003365 putative substrate binding pocket [chemical binding]; other site 269084003366 dimer interface [polypeptide binding]; other site 269084003367 geranylgeranyl diphosphate reductase; Provisional; Region: PLN00093 269084003368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084003369 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 269084003370 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 269084003371 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 269084003372 Protein of unknown function (DUF3119); Region: DUF3119; pfam11317 269084003373 Domain of unknown function DUF140; Region: DUF140; cl00510 269084003374 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 269084003375 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 269084003376 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 269084003377 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 269084003378 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 269084003379 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 269084003380 Cupin superfamily protein; Region: Cupin_4; pfam08007 269084003381 Homoserine O-succinyltransferase; Region: HTS; pfam04204 269084003382 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 269084003383 proposed active site lysine [active] 269084003384 conserved cys residue [active] 269084003385 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 269084003386 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 269084003387 homodimer interface [polypeptide binding]; other site 269084003388 substrate-cofactor binding pocket; other site 269084003389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084003390 catalytic residue [active] 269084003391 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 269084003392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084003393 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 269084003394 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 269084003395 generic binding surface II; other site 269084003396 generic binding surface I; other site 269084003397 bile acid transporter; Region: bass; TIGR00841 269084003398 Membrane transport protein; Region: Mem_trans; cl09117 269084003399 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 269084003400 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269084003401 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 269084003402 ligand binding site [chemical binding]; other site 269084003403 flexible hinge region; other site 269084003404 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084003405 active site 269084003406 phosphorylation site [posttranslational modification] 269084003407 intermolecular recognition site; other site 269084003408 CpeS-like protein; Region: CpeS; pfam09367 269084003409 Protein of unknown function (DUF3177); Region: DUF3177; pfam11375 269084003410 CP12 domain; Region: CP12; cl14670 269084003411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 269084003412 FIST N domain; Region: FIST; cl10701 269084003413 FIST C domain; Region: FIST_C; pfam10442 269084003414 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269084003415 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269084003416 active site 269084003417 metal binding site [ion binding]; metal-binding site 269084003418 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269084003419 active site 269084003420 metal binding site [ion binding]; metal-binding site 269084003421 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084003422 O-Antigen ligase; Region: Wzy_C; cl04850 269084003423 Protein of unknown function (DUF751); Region: DUF751; pfam05421 269084003424 Ribosome-binding factor A; Region: RBFA; cl00542 269084003425 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 269084003426 Membrane transport protein; Region: Mem_trans; cl09117 269084003427 SelR domain; Region: SelR; cl00369 269084003428 mce related protein; Region: MCE; cl15431 269084003429 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 269084003430 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 269084003431 Walker A/P-loop; other site 269084003432 ATP binding site [chemical binding]; other site 269084003433 Q-loop/lid; other site 269084003434 ABC transporter signature motif; other site 269084003435 Walker B; other site 269084003436 D-loop; other site 269084003437 H-loop/switch region; other site 269084003438 Protein of unknown function (DUF3611); Region: DUF3611; pfam12263 269084003439 recombinase A; Provisional; Region: recA; PRK09354 269084003440 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 269084003441 hexamer interface [polypeptide binding]; other site 269084003442 Walker A motif; other site 269084003443 ATP binding site [chemical binding]; other site 269084003444 Walker B motif; other site 269084003445 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 269084003446 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 269084003447 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 269084003448 Peptidase family M23; Region: Peptidase_M23; pfam01551 269084003449 photosystem II protein Psb27; Provisional; Region: PLN00064; cl11841 269084003450 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 269084003451 Protein of unknown function (DUF3326); Region: DUF3326; pfam11805 269084003452 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 269084003453 catalytic loop [active] 269084003454 iron binding site [ion binding]; other site 269084003455 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 269084003456 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 269084003457 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 269084003458 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 269084003459 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 269084003460 beta subunit interaction interface [polypeptide binding]; other site 269084003461 Walker A motif; other site 269084003462 ATP binding site [chemical binding]; other site 269084003463 Walker B motif; other site 269084003464 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269084003465 Plant ATP synthase F0; Region: YMF19; cl07975 269084003466 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 269084003467 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 269084003468 F0F1 ATP synthase subunit B; Validated; Region: PRK07352 269084003469 Plant ATP synthase F0; Region: YMF19; cl07975 269084003470 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 269084003471 ATP synthase subunit C; Region: ATP-synt_C; cl00466 269084003472 ATP synthase A chain; Region: ATP-synt_A; cl00413 269084003473 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 269084003474 S-adenosylmethionine binding site [chemical binding]; other site 269084003475 Phycobilisome protein; Region: Phycobilisome; cl08227 269084003476 Phycobilisome protein; Region: Phycobilisome; cl08227 269084003477 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 269084003478 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 269084003479 Phycobilisome protein; Region: Phycobilisome; cl08227 269084003480 Phycobilisome protein; Region: Phycobilisome; cl08227 269084003481 CpcD/allophycocyanin linker domain; Region: CpcD; cl03191 269084003482 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 269084003483 LysE type translocator; Region: LysE; cl00565 269084003484 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 269084003485 ResB-like family; Region: ResB; pfam05140 269084003486 Nitrogen regulatory protein P-II; Region: P-II; cl00412 269084003487 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 269084003488 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 269084003489 NAD binding site [chemical binding]; other site 269084003490 homodimer interface [polypeptide binding]; other site 269084003491 active site 269084003492 substrate binding site [chemical binding]; other site 269084003493 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 269084003494 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 269084003495 RNA binding surface [nucleotide binding]; other site 269084003496 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084003497 adenylosuccinate lyase; Provisional; Region: PRK07380 269084003498 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 269084003499 tetramer interface [polypeptide binding]; other site 269084003500 active site 269084003501 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 269084003502 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 269084003503 putative Iron-sulfur protein interface [polypeptide binding]; other site 269084003504 proximal heme binding site [chemical binding]; other site 269084003505 putative dimer interface [polypeptide binding]; other site 269084003506 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003507 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003508 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003509 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 269084003510 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084003511 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK02534 269084003512 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 269084003513 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 269084003514 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 269084003515 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 269084003516 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084003517 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 269084003518 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 269084003519 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084003520 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 269084003521 Ion channel; Region: Ion_trans_2; cl11596 269084003522 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 269084003523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084003524 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269084003525 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 269084003526 putative active site [active] 269084003527 catalytic site [active] 269084003528 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 269084003529 putative active site [active] 269084003530 catalytic site [active] 269084003531 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 269084003532 dimer interface [polypeptide binding]; other site 269084003533 ssDNA binding site [nucleotide binding]; other site 269084003534 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269084003535 rod shape-determining protein MreB; Provisional; Region: PRK13927 269084003536 Cell division protein FtsA; Region: FtsA; cl11496 269084003537 rod shape-determining protein MreC; Region: MreC; pfam04085 269084003538 rod shape-determining protein MreD; Region: MreD; cl01087 269084003539 FtsH Extracellular; Region: FtsH_ext; pfam06480 269084003540 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269084003541 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 269084003542 Walker A motif; other site 269084003543 ATP binding site [chemical binding]; other site 269084003544 Walker B motif; other site 269084003545 arginine finger; other site 269084003546 Peptidase family M41; Region: Peptidase_M41; pfam01434 269084003547 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 269084003548 ATP-sulfurylase; Region: ATPS; cd00517 269084003549 active site 269084003550 HXXH motif; other site 269084003551 flexible loop; other site 269084003552 Manganese-stabilising protein / photosystem II polypeptide; Region: MSP; cl03326 269084003553 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 269084003554 Flavoprotein; Region: Flavoprotein; cl08021 269084003555 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 269084003556 Protein of unknown function (DUF2555); Region: DUF2555; pfam10742 269084003557 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 269084003558 quinone interaction residues [chemical binding]; other site 269084003559 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 269084003560 active site 269084003561 catalytic residues [active] 269084003562 FMN binding site [chemical binding]; other site 269084003563 substrate binding site [chemical binding]; other site 269084003564 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12902 269084003565 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003566 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 269084003567 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14360 269084003568 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 269084003569 Substrate binding site; other site 269084003570 Mg++ binding site; other site 269084003571 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 269084003572 active site 269084003573 substrate binding site [chemical binding]; other site 269084003574 CoA binding site [chemical binding]; other site 269084003575 Ion channel; Region: Ion_trans_2; cl11596 269084003576 Domain of unknown function (DUF1823); Region: DUF1823; pfam08853 269084003577 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 269084003578 Hexamer interface [polypeptide binding]; other site 269084003579 Hexagonal pore residue; other site 269084003580 Carbon dioxide concentrating mechanism (CcmK); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CcmK; cd07057 269084003581 Hexamer interface [polypeptide binding]; other site 269084003582 Hexagonal pore residue; other site 269084003583 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 269084003584 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269084003585 FMN binding site [chemical binding]; other site 269084003586 active site 269084003587 catalytic residues [active] 269084003588 substrate binding site [chemical binding]; other site 269084003589 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269084003590 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 269084003591 dimer interface [polypeptide binding]; other site 269084003592 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269084003593 active site 269084003594 folate binding site [chemical binding]; other site 269084003595 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 269084003596 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 269084003597 Mg++ binding site [ion binding]; other site 269084003598 putative catalytic motif [active] 269084003599 substrate binding site [chemical binding]; other site 269084003600 competence damage-inducible protein A; Provisional; Region: PRK00549 269084003601 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 269084003602 putative MPT binding site; other site 269084003603 Competence-damaged protein; Region: CinA; cl00666 269084003604 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269084003605 dimer interface [polypeptide binding]; other site 269084003606 [2Fe-2S] cluster binding site [ion binding]; other site 269084003607 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 269084003608 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 269084003609 SLBB domain; Region: SLBB; pfam10531 269084003610 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 269084003611 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 269084003612 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 269084003613 putative dimer interface [polypeptide binding]; other site 269084003614 [2Fe-2S] cluster binding site [ion binding]; other site 269084003615 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 269084003616 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 269084003617 nucleotide binding pocket [chemical binding]; other site 269084003618 K-X-D-G motif; other site 269084003619 catalytic site [active] 269084003620 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 269084003621 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 269084003622 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 269084003623 FAD binding domain; Region: FAD_binding_4; pfam01565 269084003624 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 269084003625 Protein of unknown function DUF86; Region: DUF86; cl01031 269084003626 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 269084003627 active site 269084003628 NTP binding site [chemical binding]; other site 269084003629 metal binding triad [ion binding]; metal-binding site 269084003630 antibiotic binding site [chemical binding]; other site 269084003631 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 269084003632 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 269084003633 CoA-binding site [chemical binding]; other site 269084003634 ATP-binding [chemical binding]; other site 269084003635 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 269084003636 active site 269084003637 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 269084003638 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 269084003639 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 269084003640 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 269084003641 putative metal binding site; other site 269084003642 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 269084003643 binding surface 269084003644 TPR motif; other site 269084003645 hydrolase, alpha/beta fold family protein; Region: PLN02824 269084003646 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084003647 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084003648 MEKHLA domain; Region: MEKHLA; pfam08670 269084003649 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 269084003650 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 269084003651 S-adenosylmethionine binding site [chemical binding]; other site 269084003652 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 269084003653 HSP70 interaction site [polypeptide binding]; other site 269084003654 Protein of unknown function (DUF3143); Region: DUF3143; pfam11341 269084003655 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 269084003656 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 269084003657 catalytic residue [active] 269084003658 putative FPP diphosphate binding site; other site 269084003659 putative FPP binding hydrophobic cleft; other site 269084003660 dimer interface [polypeptide binding]; other site 269084003661 putative IPP diphosphate binding site; other site 269084003662 TIGR00159 family protein; Region: TIGR00159 269084003663 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 269084003664 diaminopimelate decarboxylase; Region: lysA; TIGR01048 269084003665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 269084003666 active site 269084003667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269084003668 substrate binding site [chemical binding]; other site 269084003669 catalytic residues [active] 269084003670 dimer interface [polypeptide binding]; other site 269084003671 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 269084003672 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084003673 Clp protease ATP binding subunit; Region: clpC; CHL00095 269084003674 Clp amino terminal domain; Region: Clp_N; pfam02861 269084003675 Clp amino terminal domain; Region: Clp_N; pfam02861 269084003676 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 269084003677 Walker A motif; other site 269084003678 ATP binding site [chemical binding]; other site 269084003679 Walker B motif; other site 269084003680 arginine finger; other site 269084003681 UvrB/uvrC motif; Region: UVR; pfam02151 269084003682 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 269084003683 Walker A motif; other site 269084003684 ATP binding site [chemical binding]; other site 269084003685 Walker B motif; other site 269084003686 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269084003687 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084003688 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269084003689 active site 269084003690 metal binding site [ion binding]; metal-binding site 269084003691 Integral membrane protein DUF92; Region: DUF92; cl00793 269084003692 amidohydrolase; Region: amidohydrolases; TIGR01891 269084003693 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 269084003694 metal binding site [ion binding]; metal-binding site 269084003695 dimer interface [polypeptide binding]; other site 269084003696 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 269084003697 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 269084003698 Walker A motif; other site 269084003699 ATP binding site [chemical binding]; other site 269084003700 Walker B motif; other site 269084003701 DNA gyrase subunit A; Validated; Region: PRK05560 269084003702 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 269084003703 CAP-like domain; other site 269084003704 active site 269084003705 primary dimer interface [polypeptide binding]; other site 269084003706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269084003707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269084003708 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269084003709 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269084003710 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269084003711 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 269084003712 CP12 domain; Region: CP12; cl14670 269084003713 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 269084003714 active site 269084003715 substrate binding site [chemical binding]; other site 269084003716 catalytic site [active] 269084003717 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003718 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003719 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003720 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269084003721 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 269084003722 Walker A/P-loop; other site 269084003723 ATP binding site [chemical binding]; other site 269084003724 Q-loop/lid; other site 269084003725 ABC transporter signature motif; other site 269084003726 Walker B; other site 269084003727 D-loop; other site 269084003728 H-loop/switch region; other site 269084003729 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 269084003730 dimer interface [polypeptide binding]; other site 269084003731 conserved gate region; other site 269084003732 ABC-ATPase subunit interface; other site 269084003733 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 269084003734 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269084003735 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 269084003736 putative PBP binding loops; other site 269084003737 dimer interface [polypeptide binding]; other site 269084003738 ABC-ATPase subunit interface; other site 269084003739 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269084003740 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 269084003741 substrate binding pocket [chemical binding]; other site 269084003742 membrane-bound complex binding site; other site 269084003743 hinge residues; other site 269084003744 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 269084003745 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 269084003746 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 269084003747 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 269084003748 homodimer interface [polypeptide binding]; other site 269084003749 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 269084003750 active site pocket [active] 269084003751 light-harvesting-like protein 3; Provisional; Region: PLN00014 269084003752 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 269084003753 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269084003754 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269084003755 TRAM domain; Region: TRAM; cl01282 269084003756 23S rRNA (uracil-5-)-methyltransferase RumA; Region: rumA; TIGR00479 269084003757 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 269084003758 S-adenosylmethionine binding site [chemical binding]; other site 269084003759 Phycobilisome protein; Region: Phycobilisome; cl08227 269084003760 Cytochrome c; Region: Cytochrom_C; cl11414 269084003761 LysE type translocator; Region: LysE; cl00565 269084003762 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 269084003763 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 269084003764 ligand binding site [chemical binding]; other site 269084003765 flexible hinge region; other site 269084003766 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 269084003767 ligand binding site [chemical binding]; other site 269084003768 flexible hinge region; other site 269084003769 hydrolase, alpha/beta fold family protein; Region: PLN02824 269084003770 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 269084003771 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 269084003772 hinge; other site 269084003773 active site 269084003774 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084003775 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 269084003776 Protein of unknown function (DUF3146); Region: DUF3146; pfam11344 269084003777 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 269084003778 putative active site [active] 269084003779 catalytic residue [active] 269084003780 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 269084003781 Photosystem II 10 kDa phosphoprotein; Region: PsbH; cl02951 269084003782 Photosystem II reaction centre N protein (psbN); Region: PsbN; cl03605 269084003783 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269084003784 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 269084003785 putative NAD(P) binding site [chemical binding]; other site 269084003786 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 269084003787 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 269084003788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003789 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 269084003790 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269084003791 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 269084003792 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 269084003793 putative NAD(P) binding site [chemical binding]; other site 269084003794 Membrane transport protein; Region: Mem_trans; cl09117 269084003795 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 269084003796 Tetramer interface [polypeptide binding]; other site 269084003797 active site 269084003798 FMN-binding site [chemical binding]; other site 269084003799 cobyric acid synthase; Provisional; Region: PRK00784 269084003800 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003802 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 269084003803 catalytic triad [active] 269084003804 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 269084003805 active site 269084003806 dimer interface [polypeptide binding]; other site 269084003807 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 269084003808 binding surface 269084003809 TPR motif; other site 269084003810 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 269084003811 binding surface 269084003812 TPR motif; other site 269084003813 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 269084003814 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 269084003815 binding surface 269084003816 TPR motif; other site 269084003817 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 269084003818 binding surface 269084003819 TPR motif; other site 269084003820 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 269084003821 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 269084003822 active site 269084003823 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 269084003824 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain; Region: NMNAT_Nudix; cd02168 269084003825 active site 269084003826 (T/H)XGH motif; other site 269084003827 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 269084003828 nudix motif; other site 269084003829 Protein of unknown function (DUF3122); Region: DUF3122; pfam11320 269084003830 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 269084003831 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 269084003832 catalytic motif [active] 269084003833 Zn binding site [ion binding]; other site 269084003834 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 269084003835 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 269084003836 D-pathway; other site 269084003837 Putative water exit pathway; other site 269084003838 Binuclear center (active site) [active] 269084003839 K-pathway; other site 269084003840 Putative proton exit pathway; other site 269084003841 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 269084003842 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 269084003843 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 269084003844 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 269084003845 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269084003846 folate/biopterin transporter; Region: fbt; TIGR00788 269084003847 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 269084003848 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 269084003849 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003850 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003851 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084003852 DNA polymerase I; Provisional; Region: PRK05755 269084003853 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 269084003854 active site 269084003855 metal binding site 1 [ion binding]; metal-binding site 269084003856 putative 5' ssDNA interaction site; other site 269084003857 metal binding site 3; metal-binding site 269084003858 metal binding site 2 [ion binding]; metal-binding site 269084003859 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 269084003860 putative DNA binding site [nucleotide binding]; other site 269084003861 putative metal binding site [ion binding]; other site 269084003862 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 269084003863 active site 269084003864 catalytic site [active] 269084003865 substrate binding site [chemical binding]; other site 269084003866 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 269084003867 active site 269084003868 DNA binding site [nucleotide binding] 269084003869 catalytic site [active] 269084003870 Chloroplast import component protein (Tic20); Region: Tic20; cl09892 269084003871 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269084003872 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 269084003873 homodimer interface [polypeptide binding]; other site 269084003874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084003875 catalytic residue [active] 269084003876 CbiD; Region: CbiD; cl00828 269084003877 GMP synthase; Reviewed; Region: guaA; PRK00074 269084003878 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 269084003879 AMP/PPi binding site [chemical binding]; other site 269084003880 candidate oxyanion hole; other site 269084003881 catalytic triad [active] 269084003882 potential glutamine specificity residues [chemical binding]; other site 269084003883 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 269084003884 ATP Binding subdomain [chemical binding]; other site 269084003885 Ligand Binding sites [chemical binding]; other site 269084003886 Dimerization subdomain; other site 269084003887 PAS domain S-box; Region: sensory_box; TIGR00229 269084003888 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 269084003889 putative active site [active] 269084003890 heme pocket [chemical binding]; other site 269084003891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084003892 metal binding site [ion binding]; metal-binding site 269084003893 active site 269084003894 I-site; other site 269084003895 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 269084003896 Domain of unknown function DUF21; Region: DUF21; pfam01595 269084003897 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 269084003898 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269084003899 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 269084003900 Phosphate transporter family; Region: PHO4; cl00396 269084003901 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 269084003902 S-adenosylmethionine binding site [chemical binding]; other site 269084003903 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 269084003904 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003905 ABC transporter signature motif; other site 269084003906 Walker B; other site 269084003907 D-loop; other site 269084003908 H-loop/switch region; other site 269084003909 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 269084003910 dimer interface [polypeptide binding]; other site 269084003911 putative tRNA-binding site [nucleotide binding]; other site 269084003912 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 269084003913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084003914 Walker A/P-loop; other site 269084003915 ATP binding site [chemical binding]; other site 269084003916 Q-loop/lid; other site 269084003917 ABC transporter signature motif; other site 269084003918 Walker B; other site 269084003919 D-loop; other site 269084003920 H-loop/switch region; other site 269084003921 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 269084003922 Protein of unknown function (DUF990); Region: DUF990; cl01496 269084003923 Predicted methyltransferases [General function prediction only]; Region: COG0313 269084003924 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084003925 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 269084003926 active site 269084003927 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 269084003928 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 269084003929 dimer interface [polypeptide binding]; other site 269084003930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084003931 catalytic residue [active] 269084003932 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 269084003933 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 269084003934 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269084003935 L-asparaginase II; Region: Asparaginase_II; cl01842 269084003936 Protein of unknown function (DUF1230); Region: DUF1230; pfam06799 269084003937 Domain of unknown function DUF143; Region: DUF143; cl00519 269084003938 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084003939 CpeS-like protein; Region: CpeS; pfam09367 269084003940 GTPase Era; Reviewed; Region: era; PRK00089 269084003941 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 269084003942 G1 box; other site 269084003943 GTP/Mg2+ binding site [chemical binding]; other site 269084003944 Switch I region; other site 269084003945 G2 box; other site 269084003946 Switch II region; other site 269084003947 G3 box; other site 269084003948 G4 box; other site 269084003949 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 269084003950 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 269084003951 MPN+ (JAMM) motif; other site 269084003952 Zinc-binding site [ion binding]; other site 269084003953 hypothetical protein; Validated; Region: PRK07411 269084003954 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 269084003955 ATP binding site [chemical binding]; other site 269084003956 substrate interface [chemical binding]; other site 269084003957 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 269084003958 active site residue [active] 269084003959 phosphoglucomutase; Region: PLN02307 269084003960 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 269084003961 substrate binding site [chemical binding]; other site 269084003962 dimer interface [polypeptide binding]; other site 269084003963 active site 269084003964 metal binding site [ion binding]; metal-binding site 269084003965 PAP_fibrillin; Region: PAP_fibrillin; pfam04755 269084003966 Protein of unknown function (DUF3134); Region: DUF3134; pfam11332 269084003967 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 269084003968 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 269084003969 Mg++ binding site [ion binding]; other site 269084003970 putative catalytic motif [active] 269084003971 putative substrate binding site [chemical binding]; other site 269084003972 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084003973 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084003974 active site 269084003975 phosphorylation site [posttranslational modification] 269084003976 intermolecular recognition site; other site 269084003977 Response regulator receiver domain; Region: Response_reg; pfam00072 269084003978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084003979 active site 269084003980 phosphorylation site [posttranslational modification] 269084003981 intermolecular recognition site; other site 269084003982 dimerization interface [polypeptide binding]; other site 269084003983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084003984 active site 269084003985 I-site; other site 269084003986 metal binding site [ion binding]; metal-binding site 269084003987 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 269084003988 Putative Catalytic site; other site 269084003989 DXD motif; other site 269084003990 GtrA-like protein; Region: GtrA; cl00971 269084003991 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 269084003992 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 269084003993 active site 269084003994 DNA binding site [nucleotide binding] 269084003995 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 269084003996 Predicted kinase [General function prediction only]; Region: COG0645 269084003997 Protein of unknown function (DUF3082); Region: DUF3082; pfam11282 269084003998 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 269084003999 pyruvate dehydrogenase E1 component beta subunit; Validated; Region: odpB; CHL00144 269084004000 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 269084004001 alpha subunit interface [polypeptide binding]; other site 269084004002 TPP binding site [chemical binding]; other site 269084004003 heterodimer interface [polypeptide binding]; other site 269084004004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269084004005 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 269084004006 Protein export membrane protein; Region: SecD_SecF; cl14618 269084004007 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 269084004008 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 269084004009 Protein export membrane protein; Region: SecD_SecF; cl14618 269084004010 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK07418 269084004011 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269084004012 PYR/PP interface [polypeptide binding]; other site 269084004013 dimer interface [polypeptide binding]; other site 269084004014 TPP binding site [chemical binding]; other site 269084004015 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 269084004016 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 269084004017 TPP-binding site [chemical binding]; other site 269084004018 dimer interface [polypeptide binding]; other site 269084004019 Peptidase family M23; Region: Peptidase_M23; pfam01551 269084004020 ferrochelatase; Reviewed; Region: hemH; PRK00035 269084004021 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 269084004022 active site 269084004023 C-terminal domain interface [polypeptide binding]; other site 269084004024 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 269084004025 active site 269084004026 N-terminal domain interface [polypeptide binding]; other site 269084004027 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 269084004028 Phage integrase family; Region: Phage_integrase; pfam00589 269084004029 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269084004030 DNA binding site [nucleotide binding] 269084004031 Int/Topo IB signature motif; other site 269084004032 active site 269084004033 catalytic residues [active] 269084004034 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269084004035 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 269084004036 S-adenosylmethionine binding site [chemical binding]; other site 269084004037 O-Antigen ligase; Region: Wzy_C; cl04850 269084004038 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 269084004039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004040 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 269084004041 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 269084004042 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 269084004043 ligand binding site [chemical binding]; other site 269084004044 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 269084004045 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 269084004046 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 269084004047 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 269084004048 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 269084004049 ligand binding site [chemical binding]; other site 269084004050 flexible hinge region; other site 269084004051 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 269084004052 putative switch regulator; other site 269084004053 non-specific DNA interactions [nucleotide binding]; other site 269084004054 DNA binding site [nucleotide binding] 269084004055 sequence specific DNA binding site [nucleotide binding]; other site 269084004056 putative cAMP binding site [chemical binding]; other site 269084004057 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 269084004058 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 269084004059 NAD binding site [chemical binding]; other site 269084004060 homotetramer interface [polypeptide binding]; other site 269084004061 homodimer interface [polypeptide binding]; other site 269084004062 substrate binding site [chemical binding]; other site 269084004063 active site 269084004064 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 269084004065 putative active site pocket [active] 269084004066 4-fold oligomerization interface [polypeptide binding]; other site 269084004067 metal binding residues [ion binding]; metal-binding site 269084004068 3-fold/trimer interface [polypeptide binding]; other site 269084004069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004070 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 269084004071 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 269084004072 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 269084004073 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 269084004074 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 269084004075 nucleoside/Zn binding site; other site 269084004076 dimer interface [polypeptide binding]; other site 269084004077 catalytic motif [active] 269084004078 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 269084004079 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 269084004080 GatB domain; Region: GatB_Yqey; cl11497 269084004081 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269084004082 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 269084004083 putative substrate binding site [chemical binding]; other site 269084004084 putative ATP binding site [chemical binding]; other site 269084004085 Cupin domain; Region: Cupin_2; cl09118 269084004086 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 269084004087 DNA photolyase; Region: DNA_photolyase; pfam00875 269084004088 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 269084004089 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 269084004090 Helix-turn-helix domains; Region: HTH; cl00088 269084004091 Ferritin-like domain; Region: Ferritin; pfam00210 269084004092 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 269084004093 dimerization interface [polypeptide binding]; other site 269084004094 DPS ferroxidase diiron center [ion binding]; other site 269084004095 ion pore; other site 269084004096 ParB-like nuclease domain; Region: ParBc; cl02129 269084004097 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 269084004098 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 269084004099 G1 box; other site 269084004100 GTP/Mg2+ binding site [chemical binding]; other site 269084004101 Switch I region; other site 269084004102 G2 box; other site 269084004103 Switch II region; other site 269084004104 G3 box; other site 269084004105 G4 box; other site 269084004106 G5 box; other site 269084004107 Domain of unknown function (DUF697); Region: DUF697; cl12064 269084004108 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 269084004109 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 269084004110 active site 269084004111 (T/H)XGH motif; other site 269084004112 NAD synthetase; Provisional; Region: PRK13981 269084004113 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 269084004114 multimer interface [polypeptide binding]; other site 269084004115 active site 269084004116 catalytic triad [active] 269084004117 protein interface 1 [polypeptide binding]; other site 269084004118 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 269084004119 homodimer interface [polypeptide binding]; other site 269084004120 NAD binding pocket [chemical binding]; other site 269084004121 ATP binding pocket [chemical binding]; other site 269084004122 Mg binding site [ion binding]; other site 269084004123 active-site loop [active] 269084004124 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269084004125 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 269084004126 putative active site [active] 269084004127 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269084004128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004130 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 269084004131 pyruvate kinase; Provisional; Region: PRK06354 269084004132 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 269084004133 domain interfaces; other site 269084004134 active site 269084004135 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 269084004136 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 269084004137 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269084004138 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269084004139 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 269084004140 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084004141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084004142 active site 269084004143 phosphorylation site [posttranslational modification] 269084004144 intermolecular recognition site; other site 269084004145 dimerization interface [polypeptide binding]; other site 269084004146 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 269084004147 DNA binding site [nucleotide binding] 269084004148 DNA polymerase III subunit delta'; Validated; Region: PRK07399 269084004149 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004150 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 269084004151 TMP-binding site; other site 269084004152 ATP-binding site [chemical binding]; other site 269084004153 UTRA domain; Region: UTRA; cl01230 269084004154 Predicted transcriptional regulators [Transcription]; Region: COG1725 269084004155 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269084004156 DNA-binding site [nucleotide binding]; DNA binding site 269084004157 Dienelactone hydrolase family; Region: DLH; pfam01738 269084004158 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084004159 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084004160 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 269084004161 active site 269084004162 putative substrate binding region [chemical binding]; other site 269084004163 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 269084004164 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 269084004165 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 269084004166 active site 269084004167 catalytic site [active] 269084004168 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269084004169 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 269084004170 motif II; other site 269084004171 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 269084004172 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084004173 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269084004174 Walker A/P-loop; other site 269084004175 ATP binding site [chemical binding]; other site 269084004176 Q-loop/lid; other site 269084004177 ABC transporter signature motif; other site 269084004178 Walker B; other site 269084004179 D-loop; other site 269084004180 H-loop/switch region; other site 269084004181 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 269084004182 RNA binding surface [nucleotide binding]; other site 269084004183 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 269084004184 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269084004185 FtsX-like permease family; Region: FtsX; pfam02687 269084004186 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 269084004187 dimer interface [polypeptide binding]; other site 269084004188 ssDNA binding site [nucleotide binding]; other site 269084004189 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269084004190 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 269084004191 Helix-turn-helix domains; Region: HTH; cl00088 269084004192 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 269084004193 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269084004194 substrate binding pocket [chemical binding]; other site 269084004195 membrane-bound complex binding site; other site 269084004196 hinge residues; other site 269084004197 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 269084004198 proline aminopeptidase P II; Provisional; Region: PRK10879 269084004199 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 269084004200 active site 269084004201 LytB protein; Region: LYTB; cl00507 269084004202 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 269084004203 Protein of unknown function (DUF1997); Region: DUF1997; pfam09366 269084004204 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 269084004205 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 269084004206 inhibitor-cofactor binding pocket; inhibition site 269084004207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084004208 catalytic residue [active] 269084004209 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 269084004210 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269084004211 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269084004212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004213 Walker A/P-loop; other site 269084004214 ATP binding site [chemical binding]; other site 269084004215 Q-loop/lid; other site 269084004216 ABC transporter signature motif; other site 269084004217 Walker B; other site 269084004218 D-loop; other site 269084004219 H-loop/switch region; other site 269084004220 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; cl15400 269084004221 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 269084004222 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 269084004223 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 269084004224 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 269084004225 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269084004226 active site 269084004227 catalytic residues [active] 269084004228 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 269084004229 substrate binding site; other site 269084004230 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 269084004231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004232 NAD(P) binding site [chemical binding]; other site 269084004233 active site 269084004234 Cupin domain; Region: Cupin_2; cl09118 269084004235 Hypothetical methyltransferase; Region: Methyltransf_13; pfam08421 269084004236 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004237 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 269084004238 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 269084004239 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 269084004240 inhibitor-cofactor binding pocket; inhibition site 269084004241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084004242 catalytic residue [active] 269084004243 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004244 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269084004245 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 269084004246 active site 269084004247 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004248 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 269084004249 binding surface 269084004250 TPR motif; other site 269084004251 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 269084004252 binding surface 269084004253 TPR motif; other site 269084004254 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 269084004255 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 269084004256 active site 269084004257 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 269084004258 similar to a part of pilin polypeptide PilA 269084004259 similar to a part of pilin polypeptide PilA 269084004260 Exostosin family; Region: Exostosin; pfam03016 269084004261 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 269084004262 binding surface 269084004263 TPR motif; other site 269084004264 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 269084004265 binding surface 269084004266 TPR motif; other site 269084004267 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 269084004268 3' terminal RNA ribose 2'-O-methyltransferase Hen1; Region: bacter_Hen1; TIGR04074 269084004269 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 269084004270 S-adenosylmethionine binding site [chemical binding]; other site 269084004271 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 269084004272 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 269084004273 TPR motif; other site 269084004274 binding surface 269084004275 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269084004276 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 269084004277 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 269084004278 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 269084004279 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 269084004280 transmembrane helices; other site 269084004281 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 269084004282 homooctamer interface [polypeptide binding]; other site 269084004283 active site 269084004284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004285 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 269084004286 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 269084004287 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_23; cd04682 269084004288 nudix motif; other site 269084004289 Ferritin-like domain; Region: Ferritin; pfam00210 269084004290 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 269084004291 active site 269084004292 NTP binding site [chemical binding]; other site 269084004293 metal binding triad [ion binding]; metal-binding site 269084004294 antibiotic binding site [chemical binding]; other site 269084004295 Protein of unknown function DUF86; Region: DUF86; cl01031 269084004296 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 269084004297 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 269084004298 inhibitor-cofactor binding pocket; inhibition site 269084004299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084004300 catalytic residue [active] 269084004301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004302 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 269084004303 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 269084004304 S-adenosylmethionine binding site [chemical binding]; other site 269084004305 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084004306 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 269084004307 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 269084004308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084004309 catalytic residue [active] 269084004310 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 269084004311 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 269084004312 active site 269084004313 catalytic tetrad [active] 269084004314 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084004315 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 269084004316 isoform II; Region: PAF-AH_p_II; pfam03403 269084004317 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 269084004318 calcium/proton exchanger (cax); Region: cax; TIGR00378 269084004319 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269084004320 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269084004321 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 269084004322 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084004323 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 269084004324 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 269084004325 SprT homologues; Region: SprT; cl01182 269084004326 ferredoxin-sulfite reductase; Region: sir; TIGR02042 269084004327 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084004328 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084004329 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 269084004330 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 269084004331 active site 269084004332 intersubunit interface [polypeptide binding]; other site 269084004333 catalytic residue [active] 269084004334 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 269084004335 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 269084004336 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 269084004337 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269084004338 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 269084004339 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 269084004340 ANP binding site [chemical binding]; other site 269084004341 Substrate Binding Site II [chemical binding]; other site 269084004342 Substrate Binding Site I [chemical binding]; other site 269084004343 YtxH-like protein; Region: YtxH; cl02079 269084004344 Permease family; Region: Xan_ur_permease; cl00967 269084004345 amidophosphoribosyltransferase; Provisional; Region: PRK07349 269084004346 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 269084004347 active site 269084004348 tetramer interface [polypeptide binding]; other site 269084004349 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269084004350 active site 269084004351 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 269084004352 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 269084004353 dimerization interface [polypeptide binding]; other site 269084004354 ATP binding site [chemical binding]; other site 269084004355 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 269084004356 dimerization interface [polypeptide binding]; other site 269084004357 ATP binding site [chemical binding]; other site 269084004358 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 269084004359 DNA polymerase III subunit beta; Validated; Region: PRK05643 269084004360 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 269084004361 putative DNA binding surface [nucleotide binding]; other site 269084004362 dimer interface [polypeptide binding]; other site 269084004363 beta-clamp/clamp loader binding surface; other site 269084004364 beta-clamp/translesion DNA polymerase binding surface; other site 269084004365 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269084004366 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 269084004367 motif II; other site 269084004368 threonine synthase; Reviewed; Region: PRK06721 269084004369 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 269084004370 homodimer interface [polypeptide binding]; other site 269084004371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084004372 catalytic residue [active] 269084004373 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 269084004374 putative active site [active] 269084004375 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084004376 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084004377 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 269084004378 putative phosphate binding site [ion binding]; other site 269084004379 putative catalytic site [active] 269084004380 active site 269084004381 metal binding site A [ion binding]; metal-binding site 269084004382 DNA binding site [nucleotide binding] 269084004383 putative AP binding site [nucleotide binding]; other site 269084004384 putative metal binding site B [ion binding]; other site 269084004385 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 269084004386 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 269084004387 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 269084004388 active site 269084004389 dimer interface [polypeptide binding]; other site 269084004390 motif 1; other site 269084004391 motif 2; other site 269084004392 motif 3; other site 269084004393 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 269084004394 anticodon binding site; other site 269084004395 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 269084004396 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 269084004397 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 269084004398 Subunit I/III interface [polypeptide binding]; other site 269084004399 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 269084004400 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 269084004401 D-pathway; other site 269084004402 Putative ubiquinol binding site [chemical binding]; other site 269084004403 Low-spin heme (heme b) binding site [chemical binding]; other site 269084004404 Putative water exit pathway; other site 269084004405 Binuclear center (heme o3/CuB) [ion binding]; other site 269084004406 K-pathway; other site 269084004407 Putative proton exit pathway; other site 269084004408 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 269084004409 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 269084004410 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269084004411 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 269084004412 UbiA prenyltransferase family; Region: UbiA; cl00337 269084004413 Macrophage migration inhibitory factor (MIF); Region: MIF; pfam01187 269084004414 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 269084004415 putative active site [active] 269084004416 putative metal binding residues [ion binding]; other site 269084004417 signature motif; other site 269084004418 putative dimer interface [polypeptide binding]; other site 269084004419 putative phosphate binding site [ion binding]; other site 269084004420 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269084004421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004422 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 269084004423 Domain of unknown function DUF21; Region: DUF21; pfam01595 269084004424 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 269084004425 Transporter associated domain; Region: CorC_HlyC; cl08393 269084004426 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084004427 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 269084004428 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 269084004429 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 269084004430 Protein of unknown function (DUF3916); Region: DUF3916; pfam13079 269084004431 Domain of unknown function DUF; Region: DUF202; cl09954 269084004432 Rrf2 family protein; Region: rrf2_super; TIGR00738 269084004433 Helix-turn-helix domains; Region: HTH; cl00088 269084004434 short chain dehydrogenase; Provisional; Region: PRK06924 269084004435 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 269084004436 NADP binding site [chemical binding]; other site 269084004437 homodimer interface [polypeptide binding]; other site 269084004438 active site 269084004439 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 269084004440 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 269084004441 active site 269084004442 dimerization interface [polypeptide binding]; other site 269084004443 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 269084004444 catalytic loop [active] 269084004445 iron binding site [ion binding]; other site 269084004446 molecular chaperone DnaK; Provisional; Region: PRK13410 269084004447 chaperone protein DnaJ; Provisional; Region: PRK14299 269084004448 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 269084004449 HSP70 interaction site [polypeptide binding]; other site 269084004450 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 269084004451 substrate binding site [polypeptide binding]; other site 269084004452 dimer interface [polypeptide binding]; other site 269084004453 Protein of unknown function (DUF3110); Region: DUF3110; pfam11360 269084004454 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 269084004455 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 269084004456 putative active site [active] 269084004457 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 269084004458 active site 269084004459 putative substrate binding region [chemical binding]; other site 269084004460 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 269084004461 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 269084004462 intersubunit interface [polypeptide binding]; other site 269084004463 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 269084004464 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 269084004465 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269084004466 ABC-ATPase subunit interface; other site 269084004467 dimer interface [polypeptide binding]; other site 269084004468 putative PBP binding regions; other site 269084004469 Domain of unknown function (DUF1825); Region: DUF1825; pfam08855 269084004470 Transglycosylase; Region: Transgly; cl07896 269084004471 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269084004472 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084004473 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 269084004474 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 269084004475 active site 269084004476 HIGH motif; other site 269084004477 dimer interface [polypeptide binding]; other site 269084004478 KMSKS motif; other site 269084004479 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 269084004480 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 269084004481 active site 269084004482 dimer interface [polypeptide binding]; other site 269084004483 thiamine-monophosphate kinase; Region: thiL; TIGR01379 269084004484 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 269084004485 ATP binding site [chemical binding]; other site 269084004486 dimerization interface [polypeptide binding]; other site 269084004487 cyclophilin_TLP40_like: cyclophilin-type peptidylprolyl cis- trans isomerases (cyclophilins) similar ot the Spinach thylakoid lumen protein TLP40. Compared to the archetypal cyclophilin Human cyclophilin A, these proteins have similar peptidylprolyl...; Region: cyclophilin_TLP40_like; cd01924 269084004488 active site 269084004489 elongation factor P; Validated; Region: PRK00529 269084004490 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 269084004491 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 269084004492 RNA binding site [nucleotide binding]; other site 269084004493 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 269084004494 RNA binding site [nucleotide binding]; other site 269084004495 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 269084004496 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 269084004497 carboxyltransferase (CT) interaction site; other site 269084004498 biotinylation site [posttranslational modification]; other site 269084004499 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 269084004500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004502 ABC transporter signature motif; other site 269084004503 Walker B; other site 269084004504 D-loop; other site 269084004505 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 269084004506 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 269084004507 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084004508 catalytic residue [active] 269084004509 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269084004510 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269084004511 Di-iron ligands [ion binding]; other site 269084004512 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269084004513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084004514 Coenzyme A binding pocket [chemical binding]; other site 269084004515 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 269084004516 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 269084004517 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 269084004518 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 269084004519 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 269084004520 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084004521 catalytic residue [active] 269084004522 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 269084004523 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 269084004524 catalytic loop [active] 269084004525 iron binding site [ion binding]; other site 269084004526 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 269084004527 4Fe-4S binding domain; Region: Fer4; cl02805 269084004528 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 269084004529 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269084004530 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 269084004531 nickel binding site [ion binding]; other site 269084004532 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; cl00418 269084004533 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 269084004534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004535 Acylphosphatase; Region: Acylphosphatase; cl00551 269084004536 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 269084004537 HypF finger; Region: zf-HYPF; pfam07503 269084004538 HypF finger; Region: zf-HYPF; pfam07503 269084004539 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 269084004540 HupF/HypC family; Region: HupF_HypC; cl00394 269084004541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004542 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 269084004543 substrate binding site [chemical binding]; other site 269084004544 SGNH_hydrolase, or GDSL_hydrolase, is 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; cl01053 269084004545 active site 269084004546 catalytic triad [active] 269084004547 oxyanion hole [active] 269084004548 aspartate aminotransferase; Provisional; Region: PRK05764 269084004549 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 269084004550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084004551 homodimer interface [polypeptide binding]; other site 269084004552 catalytic residue [active] 269084004553 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269084004554 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269084004555 active site 269084004556 metal binding site [ion binding]; metal-binding site 269084004557 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 269084004558 Fe-S cluster binding site [ion binding]; other site 269084004559 active site 269084004560 Cytochrome c; Region: Cytochrom_C; cl11414 269084004561 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 269084004562 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 269084004563 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269084004564 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269084004565 oligomer interface [polypeptide binding]; other site 269084004566 active site residues [active] 269084004567 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269084004568 oligomer interface [polypeptide binding]; other site 269084004569 active site residues [active] 269084004570 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 269084004571 HSP70 interaction site [polypeptide binding]; other site 269084004572 putative diguanylate cyclase; Provisional; Region: PRK09776 269084004573 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 269084004574 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 269084004575 putative active site [active] 269084004576 heme pocket [chemical binding]; other site 269084004577 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 269084004578 putative active site [active] 269084004579 heme pocket [chemical binding]; other site 269084004580 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084004581 GAF domain; Region: GAF; cl00853 269084004582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084004583 metal binding site [ion binding]; metal-binding site 269084004584 active site 269084004585 I-site; other site 269084004586 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084004587 GAF domain; Region: GAF; cl00853 269084004588 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084004589 metal binding site [ion binding]; metal-binding site 269084004590 active site 269084004591 I-site; other site 269084004592 hydrolase; Region: PLN02578 269084004593 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084004594 elongation factor Ts; Reviewed; Region: tsf; PRK12332 269084004595 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 269084004596 Elongation factor TS; Region: EF_TS; pfam00889 269084004597 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 269084004598 rRNA interaction site [nucleotide binding]; other site 269084004599 S8 interaction site; other site 269084004600 putative laminin-1 binding site; other site 269084004601 NC domain; Region: NC; pfam04970 269084004602 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084004603 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 269084004604 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 269084004605 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 269084004606 Walker A motif; other site 269084004607 ATP binding site [chemical binding]; other site 269084004608 Walker B motif; other site 269084004609 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269084004610 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269084004611 oligomer interface [polypeptide binding]; other site 269084004612 active site residues [active] 269084004613 trigger factor; Provisional; Region: tig; PRK01490 269084004614 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269084004615 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 269084004616 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14619 269084004617 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004618 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 269084004619 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 269084004620 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 269084004621 putative active site [active] 269084004622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004623 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269084004624 MASE1; Region: MASE1; pfam05231 269084004625 PAS fold; Region: PAS_4; pfam08448 269084004626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084004627 metal binding site [ion binding]; metal-binding site 269084004628 active site 269084004629 I-site; other site 269084004630 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 269084004631 glycogen synthase; Provisional; Region: glgA; PRK00654 269084004632 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 269084004633 ADP-binding pocket [chemical binding]; other site 269084004634 homodimer interface [polypeptide binding]; other site 269084004635 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269084004636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004637 ornithine carbamoyltransferase; Provisional; Region: PRK00779 269084004638 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269084004639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004640 BtpA family; Region: BtpA; cl00440 269084004641 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 269084004642 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269084004643 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 269084004644 FeS/SAM binding site; other site 269084004645 TRAM domain; Region: TRAM; cl01282 269084004646 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 269084004647 putative hydrophobic ligand binding site [chemical binding]; other site 269084004648 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 269084004649 rRNA binding site [nucleotide binding]; other site 269084004650 predicted 30S ribosome binding site; other site 269084004651 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 269084004652 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 269084004653 motif II; other site 269084004654 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269084004655 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269084004656 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 269084004657 Active Sites [active] 269084004658 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004659 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 269084004660 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 269084004661 S-adenosylmethionine binding site [chemical binding]; other site 269084004662 light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs; Region: LPOR_like_SDR_c_like; cd09810 269084004663 short chain dehydrogenase; Provisional; Region: PRK06197 269084004664 putative NAD(P) binding site [chemical binding]; other site 269084004665 active site 269084004666 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 269084004667 NeuB family; Region: NeuB; cl00496 269084004668 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269084004669 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 269084004670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 269084004671 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 269084004672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 269084004673 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 269084004674 active site 269084004675 multimer interface [polypeptide binding]; other site 269084004676 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269084004677 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_13; cd06348 269084004678 putative ligand binding site [chemical binding]; other site 269084004679 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 269084004680 TM-ABC transporter signature motif; other site 269084004681 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 269084004682 TM-ABC transporter signature motif; other site 269084004683 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269084004684 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269084004685 Walker A/P-loop; other site 269084004686 ATP binding site [chemical binding]; other site 269084004687 Q-loop/lid; other site 269084004688 ABC transporter signature motif; other site 269084004689 Walker B; other site 269084004690 D-loop; other site 269084004691 H-loop/switch region; other site 269084004692 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269084004693 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 269084004694 Walker A/P-loop; other site 269084004695 ATP binding site [chemical binding]; other site 269084004696 Q-loop/lid; other site 269084004697 ABC transporter signature motif; other site 269084004698 Walker B; other site 269084004699 D-loop; other site 269084004700 H-loop/switch region; other site 269084004701 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 269084004702 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 269084004703 Mg2+ binding site [ion binding]; other site 269084004704 G-X-G motif; other site 269084004705 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 269084004706 anchoring element; other site 269084004707 dimer interface [polypeptide binding]; other site 269084004708 ATP binding site [chemical binding]; other site 269084004709 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 269084004710 active site 269084004711 putative metal-binding site [ion binding]; other site 269084004712 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269084004713 IPP transferase; Region: IPPT; cl00403 269084004714 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 269084004715 Domain of unknown function DUF29; Region: DUF29; pfam01724 269084004716 Cyanobacterial and plant NDH-1 subunit O; Region: NdhO; pfam11910 269084004717 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 269084004718 Psb28 protein; Region: Psb28; cl04326 269084004719 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 269084004720 TIGR01777 family protein; Region: yfcH 269084004721 putative NAD(P) binding site [chemical binding]; other site 269084004722 putative active site [active] 269084004723 argininosuccinate lyase; Provisional; Region: PRK00855 269084004724 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 269084004725 active sites [active] 269084004726 tetramer interface [polypeptide binding]; other site 269084004727 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084004728 GAF domain; Region: GAF; cl00853 269084004729 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 269084004730 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 269084004731 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 269084004732 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 269084004733 P loop; other site 269084004734 GTP binding site [chemical binding]; other site 269084004735 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 269084004736 Protein of unknown function (DUF502); Region: DUF502; cl01107 269084004737 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 269084004738 StbA protein; Region: StbA; pfam06406 269084004739 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 269084004740 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269084004741 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269084004742 shikimate binding site; other site 269084004743 NAD(P) binding site [chemical binding]; other site 269084004744 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 269084004745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084004746 active site 269084004747 phosphorylation site [posttranslational modification] 269084004748 intermolecular recognition site; other site 269084004749 dimerization interface [polypeptide binding]; other site 269084004750 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 269084004751 DNA binding site [nucleotide binding] 269084004752 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 269084004753 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 269084004754 putative active site cavity [active] 269084004755 S-adenosylmethionine synthetase; Validated; Region: PRK05250 269084004756 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 269084004757 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 269084004758 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 269084004759 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 269084004760 N- and C-terminal domain interface [polypeptide binding]; other site 269084004761 D-xylulose kinase; Region: XylB; TIGR01312 269084004762 active site 269084004763 MgATP binding site [chemical binding]; other site 269084004764 catalytic site [active] 269084004765 metal binding site [ion binding]; metal-binding site 269084004766 carbohydrate binding site [chemical binding]; other site 269084004767 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 269084004768 agmatine deiminase; Region: agmatine_aguA; TIGR03380 269084004769 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269084004770 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 269084004771 cofactor binding site; other site 269084004772 DNA binding site [nucleotide binding] 269084004773 substrate interaction site [chemical binding]; other site 269084004774 Helix-turn-helix domains; Region: HTH; cl00088 269084004775 Competence protein; Region: Competence; cl00471 269084004776 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 269084004777 dimer interface [polypeptide binding]; other site 269084004778 motif 1; other site 269084004779 active site 269084004780 motif 2; other site 269084004781 motif 3; other site 269084004782 Domain of unknown function (DUF4335); Region: DUF4335; pfam14233 269084004783 Protein of unknown function (DUF3038); Region: DUF3038; pfam11237 269084004784 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084004785 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 269084004786 dimer interface [polypeptide binding]; other site 269084004787 conserved gate region; other site 269084004788 putative PBP binding loops; other site 269084004789 ABC-ATPase subunit interface; other site 269084004790 Competence protein A; Region: Competence_A; pfam11104 269084004791 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 269084004792 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 269084004793 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 269084004794 Secretin and TonB N terminus short domain; Region: STN; cl06624 269084004795 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269084004796 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 269084004797 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269084004798 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269084004799 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 269084004800 dimer interface [polypeptide binding]; other site 269084004801 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269084004802 catalytic triad [active] 269084004803 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 269084004804 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 269084004805 G1 box; other site 269084004806 GTP/Mg2+ binding site [chemical binding]; other site 269084004807 Switch I region; other site 269084004808 G2 box; other site 269084004809 G3 box; other site 269084004810 Switch II region; other site 269084004811 G4 box; other site 269084004812 G5 box; other site 269084004813 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 269084004814 active site 269084004815 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084004816 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084004817 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 269084004818 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 269084004819 dimer interface [polypeptide binding]; other site 269084004820 conserved gate region; other site 269084004821 putative PBP binding loops; other site 269084004822 ABC-ATPase subunit interface; other site 269084004823 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 269084004824 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 269084004825 dimer interface [polypeptide binding]; other site 269084004826 conserved gate region; other site 269084004827 putative PBP binding loops; other site 269084004828 ABC-ATPase subunit interface; other site 269084004829 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 269084004830 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 269084004831 Walker A/P-loop; other site 269084004832 ATP binding site [chemical binding]; other site 269084004833 Q-loop/lid; other site 269084004834 ABC transporter signature motif; other site 269084004835 Walker B; other site 269084004836 D-loop; other site 269084004837 H-loop/switch region; other site 269084004838 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 269084004839 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 269084004840 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 269084004841 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 269084004842 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 269084004843 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 269084004844 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 269084004845 putative nucleic acid binding region [nucleotide binding]; other site 269084004846 G-X-X-G motif; other site 269084004847 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 269084004848 RNA binding site [nucleotide binding]; other site 269084004849 domain interface; other site 269084004850 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 269084004851 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 269084004852 putative di-iron ligands [ion binding]; other site 269084004853 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 269084004854 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 269084004855 HIGH motif; other site 269084004856 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 269084004857 active site 269084004858 KMSKS motif; other site 269084004859 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 269084004860 tRNA binding surface [nucleotide binding]; other site 269084004861 anticodon binding site; other site 269084004862 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269084004863 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 269084004864 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004865 acetohydroxyacid synthase small subunit; Region: ilvH; CHL00100 269084004866 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 269084004867 putative valine binding site [chemical binding]; other site 269084004868 dimer interface [polypeptide binding]; other site 269084004869 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 269084004870 hydrolase; Region: PLN02578 269084004871 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084004872 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 269084004873 putative active site [active] 269084004874 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TRM1; COG1867 269084004875 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084004876 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269084004877 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 269084004878 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 269084004879 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 269084004880 active site residue [active] 269084004881 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 269084004882 active site residue [active] 269084004883 PetM family of cytochrome b6f complex subunit 7; Region: PetM; cl15715 269084004884 Ycf39; Provisional; Region: ycf39; CHL00194 269084004885 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 269084004886 NAD(P) binding site [chemical binding]; other site 269084004887 putative active site [active] 269084004888 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 269084004889 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 269084004890 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 269084004891 Iron permease FTR1 family; Region: FTR1; cl00475 269084004892 serine O-acetyltransferase; Region: cysE; TIGR01172 269084004893 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 269084004894 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269084004895 trimer interface [polypeptide binding]; other site 269084004896 active site 269084004897 substrate binding site [chemical binding]; other site 269084004898 CoA binding site [chemical binding]; other site 269084004899 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 269084004900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269084004901 Helix-turn-helix domains; Region: HTH; cl00088 269084004902 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269084004903 dimerization interface [polypeptide binding]; other site 269084004904 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269084004905 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084004906 Ycf27; Reviewed; Region: orf27; CHL00148 269084004907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084004908 active site 269084004909 phosphorylation site [posttranslational modification] 269084004910 intermolecular recognition site; other site 269084004911 dimerization interface [polypeptide binding]; other site 269084004912 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 269084004913 DNA binding site [nucleotide binding] 269084004914 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 269084004915 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 269084004916 dimer interface [polypeptide binding]; other site 269084004917 putative anticodon binding site; other site 269084004918 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 269084004919 motif 1; other site 269084004920 active site 269084004921 motif 2; other site 269084004922 motif 3; other site 269084004923 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269084004924 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 269084004925 S-adenosylmethionine binding site [chemical binding]; other site 269084004926 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 269084004927 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 269084004928 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 269084004929 Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase...; Region: ADA_AMPD; cd00443 269084004930 active site 269084004931 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 269084004932 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 269084004933 GDP-binding site [chemical binding]; other site 269084004934 ACT binding site; other site 269084004935 IMP binding site; other site 269084004936 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_6; cd06154 269084004937 homotrimer interaction site [polypeptide binding]; other site 269084004938 putative active site [active] 269084004939 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 269084004940 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 269084004941 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269084004942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084004943 Domain of unknown function (DUF296); Region: DUF296; cl00720 269084004944 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 269084004945 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084004946 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 269084004947 agmatine deiminase; Region: agmatine_aguA; TIGR03380 269084004948 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 269084004949 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269084004950 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 269084004951 putative dimer interface [polypeptide binding]; other site 269084004952 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 269084004953 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 269084004954 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 269084004955 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 269084004956 Protein of unknown function (DUF3727); Region: DUF3727; pfam12527 269084004957 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 269084004958 active site 269084004959 motif I; other site 269084004960 motif II; other site 269084004961 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269084004962 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 269084004963 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269084004964 HIGH motif; other site 269084004965 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269084004966 active site 269084004967 KMSKS motif; other site 269084004968 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 269084004969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004970 Walker A/P-loop; other site 269084004971 ATP binding site [chemical binding]; other site 269084004972 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084004973 ABC transporter signature motif; other site 269084004974 Walker B; other site 269084004975 D-loop; other site 269084004976 H-loop/switch region; other site 269084004977 classical (c) SDRs; Region: SDR_c; cd05233 269084004978 NAD(P) binding site [chemical binding]; other site 269084004979 active site 269084004980 5-oxoprolinase; Region: PLN02666 269084004981 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 269084004982 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 269084004983 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 269084004984 HSP70 interaction site [polypeptide binding]; other site 269084004985 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 269084004986 Cupin domain; Region: Cupin_2; cl09118 269084004987 Cupin domain; Region: Cupin_2; cl09118 269084004988 Cytochrome c [Energy production and conversion]; Region: COG3258 269084004989 Cytochrome c; Region: Cytochrom_C; cl11414 269084004990 Hydrogenase formation hypA family; Region: HypD; cl12072 269084004991 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 269084004992 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 269084004993 Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_like; cd04739 269084004994 putative active site [active] 269084004995 putative FMN binding site [chemical binding]; other site 269084004996 putative substrate binding site [chemical binding]; other site 269084004997 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 269084004998 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 269084004999 dimer interface [polypeptide binding]; other site 269084005000 PYR/PP interface [polypeptide binding]; other site 269084005001 TPP binding site [chemical binding]; other site 269084005002 substrate binding site [chemical binding]; other site 269084005003 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 269084005004 Domain of unknown function; Region: EKR; cl11037 269084005005 4Fe-4S binding domain; Region: Fer4; cl02805 269084005006 4Fe-4S binding domain; Region: Fer4; cl02805 269084005007 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 269084005008 TPP-binding site [chemical binding]; other site 269084005009 dimer interface [polypeptide binding]; other site 269084005010 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 269084005011 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 269084005012 putative active site [active] 269084005013 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 269084005014 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 269084005015 FeS/SAM binding site; other site 269084005016 HemN C-terminal region; Region: HemN_C; pfam06969 269084005017 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 269084005018 oligomerization interface [polypeptide binding]; other site 269084005019 active site 269084005020 metal binding site [ion binding]; metal-binding site 269084005021 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 269084005022 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 269084005023 dimer interface [polypeptide binding]; other site 269084005024 substrate binding site [chemical binding]; other site 269084005025 ATP binding site [chemical binding]; other site 269084005026 cell division protein FtsZ; Region: ftsZ; TIGR00065 269084005027 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 269084005028 nucleotide binding site [chemical binding]; other site 269084005029 SulA interaction site; other site 269084005030 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 269084005031 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 269084005032 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 269084005033 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084005034 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14333 269084005035 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269084005036 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 269084005037 FeS/SAM binding site; other site 269084005038 TRAM domain; Region: TRAM; cl01282 269084005039 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 269084005040 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 269084005041 active site 269084005042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005043 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 269084005044 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK12461 269084005045 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 269084005046 active site 269084005047 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269084005048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269084005049 Domain of unknown function (DUF4359); Region: DUF4359; pfam14271 269084005050 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 269084005051 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 269084005052 G1 box; other site 269084005053 putative GEF interaction site [polypeptide binding]; other site 269084005054 GTP/Mg2+ binding site [chemical binding]; other site 269084005055 Switch I region; other site 269084005056 G2 box; other site 269084005057 G3 box; other site 269084005058 Switch II region; other site 269084005059 G4 box; other site 269084005060 G5 box; other site 269084005061 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 269084005062 Domain of unknown function (DUF1802); Region: DUF1802; cl01755 269084005063 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 269084005064 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269084005065 substrate binding pocket [chemical binding]; other site 269084005066 chain length determination region; other site 269084005067 substrate-Mg2+ binding site; other site 269084005068 catalytic residues [active] 269084005069 aspartate-rich region 1; other site 269084005070 active site lid residues [active] 269084005071 aspartate-rich region 2; other site 269084005072 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 269084005073 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 269084005074 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 269084005075 active site 269084005076 metal binding site [ion binding]; metal-binding site 269084005077 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084005078 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269084005079 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 269084005080 putative active site [active] 269084005081 catalytic triad [active] 269084005082 dimer interface [polypeptide binding]; other site 269084005083 Uncharacterised BCR, COG1649; Region: DUF187; cl15398 269084005084 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269084005085 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; cl00047 269084005086 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 269084005087 putative switch regulator; other site 269084005088 non-specific DNA interactions [nucleotide binding]; other site 269084005089 DNA binding site [nucleotide binding] 269084005090 sequence specific DNA binding site [nucleotide binding]; other site 269084005091 putative cAMP binding site [chemical binding]; other site 269084005092 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 269084005093 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 269084005094 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 269084005095 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 269084005096 30S subunit binding site; other site 269084005097 Protein of unknown function DUF111; Region: DUF111; cl03398 269084005098 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 269084005099 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 269084005100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005101 Walker A motif; other site 269084005102 ATP binding site [chemical binding]; other site 269084005103 Walker B motif; other site 269084005104 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 269084005105 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 269084005106 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 269084005107 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084005108 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 269084005109 Plastid and cyanobacterial ribosomal protein (PSRP-3 / Ycf65); Region: PSRP-3_Ycf65; cl04793 269084005110 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269084005111 HEAT repeats; Region: HEAT_2; pfam13646 269084005112 Photosystem I reaction centre subunit VIII; Region: PSI_8; cl08205 269084005113 Photosystem I reaction centre subunit XI; Region: PsaL; cl03651 269084005114 Cobalt transport protein; Region: CbiQ; cl00463 269084005115 GTP-binding protein Der; Reviewed; Region: PRK00093 269084005116 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 269084005117 G1 box; other site 269084005118 GTP/Mg2+ binding site [chemical binding]; other site 269084005119 Switch I region; other site 269084005120 G2 box; other site 269084005121 Switch II region; other site 269084005122 G3 box; other site 269084005123 G4 box; other site 269084005124 G5 box; other site 269084005125 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 269084005126 G1 box; other site 269084005127 GTP/Mg2+ binding site [chemical binding]; other site 269084005128 Switch I region; other site 269084005129 G2 box; other site 269084005130 G3 box; other site 269084005131 Switch II region; other site 269084005132 G4 box; other site 269084005133 G5 box; other site 269084005134 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269084005135 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 269084005136 putative ribose interaction site [chemical binding]; other site 269084005137 putative ADP binding site [chemical binding]; other site 269084005138 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 269084005139 amidase catalytic site [active] 269084005140 Zn binding residues [ion binding]; other site 269084005141 substrate binding site [chemical binding]; other site 269084005142 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 269084005143 metal binding site [ion binding]; metal-binding site 269084005144 active site 269084005145 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 269084005146 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 269084005147 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 269084005148 opcA protein; Region: OpcA; TIGR00534 269084005149 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 269084005150 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 269084005151 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 269084005152 interchain domain interface [polypeptide binding]; other site 269084005153 intrachain domain interface; other site 269084005154 Qi binding site; other site 269084005155 Qo binding site; other site 269084005156 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 269084005157 Qi binding site; other site 269084005158 intrachain domain interface; other site 269084005159 interchain domain interface [polypeptide binding]; other site 269084005160 heme bH binding site [chemical binding]; other site 269084005161 heme bL binding site [chemical binding]; other site 269084005162 Qo binding site; other site 269084005163 carboxyl-terminal processing protease; Provisional; Region: PLN00049 269084005164 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269084005165 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 269084005166 protein binding site [polypeptide binding]; other site 269084005167 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 269084005168 Catalytic dyad [active] 269084005169 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 269084005170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 269084005171 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 269084005172 binding surface 269084005173 TPR motif; other site 269084005174 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 269084005175 binding surface 269084005176 TPR motif; other site 269084005177 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 269084005178 binding surface 269084005179 TPR motif; other site 269084005180 Phosphate-starvation-inducible E; Region: PsiE; cl01264 269084005181 Protein of unknown function (DUF541); Region: SIMPL; cl01077 269084005182 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 269084005183 glutathione synthetase; Provisional; Region: PRK05246 269084005184 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 269084005185 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 269084005186 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 269084005187 GSH binding site [chemical binding]; other site 269084005188 catalytic residues [active] 269084005189 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 269084005190 photosystem I assembly protein Ycf3; Provisional; Region: PRK02603 269084005191 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 269084005192 binding surface 269084005193 TPR motif; other site 269084005194 Protein of unknown function (DUF3288); Region: DUF3288; pfam11691 269084005195 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 269084005196 non-specific DNA binding site [nucleotide binding]; other site 269084005197 salt bridge; other site 269084005198 sequence-specific DNA binding site [nucleotide binding]; other site 269084005199 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269084005200 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 269084005201 metal-binding site [ion binding] 269084005202 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 269084005203 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269084005204 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084005205 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 269084005206 ATP synthase CF1 beta subunit; Region: atpB; CHL00060 269084005207 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 269084005208 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 269084005209 alpha subunit interaction interface [polypeptide binding]; other site 269084005210 Walker A motif; other site 269084005211 ATP binding site [chemical binding]; other site 269084005212 Walker B motif; other site 269084005213 inhibitor binding site; inhibition site 269084005214 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269084005215 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 269084005216 oligomerisation interface [polypeptide binding]; other site 269084005217 mobile loop; other site 269084005218 roof hairpin; other site 269084005219 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269084005220 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 269084005221 ring oligomerisation interface [polypeptide binding]; other site 269084005222 ATP/Mg binding site [chemical binding]; other site 269084005223 stacking interactions; other site 269084005224 hinge regions; other site 269084005225 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 269084005226 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 269084005227 active site 269084005228 homodimer interface [polypeptide binding]; other site 269084005229 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 269084005230 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084005231 catalytic residue [active] 269084005232 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269084005233 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 269084005234 dimer interface [polypeptide binding]; other site 269084005235 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269084005236 catalytic triad [active] 269084005237 peroxidatic and resolving cysteines [active] 269084005238 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 269084005239 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269084005240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084005241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084005242 active site 269084005243 phosphorylation site [posttranslational modification] 269084005244 intermolecular recognition site; other site 269084005245 dimerization interface [polypeptide binding]; other site 269084005246 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 269084005247 DNA binding site [nucleotide binding] 269084005248 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269084005249 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 269084005250 dihydropteroate synthase; Region: DHPS; TIGR01496 269084005251 substrate binding pocket [chemical binding]; other site 269084005252 dimer interface [polypeptide binding]; other site 269084005253 inhibitor binding site; inhibition site 269084005254 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 269084005255 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 269084005256 16S/18S rRNA binding site [nucleotide binding]; other site 269084005257 S13e-L30e interaction site [polypeptide binding]; other site 269084005258 25S rRNA binding site [nucleotide binding]; other site 269084005259 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 269084005260 RuvA N terminal domain; Region: RuvA_N; pfam01330 269084005261 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 269084005262 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 269084005263 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 269084005264 active site 269084005265 dimer interface [polypeptide binding]; other site 269084005266 catalytic residue [active] 269084005267 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 269084005268 Ca2+ binding site [ion binding]; other site 269084005269 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 269084005270 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269084005271 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 269084005272 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 269084005273 KpsF/GutQ family protein; Region: kpsF; TIGR00393 269084005274 putative active site [active] 269084005275 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 269084005276 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 269084005277 Ligand binding site; other site 269084005278 oligomer interface; other site 269084005279 NeuB family; Region: NeuB; cl00496 269084005280 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269084005281 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 269084005282 active site 269084005283 motif I; other site 269084005284 motif II; other site 269084005285 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 269084005286 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 269084005287 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 269084005288 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 269084005289 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 269084005290 active site 269084005291 NAD binding site [chemical binding]; other site 269084005292 metal binding site [ion binding]; metal-binding site 269084005293 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084005294 Protein of unknown function (DUF554); Region: DUF554; cl00784 269084005295 Predicted domain in sensory proteins (DUF2308); Region: DUF2308; cl01731 269084005296 GAF domain; Region: GAF; cl00853 269084005297 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269084005298 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 269084005299 dimer interface [polypeptide binding]; other site 269084005300 phosphorylation site [posttranslational modification] 269084005301 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 269084005302 ATP binding site [chemical binding]; other site 269084005303 Mg2+ binding site [ion binding]; other site 269084005304 G-X-G motif; other site 269084005305 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 269084005306 TPR motif; other site 269084005307 binding surface 269084005308 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 269084005309 Predicted kinase [General function prediction only]; Region: COG0645 269084005310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005311 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 269084005312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005313 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 269084005314 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 269084005315 metal ion-dependent adhesion site (MIDAS); other site 269084005316 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 269084005317 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 269084005318 catalytic center binding site [active] 269084005319 ATP binding site [chemical binding]; other site 269084005320 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 269084005321 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 269084005322 dimer interface [polypeptide binding]; other site 269084005323 ADP-ribose binding site [chemical binding]; other site 269084005324 active site 269084005325 nudix motif; other site 269084005326 metal binding site [ion binding]; metal-binding site 269084005327 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 269084005328 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 269084005329 metal binding site [ion binding]; metal-binding site 269084005330 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 269084005331 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cl11435 269084005332 putative dimer interface [polypeptide binding]; other site 269084005333 active site pocket [active] 269084005334 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 269084005335 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084005336 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 269084005337 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 269084005338 putative catalytic cysteine [active] 269084005339 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 269084005340 DNA binding residues [nucleotide binding] 269084005341 dimerization interface [polypeptide binding]; other site 269084005342 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 269084005343 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 269084005344 dimer interface [polypeptide binding]; other site 269084005345 motif 1; other site 269084005346 active site 269084005347 motif 2; other site 269084005348 motif 3; other site 269084005349 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 269084005350 anticodon binding site; other site 269084005351 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 269084005352 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 269084005353 RimM N-terminal domain; Region: RimM; pfam01782 269084005354 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269084005355 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 269084005356 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 269084005357 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084005358 homodimer interface [polypeptide binding]; other site 269084005359 catalytic residue [active] 269084005360 Protein of unknown function (DUF3252); Region: DUF3252; pfam11623 269084005361 Alpha/beta hydrolase of unknown function (DUF1400); Region: DUF1400; pfam07176 269084005362 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 269084005363 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 269084005364 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 269084005365 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 269084005366 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 269084005367 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 269084005368 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 269084005369 Walker A/P-loop; other site 269084005370 ATP binding site [chemical binding]; other site 269084005371 Q-loop/lid; other site 269084005372 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005373 ABC transporter signature motif; other site 269084005374 Walker B; other site 269084005375 D-loop; other site 269084005376 H-loop/switch region; other site 269084005377 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 269084005378 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 269084005379 IHF dimer interface [polypeptide binding]; other site 269084005380 IHF - DNA interface [nucleotide binding]; other site 269084005381 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 269084005382 MutS domain I; Region: MutS_I; pfam01624 269084005383 MutS domain II; Region: MutS_II; pfam05188 269084005384 MutS family domain IV; Region: MutS_IV; pfam05190 269084005385 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 269084005386 Walker A/P-loop; other site 269084005387 ATP binding site [chemical binding]; other site 269084005388 Q-loop/lid; other site 269084005389 ABC transporter signature motif; other site 269084005390 Walker B; other site 269084005391 D-loop; other site 269084005392 H-loop/switch region; other site 269084005393 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269084005394 YCF9; Region: Ycf9; cl09269 269084005395 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 269084005396 homopentamer interface [polypeptide binding]; other site 269084005397 active site 269084005398 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 269084005399 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 269084005400 putative catalytic cysteine [active] 269084005401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269084005402 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 269084005403 putative acetyltransferase; Provisional; Region: PRK03624 269084005404 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084005405 Coenzyme A binding pocket [chemical binding]; other site 269084005406 Dihaem cytochrome c; Region: DHC; pfam09626 269084005407 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 269084005408 phosphate:H+ symporter; Region: 2A0109; TIGR00887 269084005409 putative substrate translocation pore; other site 269084005410 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 269084005411 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269084005412 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269084005413 Walker A/P-loop; other site 269084005414 ATP binding site [chemical binding]; other site 269084005415 Q-loop/lid; other site 269084005416 ABC transporter signature motif; other site 269084005417 Walker B; other site 269084005418 D-loop; other site 269084005419 H-loop/switch region; other site 269084005420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269084005421 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 269084005422 Walker A/P-loop; other site 269084005423 ATP binding site [chemical binding]; other site 269084005424 Q-loop/lid; other site 269084005425 ABC transporter signature motif; other site 269084005426 Walker B; other site 269084005427 D-loop; other site 269084005428 H-loop/switch region; other site 269084005429 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 269084005430 NADH-quinone oxidoreductase cyanobacterial subunit N; Region: NdhN; pfam11909 269084005431 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 269084005432 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 269084005433 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 269084005434 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 269084005435 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 269084005436 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 269084005437 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 269084005438 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 269084005439 putative translocon binding site; other site 269084005440 protein-rRNA interface [nucleotide binding]; other site 269084005441 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 269084005442 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 269084005443 G-X-X-G motif; other site 269084005444 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 269084005445 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; cl00353 269084005446 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 269084005447 putative translocon interaction site; other site 269084005448 23S rRNA interface [nucleotide binding]; other site 269084005449 signal recognition particle (SRP54) interaction site; other site 269084005450 L23 interface [polypeptide binding]; other site 269084005451 trigger factor interaction site; other site 269084005452 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 269084005453 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 269084005454 KOW motif; Region: KOW; cl00354 269084005455 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 269084005456 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 269084005457 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 269084005458 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 269084005459 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 269084005460 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 269084005461 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269084005462 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269084005463 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 269084005464 5S rRNA interface [nucleotide binding]; other site 269084005465 23S rRNA interface [nucleotide binding]; other site 269084005466 L27 interface [polypeptide binding]; other site 269084005467 L5 interface [polypeptide binding]; other site 269084005468 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 269084005469 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 269084005470 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 269084005471 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 269084005472 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 269084005473 SecY translocase; Region: SecY; pfam00344 269084005474 adenylate kinase; Provisional; Region: adk; PRK02496 269084005475 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 269084005476 AMP-binding site [chemical binding]; other site 269084005477 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 269084005478 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 269084005479 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 269084005480 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 269084005481 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 269084005482 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 269084005483 alphaNTD homodimer interface [polypeptide binding]; other site 269084005484 alphaNTD - beta interaction site [polypeptide binding]; other site 269084005485 alphaNTD - beta' interaction site [polypeptide binding]; other site 269084005486 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 269084005487 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 269084005488 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 269084005489 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 269084005490 dimerization interface 3.5A [polypeptide binding]; other site 269084005491 active site 269084005492 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 269084005493 23S rRNA interface [nucleotide binding]; other site 269084005494 L3 interface [polypeptide binding]; other site 269084005495 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 269084005496 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 269084005497 peptide chain release factor 1; Validated; Region: prfA; PRK00591 269084005498 RF-1 domain; Region: RF-1; cl02875 269084005499 RF-1 domain; Region: RF-1; cl02875 269084005500 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 269084005501 active site 269084005502 alanine racemase; Reviewed; Region: alr; PRK00053 269084005503 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 269084005504 active site 269084005505 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269084005506 dimer interface [polypeptide binding]; other site 269084005507 substrate binding site [chemical binding]; other site 269084005508 catalytic residues [active] 269084005509 Cupin domain; Region: Cupin_2; cl09118 269084005510 DNA polymerase III subunit alpha; Reviewed; Region: PRK09532 269084005511 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 269084005512 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 269084005513 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 269084005514 thioester formation/cholesterol transfer; other site 269084005515 protein-splicing catalytic site; other site 269084005516 NurA domain; Region: NurA; cl09134 269084005517 gamma-glutamyl kinase; Provisional; Region: PRK05429 269084005518 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 269084005519 nucleotide binding site [chemical binding]; other site 269084005520 homotetrameric interface [polypeptide binding]; other site 269084005521 putative phosphate binding site [ion binding]; other site 269084005522 putative allosteric binding site; other site 269084005523 PUA domain; Region: PUA; cl00607 269084005524 FecR protein; Region: FecR; pfam04773 269084005525 CHASE2 domain; Region: CHASE2; cl01732 269084005526 cyclase homology domain; Region: CHD; cd07302 269084005527 nucleotidyl binding site; other site 269084005528 metal binding site [ion binding]; metal-binding site 269084005529 dimer interface [polypeptide binding]; other site 269084005530 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 269084005531 GAF domain; Region: GAF; cl00853 269084005532 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 269084005533 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269084005534 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 269084005535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084005536 metal binding site [ion binding]; metal-binding site 269084005537 active site 269084005538 I-site; other site 269084005539 SelR domain; Region: SelR; cl00369 269084005540 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 269084005541 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269084005542 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269084005543 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269084005544 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 269084005545 Ligand Binding Site [chemical binding]; other site 269084005546 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 269084005547 putative active site [active] 269084005548 putative dimer interface [polypeptide binding]; other site 269084005549 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 269084005550 RNA/DNA hybrid binding site [nucleotide binding]; other site 269084005551 active site 269084005552 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 269084005553 active site 269084005554 putative substrate binding region [chemical binding]; other site 269084005555 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269084005556 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 269084005557 catalytic triad [active] 269084005558 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269084005559 putative lipid kinase; Reviewed; Region: PRK13057 269084005560 Membrane protein of unknown function; Region: DUF360; cl00850 269084005561 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 269084005562 TM-ABC transporter signature motif; other site 269084005563 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269084005564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005565 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084005566 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269084005567 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 269084005568 non-specific DNA interactions [nucleotide binding]; other site 269084005569 DNA binding site [nucleotide binding] 269084005570 sequence specific DNA binding site [nucleotide binding]; other site 269084005571 putative cAMP binding site [chemical binding]; other site 269084005572 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269084005573 dimer interface [polypeptide binding]; other site 269084005574 [2Fe-2S] cluster binding site [ion binding]; other site 269084005575 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 269084005576 Ferritin-like domain; Region: Ferritin; pfam00210 269084005577 dimerization interface [polypeptide binding]; other site 269084005578 DPS ferroxidase diiron center [ion binding]; other site 269084005579 ion pore; other site 269084005580 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269084005581 metal binding site 2 [ion binding]; metal-binding site 269084005582 putative DNA binding helix; other site 269084005583 metal binding site 1 [ion binding]; metal-binding site 269084005584 dimer interface [polypeptide binding]; other site 269084005585 structural Zn2+ binding site [ion binding]; other site 269084005586 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 269084005587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005588 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005589 peptidase; Reviewed; Region: PRK13004 269084005590 Rieske non-heme iron oxygenase (RO) family, Pheophorbide a oxygenase (PaO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of a small subfamily of enzymes found in plants as well as oxygenic...; Region: Rieske_RO_Alpha_PaO; cd03480 269084005591 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269084005592 hydrophobic ligand binding site; other site 269084005593 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084005594 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269084005595 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 269084005596 homodimer interface [polypeptide binding]; other site 269084005597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084005598 catalytic residue [active] 269084005599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084005600 Phycobilisome protein; Region: Phycobilisome; cl08227 269084005601 glutamine synthetase, type I; Region: GlnA; TIGR00653 269084005602 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 269084005603 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269084005604 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 269084005605 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 269084005606 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269084005607 DXD motif; other site 269084005608 PilZ domain; Region: PilZ; cl01260 269084005609 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 269084005610 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 269084005611 ABC-2 type transporter; Region: ABC2_membrane; cl11417 269084005612 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005613 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 269084005614 Walker A/P-loop; other site 269084005615 ATP binding site [chemical binding]; other site 269084005616 Q-loop/lid; other site 269084005617 ABC transporter signature motif; other site 269084005618 Walker B; other site 269084005619 D-loop; other site 269084005620 H-loop/switch region; other site 269084005621 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 269084005622 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 269084005623 putative active site; other site 269084005624 catalytic triad [active] 269084005625 putative dimer interface [polypeptide binding]; other site 269084005626 Staphylococcal nuclease homologues; Region: SNc; smart00318 269084005627 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 269084005628 Catalytic site; other site 269084005629 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269084005630 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 269084005631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084005632 catalytic residue [active] 269084005633 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 269084005634 Predicted RNA interaction site [nucleotide binding]; other site 269084005635 putative binding site; other site 269084005636 Mutations affecting start-site selection; other site 269084005637 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 269084005638 Cupin domain; Region: Cupin_2; cl09118 269084005639 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 269084005640 active site 269084005641 catalytic motif [active] 269084005642 Zn binding site [ion binding]; other site 269084005643 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269084005644 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 269084005645 putative C-terminal domain interface [polypeptide binding]; other site 269084005646 putative GSH binding site (G-site) [chemical binding]; other site 269084005647 putative dimer interface [polypeptide binding]; other site 269084005648 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 269084005649 N-terminal domain interface [polypeptide binding]; other site 269084005650 dimer interface [polypeptide binding]; other site 269084005651 substrate binding pocket (H-site) [chemical binding]; other site 269084005652 YcfA-like protein; Region: YcfA; cl00752 269084005653 magnesium chelatase subunit H; Provisional; Region: PRK12493 269084005654 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269084005655 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269084005656 dihydrodipicolinate reductase; Provisional; Region: PRK00048 269084005657 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005658 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 269084005659 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 269084005660 active site 269084005661 metal binding site [ion binding]; metal-binding site 269084005662 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269084005663 active site 269084005664 metal binding site [ion binding]; metal-binding site 269084005665 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14317 269084005666 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 269084005667 active site 269084005668 substrate binding site [chemical binding]; other site 269084005669 metal binding site [ion binding]; metal-binding site 269084005670 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 269084005671 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 269084005672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269084005673 catalytic residue [active] 269084005674 NIL domain; Region: NIL; cl09633 269084005675 4Fe-4S binding domain; Region: Fer4; cl02805 269084005676 hypothetical protein; Provisional; Region: PRK13795 269084005677 TRX-like protein A (TxlA) family; TxlA was originally isolated from the cyanobacterium Synechococcus. It is found only in oxygenic photosynthetic organisms. TRX is a small enzyme that participate in redox reactions, via the reversible oxidation of an...; Region: TxlA; cd02950 269084005678 catalytic residues [active] 269084005679 Phycobilisome degradation protein nblA; Region: NblA; pfam04485 269084005680 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 269084005681 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 269084005682 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269084005683 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 269084005684 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 269084005685 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 269084005686 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 269084005687 catalytic site [active] 269084005688 subunit interface [polypeptide binding]; other site 269084005689 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 269084005690 anti sigma factor interaction site; other site 269084005691 regulatory phosphorylation site [posttranslational modification]; other site 269084005692 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; cl00258 269084005693 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 269084005694 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 269084005695 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269084005696 Domain of unknown function (DUF1816); Region: DUF1816; pfam08846 269084005697 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 269084005698 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 269084005699 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 269084005700 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084005701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084005702 Coenzyme A binding pocket [chemical binding]; other site 269084005703 adaptive-response sensory kinase; Validated; Region: PRK09303 269084005704 KaiB-like family; composed of the circadian clock proteins, KaiB and the N-terminal KaiB-like sensory domain of SasA. KaiB is an essential protein in maintaining circadian rhythm. It was originally discovered from the cyanobacterium Synechococcus as part...; Region: KaiB_like; cd02978 269084005705 tetramer interface [polypeptide binding]; other site 269084005706 dimer interface [polypeptide binding]; other site 269084005707 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 269084005708 dimer interface [polypeptide binding]; other site 269084005709 phosphorylation site [posttranslational modification] 269084005710 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 269084005711 ATP binding site [chemical binding]; other site 269084005712 Mg2+ binding site [ion binding]; other site 269084005713 G-X-G motif; other site 269084005714 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084005715 ribose-phosphate pyrophosphokinase; Region: PLN02369 269084005716 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005717 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 269084005718 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 269084005719 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 269084005720 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 269084005721 putative active site [active] 269084005722 substrate binding site [chemical binding]; other site 269084005723 putative cosubstrate binding site; other site 269084005724 catalytic site [active] 269084005725 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 269084005726 substrate binding site [chemical binding]; other site 269084005727 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269084005728 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084005729 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269084005730 Walker A/P-loop; other site 269084005731 ATP binding site [chemical binding]; other site 269084005732 Q-loop/lid; other site 269084005733 ABC transporter signature motif; other site 269084005734 Walker B; other site 269084005735 D-loop; other site 269084005736 H-loop/switch region; other site 269084005737 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269084005738 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084005739 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269084005740 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 269084005741 dimer interface [polypeptide binding]; other site 269084005742 conserved gate region; other site 269084005743 putative PBP binding loops; other site 269084005744 ABC-ATPase subunit interface; other site 269084005745 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269084005746 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 269084005747 Walker A/P-loop; other site 269084005748 ATP binding site [chemical binding]; other site 269084005749 Q-loop/lid; other site 269084005750 ABC transporter signature motif; other site 269084005751 Walker B; other site 269084005752 D-loop; other site 269084005753 H-loop/switch region; other site 269084005754 cyanate hydratase; Validated; Region: PRK02866 269084005755 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 269084005756 oligomer interface [polypeptide binding]; other site 269084005757 active site 269084005758 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 269084005759 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 269084005760 catalytic loop [active] 269084005761 iron binding site [ion binding]; other site 269084005762 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 269084005763 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 269084005764 substrate binding site; other site 269084005765 tetramer interface; other site 269084005766 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 269084005767 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 269084005768 NAD binding site [chemical binding]; other site 269084005769 substrate binding site [chemical binding]; other site 269084005770 homodimer interface [polypeptide binding]; other site 269084005771 active site 269084005772 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269084005773 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 269084005774 NADP binding site [chemical binding]; other site 269084005775 active site 269084005776 putative substrate binding site [chemical binding]; other site 269084005777 Cupin domain; Region: Cupin_2; cl09118 269084005778 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 269084005779 FOG: CBS domain [General function prediction only]; Region: COG0517 269084005780 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_7; cd04620 269084005781 FOG: CBS domain [General function prediction only]; Region: COG0517 269084005782 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 269084005783 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084005784 GAF domain; Region: GAF; cl00853 269084005785 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084005786 metal binding site [ion binding]; metal-binding site 269084005787 active site 269084005788 I-site; other site 269084005789 Fasciclin domain; Region: Fasciclin; cl02663 269084005790 CO2 hydration protein (ChpXY); Region: ChpXY; cl10905 269084005791 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 269084005792 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084005793 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07390 269084005794 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084005795 homoserine dehydrogenase; Provisional; Region: PRK06349 269084005796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005797 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 269084005798 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 269084005799 Vitamin K epoxide reductase family; Region: VKOR; cl01729 269084005800 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 269084005801 catalytic residues [active] 269084005802 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 269084005803 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 269084005804 substrate binding site [chemical binding]; other site 269084005805 glutamase interaction surface [polypeptide binding]; other site 269084005806 Protein of unknown function (DUF2862); Region: DUF2862; pfam11061 269084005807 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 269084005808 UbiA prenyltransferase family; Region: UbiA; cl00337 269084005809 MarC family integral membrane protein; Region: MarC; cl00919 269084005810 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 269084005811 elongation factor G; Reviewed; Region: PRK12740 269084005812 G1 box; other site 269084005813 putative GEF interaction site [polypeptide binding]; other site 269084005814 GTP/Mg2+ binding site [chemical binding]; other site 269084005815 Switch I region; other site 269084005816 G2 box; other site 269084005817 G3 box; other site 269084005818 Switch II region; other site 269084005819 G4 box; other site 269084005820 G5 box; other site 269084005821 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 269084005822 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 269084005823 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 269084005824 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 269084005825 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 269084005826 active site 269084005827 putative phosphoketolase; Provisional; Region: PRK05261 269084005828 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 269084005829 TPP-binding site; other site 269084005830 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 269084005831 XFP C-terminal domain; Region: XFP_C; pfam09363 269084005832 Acetokinase family; Region: Acetate_kinase; cl01029 269084005833 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 269084005834 catalytic core [active] 269084005835 Protein of unknown function, DUF393; Region: DUF393; cl01136 269084005836 GTPase RsgA; Reviewed; Region: PRK12289 269084005837 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 269084005838 GTPase/OB domain interface [polypeptide binding]; other site 269084005839 GTPase/Zn-binding domain interface [polypeptide binding]; other site 269084005840 GTP/Mg2+ binding site [chemical binding]; other site 269084005841 G4 box; other site 269084005842 G5 box; other site 269084005843 G1 box; other site 269084005844 Switch I region; other site 269084005845 G2 box; other site 269084005846 G3 box; other site 269084005847 Switch II region; other site 269084005848 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 269084005849 CPxP motif; other site 269084005850 chaperone protein DnaJ; Provisional; Region: PRK14293 269084005851 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 269084005852 HSP70 interaction site [polypeptide binding]; other site 269084005853 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 269084005854 Zn binding sites [ion binding]; other site 269084005855 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 269084005856 dimer interface [polypeptide binding]; other site 269084005857 molecular chaperone DnaK; Provisional; Region: PRK13411 269084005858 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 269084005859 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 269084005860 dimer interface [polypeptide binding]; other site 269084005861 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 269084005862 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 269084005863 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 269084005864 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 269084005865 Walker A motif; other site 269084005866 ATP binding site [chemical binding]; other site 269084005867 Walker B motif; other site 269084005868 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 269084005869 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 269084005870 Walker A motif; other site 269084005871 ATP binding site [chemical binding]; other site 269084005872 Walker B motif; other site 269084005873 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269084005874 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 269084005875 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 269084005876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005877 flavoprotein, HI0933 family; Region: TIGR00275 269084005878 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 269084005879 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269084005880 FMN binding site [chemical binding]; other site 269084005881 active site 269084005882 catalytic residues [active] 269084005883 substrate binding site [chemical binding]; other site 269084005884 TfoX N-terminal domain; Region: TfoX_N; cl01167 269084005885 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 269084005886 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 269084005887 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 269084005888 dimer interface [polypeptide binding]; other site 269084005889 motif 1; other site 269084005890 active site 269084005891 motif 2; other site 269084005892 motif 3; other site 269084005893 Survival protein SurE; Region: SurE; cl00448 269084005894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005895 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 269084005896 Protein of unknown function (DUF3539); Region: DUF3539; pfam12058 269084005897 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 269084005898 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269084005899 catalytic residue [active] 269084005900 Protein of unknown function (DUF552); Region: DUF552; cl00775 269084005901 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 269084005902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005903 Domain of unknown function (DUF205); Region: DUF205; cl00410 269084005904 Protein of unknown function (DUF2949); Region: DUF2949; pfam11165 269084005905 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK07364 269084005906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084005907 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 269084005908 S-adenosylmethionine binding site [chemical binding]; other site 269084005909 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 269084005910 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084005911 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 269084005912 dimer interface [polypeptide binding]; other site 269084005913 conserved gate region; other site 269084005914 ABC-ATPase subunit interface; other site 269084005915 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 269084005916 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269084005917 active site 269084005918 substrate binding site [chemical binding]; other site 269084005919 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 269084005920 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 269084005921 glycine dehydrogenase; Provisional; Region: PRK05367 269084005922 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 269084005923 tetramer interface [polypeptide binding]; other site 269084005924 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084005925 catalytic residue [active] 269084005926 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 269084005927 tetramer interface [polypeptide binding]; other site 269084005928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084005929 catalytic residue [active] 269084005930 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 269084005931 lipoyl attachment site [posttranslational modification]; other site 269084005932 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 269084005933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084005934 Walker A/P-loop; other site 269084005935 ATP binding site [chemical binding]; other site 269084005936 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 269084005937 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 269084005938 seryl-tRNA synthetase; Provisional; Region: PRK05431 269084005939 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 269084005940 ABC transporter signature motif; other site 269084005941 Walker B; other site 269084005942 D-loop; other site 269084005943 H-loop/switch region; other site 269084005944 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269084005945 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 269084005946 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 269084005947 integral membrane protein MviN; Region: mviN; TIGR01695 269084005948 Sugar fermentation stimulation protein; Region: SfsA; cl00647 269084005949 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 269084005950 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 269084005951 non-specific DNA binding site [nucleotide binding]; other site 269084005952 salt bridge; other site 269084005953 sequence-specific DNA binding site [nucleotide binding]; other site 269084005954 Cupin domain; Region: Cupin_2; cl09118 269084005955 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 269084005956 iron-sulfur cluster [ion binding]; other site 269084005957 [2Fe-2S] cluster binding site [ion binding]; other site 269084005958 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269084005959 hydrophobic ligand binding site; other site 269084005960 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 269084005961 iron-sulfur cluster [ion binding]; other site 269084005962 [2Fe-2S] cluster binding site [ion binding]; other site 269084005963 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269084005964 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269084005965 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 269084005966 homodimer interface [polypeptide binding]; other site 269084005967 active site 269084005968 TDP-binding site; other site 269084005969 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269084005970 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 269084005971 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 269084005972 CpeS-like protein; Region: CpeS; pfam09367 269084005973 Phycobilisome Linker polypeptide; Region: PBS_linker_poly; pfam00427 269084005974 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14096 269084005975 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 269084005976 active site 269084005977 dimer interface [polypeptide binding]; other site 269084005978 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 269084005979 dimer interface [polypeptide binding]; other site 269084005980 active site 269084005981 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 269084005982 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 269084005983 metal-binding site 269084005984 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269084005985 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 269084005986 Bacterial sugar transferase; Region: Bac_transf; cl00939 269084005987 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084005988 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 269084005989 putative ADP-binding pocket [chemical binding]; other site 269084005990 Protein of unknown function DUF72; Region: DUF72; cl00777 269084005991 ribosome maturation protein RimP; Reviewed; Region: PRK00092 269084005992 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 269084005993 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 269084005994 Sm1 motif; other site 269084005995 D3 - B interaction site; other site 269084005996 D1 - D2 interaction site; other site 269084005997 Hfq - Hfq interaction site; other site 269084005998 RNA binding pocket [nucleotide binding]; other site 269084005999 Sm2 motif; other site 269084006000 NusA N-terminal domain; Region: NusA_N; pfam08529 269084006001 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 269084006002 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 269084006003 RNA binding site [nucleotide binding]; other site 269084006004 homodimer interface [polypeptide binding]; other site 269084006005 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 269084006006 G-X-X-G motif; other site 269084006007 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 269084006008 putative RNA binding cleft [nucleotide binding]; other site 269084006009 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 269084006010 translation initiation factor IF-2; Region: IF-2; TIGR00487 269084006011 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 269084006012 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 269084006013 G1 box; other site 269084006014 putative GEF interaction site [polypeptide binding]; other site 269084006015 GTP/Mg2+ binding site [chemical binding]; other site 269084006016 Switch I region; other site 269084006017 G2 box; other site 269084006018 G3 box; other site 269084006019 Switch II region; other site 269084006020 G4 box; other site 269084006021 G5 box; other site 269084006022 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 269084006023 Translation-initiation factor 2; Region: IF-2; pfam11987 269084006024 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 269084006025 Protein of unknown function (DUF3493); Region: DUF3493; pfam11998 269084006026 YGGT family; Region: YGGT; cl00508 269084006027 Photosystem II reaction centre X protein (PsbX); Region: PsbX; cl05887 269084006028 Ycf66 protein N-terminus; Region: Ycf66_N; pfam07444 269084006029 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 269084006030 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 269084006031 Stage II sporulation protein; Region: SpoIID; pfam08486 269084006032 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 269084006033 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084006034 Cytochrome c; Region: Cytochrom_C; cl11414 269084006035 chromosome segregation protein; Provisional; Region: PRK03918 269084006036 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084006037 Walker A/P-loop; other site 269084006038 ATP binding site [chemical binding]; other site 269084006039 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 269084006040 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084006041 ABC transporter signature motif; other site 269084006042 Walker B; other site 269084006043 D-loop; other site 269084006044 H-loop/switch region; other site 269084006045 Flavin Reductases; Region: FlaRed; cl00801 269084006046 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 269084006047 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 269084006048 active site 269084006049 (T/H)XGH motif; other site 269084006050 hypothetical protein; Provisional; Region: PRK00106 269084006051 RNA polymerase sigma factor; Provisional; Region: PRK12519 269084006052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084006053 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 269084006054 DNA binding residues [nucleotide binding] 269084006055 CHRD domain; Region: CHRD; cl06473 269084006056 septum formation inhibitor; Reviewed; Region: minC; PRK00513 269084006057 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 269084006058 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 269084006059 phosphopeptide binding site; other site 269084006060 Transglycosylase; Region: Transgly; cl07896 269084006061 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269084006062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 269084006063 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 269084006064 RNA/DNA binding site [nucleotide binding]; other site 269084006065 RRM dimerization site [polypeptide binding]; other site 269084006066 GAF domain; Region: GAF; cl00853 269084006067 light-harvesting-like protein 3; Provisional; Region: PLN00014 269084006068 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 269084006069 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 269084006070 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 269084006071 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 269084006072 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 269084006073 motif II; other site 269084006074 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 269084006075 intersubunit interface [polypeptide binding]; other site 269084006076 active site 269084006077 Zn2+ binding site [ion binding]; other site 269084006078 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 269084006079 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 269084006080 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 269084006081 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269084006082 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269084006083 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 269084006084 Cation efflux family; Region: Cation_efflux; cl00316 269084006085 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 269084006086 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 269084006087 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 269084006088 Phosphotransferase enzyme family; Region: APH; pfam01636 269084006089 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 269084006090 active site 269084006091 substrate binding site [chemical binding]; other site 269084006092 ATP binding site [chemical binding]; other site 269084006093 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269084006094 active site lid residues [active] 269084006095 substrate binding pocket [chemical binding]; other site 269084006096 catalytic residues [active] 269084006097 substrate-Mg2+ binding site; other site 269084006098 aspartate-rich region 1; other site 269084006099 aspartate-rich region 2; other site 269084006100 Uncharacterized conserved protein [Function unknown]; Region: COG3349 269084006101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006102 Cyanobacterial and plastid NDH-1 subunit M; Region: NdhM; pfam10664 269084006103 LysR transcriptional regulator; Provisional; Region: rbcR; CHL00180 269084006104 Helix-turn-helix domains; Region: HTH; cl00088 269084006105 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269084006106 putative dimerization interface [polypeptide binding]; other site 269084006107 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 269084006108 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 269084006109 catalytic residues [active] 269084006110 NAD(P)H-quinone oxidoreductase subunit F; Validated; Region: PRK07376 269084006111 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 269084006112 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084006113 NADH-Ubiquinone oxidoreductase (complex I) subunit C-terminus; Region: Oxidored_q1_C; pfam01010 269084006114 NAD(P)H-quinone oxidoreductase subunit 4; Provisional; Region: PRK02546 269084006115 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084006116 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 269084006117 ScpA/B protein; Region: ScpA_ScpB; cl00598 269084006118 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 269084006119 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 269084006120 active site 269084006121 Substrate binding site; other site 269084006122 Mg++ binding site; other site 269084006123 Left-handed parallel beta-Helix (LbH) domain of a group of proteins with similarity to glucose-1-phosphate adenylyltransferase: Included in this family are glucose-1-phosphate adenylyltransferase, mannose-1-phosphate guanylyltransferase, and the...; Region: LbH_G1P_AT_C_like; cd03356 269084006124 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 269084006125 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 269084006126 binding surface 269084006127 TPR motif; other site 269084006128 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 269084006129 binding surface 269084006130 TPR motif; other site 269084006131 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 269084006132 binding surface 269084006133 TPR motif; other site 269084006134 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 269084006135 amidohydrolase; Region: amidohydrolases; TIGR01891 269084006136 metal binding site [ion binding]; metal-binding site 269084006137 dimer interface [polypeptide binding]; other site 269084006138 AbrB-like transcriptional regulator; Region: AbrB-like; pfam14250 269084006139 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 269084006140 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 269084006141 Protein of unknown function (DUF512); Region: DUF512; pfam04459 269084006142 Bacitracin resistance protein BacA; Region: BacA; cl00858 269084006143 Protein of unknown function (DUF3571); Region: DUF3571; pfam12095 269084006144 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 269084006145 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 269084006146 UbiA prenyltransferase family; Region: UbiA; cl00337 269084006147 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 269084006148 dimer interface [polypeptide binding]; other site 269084006149 catalytic triad [active] 269084006150 Photosystem II protein Y (PsbY); Region: PsbY; cl05675 269084006151 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 269084006152 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 269084006153 trimer interface [polypeptide binding]; other site 269084006154 putative metal binding site [ion binding]; other site 269084006155 Protein of unknown function (DUF2396); Region: DUF2396; cl09868 269084006156 prolyl-tRNA synthetase; Provisional; Region: PRK09194 269084006157 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 269084006158 dimer interface [polypeptide binding]; other site 269084006159 motif 1; other site 269084006160 active site 269084006161 motif 2; other site 269084006162 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 269084006163 putative deacylase active site [active] 269084006164 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 269084006165 active site 269084006166 motif 3; other site 269084006167 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 269084006168 anticodon binding site; other site 269084006169 Helix-turn-helix domains; Region: HTH; cl00088 269084006170 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 269084006171 ligand binding site [chemical binding]; other site 269084006172 flexible hinge region; other site 269084006173 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 269084006174 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 269084006175 CTP synthetase; Validated; Region: pyrG; PRK05380 269084006176 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 269084006177 Catalytic site [active] 269084006178 active site 269084006179 UTP binding site [chemical binding]; other site 269084006180 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 269084006181 active site 269084006182 putative oxyanion hole; other site 269084006183 catalytic triad [active] 269084006184 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269084006185 active site 269084006186 Protein of unknown function (DUF3181); Region: DUF3181; pfam11378 269084006187 2TM domain; Region: 2TM; pfam13239 269084006188 Bacterial Ig-like domain; Region: Big_5; cl01012 269084006189 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 269084006190 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 269084006191 GIY-YIG motif/motif A; other site 269084006192 active site 269084006193 catalytic site [active] 269084006194 putative DNA binding site [nucleotide binding]; other site 269084006195 metal binding site [ion binding]; metal-binding site 269084006196 UvrB/uvrC motif; Region: UVR; pfam02151 269084006197 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 269084006198 pyruvate dehydrogenase E1 component alpha subunit; Reviewed; Region: odpA; CHL00149 269084006199 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 269084006200 tetramer interface [polypeptide binding]; other site 269084006201 TPP-binding site [chemical binding]; other site 269084006202 heterodimer interface [polypeptide binding]; other site 269084006203 phosphorylation loop region [posttranslational modification] 269084006204 chaperone protein DnaJ; Provisional; Region: PRK14293 269084006205 Protein of unknown function (DUF4101); Region: DUF4101; pfam13355 269084006206 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 269084006207 catalytic triad [active] 269084006208 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084006209 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269084006210 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 269084006211 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 269084006212 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 269084006213 Membrane transport protein; Region: Mem_trans; cl09117 269084006214 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 269084006215 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 269084006216 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 269084006217 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 269084006218 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 269084006219 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 269084006220 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 269084006221 homotetramer interface [polypeptide binding]; other site 269084006222 FMN binding site [chemical binding]; other site 269084006223 homodimer contacts [polypeptide binding]; other site 269084006224 putative active site [active] 269084006225 putative substrate binding site [chemical binding]; other site 269084006226 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 269084006227 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269084006228 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 269084006229 active site 269084006230 metal binding site [ion binding]; metal-binding site 269084006231 Domain of unknown function (DUF1995); Region: DUF1995; pfam09353 269084006232 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 269084006233 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 269084006234 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084006235 catalytic residue [active] 269084006236 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 269084006237 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 269084006238 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 269084006239 Peptidase family M23; Region: Peptidase_M23; pfam01551 269084006240 Late competence development protein ComFB; Region: ComFB; pfam10719 269084006241 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 269084006242 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084006243 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 269084006244 DNA binding residues [nucleotide binding] 269084006245 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269084006246 putative active site pocket [active] 269084006247 dimerization interface [polypeptide binding]; other site 269084006248 putative catalytic residue [active] 269084006249 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 269084006250 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 269084006251 HIGH motif; other site 269084006252 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 269084006253 active site 269084006254 KMSKS motif; other site 269084006255 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 269084006256 tRNA binding surface [nucleotide binding]; other site 269084006257 Helix-turn-helix domains; Region: HTH; cl00088 269084006258 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 269084006259 putative ADP-binding pocket [chemical binding]; other site 269084006260 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269084006261 EamA-like transporter family; Region: EamA; cl01037 269084006262 EamA-like transporter family; Region: EamA; cl01037 269084006263 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 269084006264 tandem repeat interface [polypeptide binding]; other site 269084006265 oligomer interface [polypeptide binding]; other site 269084006266 active site residues [active] 269084006267 enoyl-CoA hydratase; Provisional; Region: PRK07854 269084006268 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 269084006269 homotrimer interaction site [polypeptide binding]; other site 269084006270 active site 269084006271 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 269084006272 PhoU domain; Region: PhoU; pfam01895 269084006273 PhoU domain; Region: PhoU; pfam01895 269084006274 Exoribonuclease R [Transcription]; Region: VacB; COG0557 269084006275 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 269084006276 RNB domain; Region: RNB; pfam00773 269084006277 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 269084006278 RNA binding site [nucleotide binding]; other site 269084006279 aromatic acid decarboxylase; Validated; Region: PRK05920 269084006280 Flavoprotein; Region: Flavoprotein; cl08021 269084006281 Protein of unknown function (DUF2996); Region: DUF2996; pfam11210 269084006282 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 269084006283 diiron binding motif [ion binding]; other site 269084006284 PPIC-type PPIASE domain; Region: Rotamase; cl08278 269084006285 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 269084006286 ligand binding site [chemical binding]; other site 269084006287 flexible hinge region; other site 269084006288 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 269084006289 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cd02259 269084006290 putative active site [active] 269084006291 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 269084006292 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 269084006293 Walker A/P-loop; other site 269084006294 ATP binding site [chemical binding]; other site 269084006295 Q-loop/lid; other site 269084006296 ABC transporter signature motif; other site 269084006297 Walker B; other site 269084006298 D-loop; other site 269084006299 H-loop/switch region; other site 269084006300 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 269084006301 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 269084006302 E3 interaction surface; other site 269084006303 lipoyl attachment site [posttranslational modification]; other site 269084006304 tellurite resistance protein TehB; Provisional; Region: PRK12335 269084006305 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 269084006306 S-adenosylmethionine binding site [chemical binding]; other site 269084006307 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084006308 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 269084006309 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269084006310 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 269084006311 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 269084006312 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269084006313 trimer interface [polypeptide binding]; other site 269084006314 active site 269084006315 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 269084006316 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 269084006317 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 269084006318 substrate binding site [chemical binding]; other site 269084006319 ligand binding site [chemical binding]; other site 269084006320 Myxococcus xanthus DevT and related proteins, metallophosphatase domain; Region: MPP_DevT; cd07397 269084006321 putative active site [active] 269084006322 putative metal binding site [ion binding]; other site 269084006323 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 269084006324 heterotetramer interface [polypeptide binding]; other site 269084006325 active site pocket [active] 269084006326 cleavage site 269084006327 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 269084006328 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 269084006329 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 269084006330 TM-ABC transporter signature motif; other site 269084006331 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269084006332 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 269084006333 Walker A/P-loop; other site 269084006334 ATP binding site [chemical binding]; other site 269084006335 Q-loop/lid; other site 269084006336 ABC transporter signature motif; other site 269084006337 Walker B; other site 269084006338 D-loop; other site 269084006339 H-loop/switch region; other site 269084006340 rhodanese superfamily protein; Provisional; Region: PRK05320 269084006341 Acylphosphatase; Region: Acylphosphatase; cl00551 269084006342 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 269084006343 active site residue [active] 269084006344 Uncharacterized conserved protein [Function unknown]; Region: COG1432 269084006345 LabA_like proteins; Region: LabA; cd10911 269084006346 putative metal binding site [ion binding]; other site 269084006347 Uncharacterized conserved protein [Function unknown]; Region: COG1543 269084006348 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 269084006349 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084006350 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 269084006351 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 269084006352 DHH family; Region: DHH; pfam01368 269084006353 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084006354 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 269084006355 N-terminal domain of RfaE; Region: RfaE_N; cd02172 269084006356 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 269084006357 putative active site [active] 269084006358 (T/H)XGH motif; other site 269084006359 GUN4-like; Region: GUN4; pfam05419 269084006360 photosystem II complex extrinsic protein precursor U; Provisional; Region: psbU; PRK02515 269084006361 L-aspartate oxidase; Provisional; Region: PRK07395 269084006362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006363 domain; Region: Succ_DH_flav_C; pfam02910 269084006364 MoxR-like ATPases [General function prediction only]; Region: COG0714 269084006365 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 269084006366 Walker A motif; other site 269084006367 ATP binding site [chemical binding]; other site 269084006368 Walker B motif; other site 269084006369 arginine finger; other site 269084006370 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 269084006371 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269084006372 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 269084006373 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 269084006374 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 269084006375 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 269084006376 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 269084006377 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269084006378 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006379 active site 269084006380 phosphorylation site [posttranslational modification] 269084006381 intermolecular recognition site; other site 269084006382 dimerization interface [polypeptide binding]; other site 269084006383 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 269084006384 DNA binding site [nucleotide binding] 269084006385 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269084006386 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 269084006387 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 269084006388 dimer interface [polypeptide binding]; other site 269084006389 phosphorylation site [posttranslational modification] 269084006390 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 269084006391 ATP binding site [chemical binding]; other site 269084006392 Mg2+ binding site [ion binding]; other site 269084006393 G-X-G motif; other site 269084006394 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269084006395 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 269084006396 DNA photolyase; Region: DNA_photolyase; pfam00875 269084006397 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 269084006398 Domain of unknown function (DUF1824); Region: DUF1824; pfam08854 269084006399 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 269084006400 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 269084006401 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 269084006402 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084006403 Tic22-like family; Region: Tic22; cl04468 269084006404 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269084006405 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 269084006406 putative ligand binding site [chemical binding]; other site 269084006407 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269084006408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006409 active site 269084006410 phosphorylation site [posttranslational modification] 269084006411 intermolecular recognition site; other site 269084006412 dimerization interface [polypeptide binding]; other site 269084006413 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 269084006414 DNA binding residues [nucleotide binding] 269084006415 dimerization interface [polypeptide binding]; other site 269084006416 PAS domain S-box; Region: sensory_box; TIGR00229 269084006417 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084006418 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 269084006419 PAS domain S-box; Region: sensory_box; TIGR00229 269084006420 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 269084006421 putative active site [active] 269084006422 heme pocket [chemical binding]; other site 269084006423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084006424 metal binding site [ion binding]; metal-binding site 269084006425 active site 269084006426 I-site; other site 269084006427 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 269084006428 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 269084006429 heme binding pocket [chemical binding]; other site 269084006430 heme ligand [chemical binding]; other site 269084006431 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 269084006432 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 269084006433 nucleoside/Zn binding site; other site 269084006434 dimer interface [polypeptide binding]; other site 269084006435 catalytic motif [active] 269084006436 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 269084006437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084006438 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 269084006439 catalytic triad [active] 269084006440 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 269084006441 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 269084006442 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 269084006443 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084006444 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084006445 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 269084006446 Precorrin-8X methylmutase; Region: CbiC; pfam02570 269084006447 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 269084006448 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084006449 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269084006450 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 269084006451 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 269084006452 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084006453 RNA polymerase sigma factor SigC; Validated; Region: PRK07598 269084006454 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084006455 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084006456 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084006457 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 269084006458 DNA binding residues [nucleotide binding] 269084006459 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 269084006460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006461 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 269084006462 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 269084006463 dihydrodipicolinate synthase; Region: dapA; TIGR00674 269084006464 dimer interface [polypeptide binding]; other site 269084006465 active site 269084006466 catalytic residue [active] 269084006467 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 269084006468 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084006469 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 269084006470 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269084006471 Domain of unknown function (DUF362); Region: DUF362; pfam04015 269084006472 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 269084006473 Probable transposase; Region: OrfB_IS605; pfam01385 269084006474 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 269084006475 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269084006476 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 269084006477 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 269084006478 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269084006479 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084006480 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269084006481 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 269084006482 photochlorophyllide reductase subunit B; Region: chlB; CHL00076 269084006483 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 269084006484 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 269084006485 Protein of unknown function (DUF2605); Region: DUF2605; pfam10792 269084006486 Protein of unknown function (DUF2973); Region: DUF2973; pfam11189 269084006487 Rhomboid family; Region: Rhomboid; cl11446 269084006488 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269084006489 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 269084006490 P-loop; other site 269084006491 Magnesium ion binding site [ion binding]; other site 269084006492 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 269084006493 Magnesium ion binding site [ion binding]; other site 269084006494 photosystem I P subunit (PSI-P); Region: PLN02777 269084006495 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 269084006496 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 269084006497 active site 269084006498 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 269084006499 catalytic residues [active] 269084006500 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 269084006501 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 269084006502 catalytic residues [active] 269084006503 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 269084006504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269084006505 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 269084006506 putative NAD(P) binding site [chemical binding]; other site 269084006507 active site 269084006508 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269084006509 FOG: CBS domain [General function prediction only]; Region: COG0517 269084006510 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 269084006511 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 269084006512 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 269084006513 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 269084006514 folate binding site [chemical binding]; other site 269084006515 NADP+ binding site [chemical binding]; other site 269084006516 Response regulator receiver domain; Region: Response_reg; pfam00072 269084006517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006518 active site 269084006519 phosphorylation site [posttranslational modification] 269084006520 intermolecular recognition site; other site 269084006521 dimerization interface [polypeptide binding]; other site 269084006522 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 269084006523 dimerization interface [polypeptide binding]; other site 269084006524 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 269084006525 dimer interface [polypeptide binding]; other site 269084006526 phosphorylation site [posttranslational modification] 269084006527 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 269084006528 ATP binding site [chemical binding]; other site 269084006529 Mg2+ binding site [ion binding]; other site 269084006530 G-X-G motif; other site 269084006531 Response regulator receiver domain; Region: Response_reg; pfam00072 269084006532 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006533 active site 269084006534 phosphorylation site [posttranslational modification] 269084006535 intermolecular recognition site; other site 269084006536 dimerization interface [polypeptide binding]; other site 269084006537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006538 Response regulator receiver domain; Region: Response_reg; pfam00072 269084006539 active site 269084006540 phosphorylation site [posttranslational modification] 269084006541 intermolecular recognition site; other site 269084006542 dimerization interface [polypeptide binding]; other site 269084006543 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 269084006544 dimer interface [polypeptide binding]; other site 269084006545 phosphorylation site [posttranslational modification] 269084006546 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269084006547 Response regulator receiver domain; Region: Response_reg; pfam00072 269084006548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006549 active site 269084006550 phosphorylation site [posttranslational modification] 269084006551 intermolecular recognition site; other site 269084006552 dimerization interface [polypeptide binding]; other site 269084006553 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 269084006554 ligand binding site [chemical binding]; other site 269084006555 flexible hinge region; other site 269084006556 heat shock protein 90; Provisional; Region: PRK05218 269084006557 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 269084006558 ATP binding site [chemical binding]; other site 269084006559 Mg2+ binding site [ion binding]; other site 269084006560 G-X-G motif; other site 269084006561 NnrS protein; Region: NnrS; cl01258 269084006562 PAS domain S-box; Region: sensory_box; TIGR00229 269084006563 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 269084006564 putative active site [active] 269084006565 heme pocket [chemical binding]; other site 269084006566 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 269084006567 PAS fold; Region: PAS_3; pfam08447 269084006568 putative active site [active] 269084006569 heme pocket [chemical binding]; other site 269084006570 PAS domain S-box; Region: sensory_box; TIGR00229 269084006571 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 269084006572 putative active site [active] 269084006573 heme pocket [chemical binding]; other site 269084006574 sensory histidine kinase AtoS; Provisional; Region: PRK11360 269084006575 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084006576 PAS fold; Region: PAS_4; pfam08448 269084006577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084006578 metal binding site [ion binding]; metal-binding site 269084006579 active site 269084006580 I-site; other site 269084006581 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 269084006582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084006583 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269084006584 Flavin Reductases; Region: FlaRed; cl00801 269084006585 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 269084006586 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269084006587 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 269084006588 Flavin Reductases; Region: FlaRed; cl00801 269084006589 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 269084006590 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 269084006591 nudix motif; other site 269084006592 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 269084006593 catalytic triad [active] 269084006594 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 269084006595 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 269084006596 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269084006597 metal binding site 2 [ion binding]; metal-binding site 269084006598 putative DNA binding helix; other site 269084006599 metal binding site 1 [ion binding]; metal-binding site 269084006600 dimer interface [polypeptide binding]; other site 269084006601 structural Zn2+ binding site [ion binding]; other site 269084006602 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269084006603 Protein of unknown function (DUF3685); Region: DUF3685; pfam12452 269084006604 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269084006605 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084006606 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 269084006607 dimer interface [polypeptide binding]; other site 269084006608 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 269084006609 dimerization interface [polypeptide binding]; other site 269084006610 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 269084006611 ATP binding site [chemical binding]; other site 269084006612 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269084006613 Int/Topo IB signature motif; other site 269084006614 active site 269084006615 catalytic residues [active] 269084006616 DNA binding site [nucleotide binding] 269084006617 YCII-related domain; Region: YCII; cl00999 269084006618 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 269084006619 SmpB-tmRNA interface; other site 269084006620 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 269084006621 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 269084006622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084006623 homodimer interface [polypeptide binding]; other site 269084006624 catalytic residue [active] 269084006625 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 269084006626 catalytic residues [active] 269084006627 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 269084006628 dimer interface [polypeptide binding]; other site 269084006629 active site 269084006630 Schiff base residues; other site 269084006631 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 269084006632 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 269084006633 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 269084006634 chaperone protein DnaJ; Provisional; Region: PRK14299 269084006635 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 269084006636 HSP70 interaction site [polypeptide binding]; other site 269084006637 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 269084006638 substrate binding site [polypeptide binding]; other site 269084006639 dimer interface [polypeptide binding]; other site 269084006640 Family of unknown function (DUF490); Region: DUF490; pfam04357 269084006641 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 269084006642 trimerization site [polypeptide binding]; other site 269084006643 active site 269084006644 Protein of function (DUF2518); Region: DUF2518; pfam10726 269084006645 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 269084006646 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 269084006647 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084006648 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084006649 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 269084006650 DNA binding residues [nucleotide binding] 269084006651 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 269084006652 threonine synthase; Validated; Region: PRK07591 269084006653 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 269084006654 homodimer interface [polypeptide binding]; other site 269084006655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084006656 catalytic residue [active] 269084006657 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 269084006658 MoaE interaction surface [polypeptide binding]; other site 269084006659 MoeB interaction surface [polypeptide binding]; other site 269084006660 thiocarboxylated glycine; other site 269084006661 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 269084006662 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 269084006663 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 269084006664 ATP binding site [chemical binding]; other site 269084006665 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 269084006666 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 269084006667 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 269084006668 Walker A/P-loop; other site 269084006669 ATP binding site [chemical binding]; other site 269084006670 Q-loop/lid; other site 269084006671 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 269084006672 ABC transporter signature motif; other site 269084006673 Walker B; other site 269084006674 D-loop; other site 269084006675 H-loop/switch region; other site 269084006676 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 269084006677 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 269084006678 active site 269084006679 substrate binding site [chemical binding]; other site 269084006680 ATP binding site [chemical binding]; other site 269084006681 Protein of unknown function DUF91; Region: DUF91; cl00709 269084006682 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 269084006683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084006684 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 269084006685 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 269084006686 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 269084006687 signal recognition particle protein; Provisional; Region: PRK10867 269084006688 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 269084006689 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 269084006690 P loop; other site 269084006691 GTP binding site [chemical binding]; other site 269084006692 Signal peptide binding domain; Region: SRP_SPB; pfam02978 269084006693 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269084006694 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269084006695 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269084006696 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 269084006697 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 269084006698 active site 269084006699 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 269084006700 putative substrate translocation pore; other site 269084006701 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269084006702 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 269084006703 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 269084006704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006705 Chlorophyll A-B binding protein; Region: Chloroa_b-bind; cl02879 269084006706 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14457 269084006707 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 269084006708 FeS/SAM binding site; other site 269084006709 Sodium:solute symporter family; Region: SSF; cl00456 269084006710 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269084006711 Coenzyme A binding pocket [chemical binding]; other site 269084006712 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 269084006713 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cl02500 269084006714 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 269084006715 Protein of unknown function (DUF2997); Region: DUF2997; pfam11211 269084006716 Protein of unknown function (DUF1257); Region: DUF1257; cl06088 269084006717 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 269084006718 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 269084006719 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 269084006720 S-adenosylmethionine binding site [chemical binding]; other site 269084006721 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 269084006722 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 269084006723 active site 269084006724 catalytic tetrad [active] 269084006725 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 269084006726 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269084006727 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084006728 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084006729 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 269084006730 DNA binding residues [nucleotide binding] 269084006731 HPP family; Region: HPP; pfam04982 269084006732 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 269084006733 active site 269084006734 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 269084006735 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 269084006736 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK07403 269084006737 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 269084006738 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 269084006739 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 269084006740 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269084006741 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 269084006742 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269084006743 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 269084006744 FAD binding domain; Region: FAD_binding_4; pfam01565 269084006745 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 269084006746 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269084006747 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 269084006748 Aminotransferase class-V; Region: Aminotran_5; pfam00266 269084006749 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269084006750 catalytic residue [active] 269084006751 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 269084006752 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 269084006753 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 269084006754 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 269084006755 Walker A/P-loop; other site 269084006756 ATP binding site [chemical binding]; other site 269084006757 Q-loop/lid; other site 269084006758 ABC transporter signature motif; other site 269084006759 Walker B; other site 269084006760 D-loop; other site 269084006761 H-loop/switch region; other site 269084006762 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 269084006763 putative ABC transporter; Region: ycf24; CHL00085 269084006764 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 269084006765 iron-sulfur cluster biosynthesis transcriptional regulator SufR; Region: SufR_cyano; TIGR02702 269084006766 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084006767 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 269084006768 putative catalytic residue [active] 269084006769 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 269084006770 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269084006771 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 269084006772 Ligand Binding Site [chemical binding]; other site 269084006773 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 269084006774 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 269084006775 lipoprotein signal peptidase; Provisional; Region: PRK14787 269084006776 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269084006777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269084006778 DNA-binding site [nucleotide binding]; DNA binding site 269084006779 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 269084006780 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084006781 homodimer interface [polypeptide binding]; other site 269084006782 catalytic residue [active] 269084006783 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 269084006784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006785 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084006786 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 269084006787 PBS lyase HEAT-like repeat; Region: HEAT_PBS; cl15388 269084006788 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 269084006789 isocitrate dehydrogenase; Validated; Region: PRK07362 269084006790 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269084006791 FAD binding domain; Region: FAD_binding_4; pfam01565 269084006792 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269084006793 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 269084006794 Cysteine-rich domain; Region: CCG; pfam02754 269084006795 Cysteine-rich domain; Region: CCG; pfam02754 269084006796 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269084006797 PAS fold; Region: PAS_4; pfam08448 269084006798 PAS fold; Region: PAS_3; pfam08447 269084006799 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 269084006800 PAS domain S-box; Region: sensory_box; TIGR00229 269084006801 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 269084006802 putative active site [active] 269084006803 heme pocket [chemical binding]; other site 269084006804 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084006805 metal binding site [ion binding]; metal-binding site 269084006806 active site 269084006807 I-site; other site 269084006808 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 269084006809 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 269084006810 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 269084006811 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 269084006812 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 269084006813 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269084006814 putative di-iron ligands [ion binding]; other site 269084006815 Domain of unknown function (DUF1818); Region: DUF1818; pfam08848 269084006816 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 269084006817 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 269084006818 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 269084006819 G1 box; other site 269084006820 GTP/Mg2+ binding site [chemical binding]; other site 269084006821 Switch I region; other site 269084006822 G2 box; other site 269084006823 Switch II region; other site 269084006824 G3 box; other site 269084006825 G4 box; other site 269084006826 Domain of unknown function (DUF697); Region: DUF697; cl12064 269084006827 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 269084006828 active site 269084006829 Zn binding site [ion binding]; other site 269084006830 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 269084006831 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 269084006832 Photosystem II reaction centre I protein (PSII 4.8 kDa protein); Region: PsbI; cl03640 269084006833 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 269084006834 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 269084006835 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 269084006836 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 269084006837 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 269084006838 NADP binding site [chemical binding]; other site 269084006839 active site 269084006840 putative substrate binding site [chemical binding]; other site 269084006841 multidrug efflux protein; Reviewed; Region: PRK01766 269084006842 MatE; Region: MatE; cl10513 269084006843 MatE; Region: MatE; cl10513 269084006844 Helix-turn-helix domains; Region: HTH; cl00088 269084006845 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 269084006846 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 269084006847 Cupin domain; Region: Cupin_2; cl09118 269084006848 Pirin-related protein [General function prediction only]; Region: COG1741 269084006849 TolB amino-terminal domain; Region: TolB_N; cl00639 269084006850 DNA Topoisomerase IV; Region: TOP4c; smart00434 269084006851 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 269084006852 CAP-like domain; other site 269084006853 active site 269084006854 primary dimer interface [polypeptide binding]; other site 269084006855 DNA gyrase, A subunit; Region: gyrA; TIGR01063 269084006856 Response regulator receiver domain; Region: Response_reg; pfam00072 269084006857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269084006858 active site 269084006859 phosphorylation site [posttranslational modification] 269084006860 intermolecular recognition site; other site 269084006861 dimerization interface [polypeptide binding]; other site 269084006862 Restriction endonuclease; Region: Mrr_cat; cl00747 269084006863 YeeE/YedE family (DUF395); Region: DUF395; cl01018 269084006864 putative inner membrane protein; Provisional; Region: PRK11099 269084006865 YeeE/YedE family (DUF395); Region: DUF395; cl01018 269084006866 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 269084006867 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 269084006868 active site residue [active] 269084006869 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 269084006870 active site residue [active] 269084006871 sulfate transport protein; Provisional; Region: cysT; CHL00187 269084006872 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 269084006873 dimer interface [polypeptide binding]; other site 269084006874 conserved gate region; other site 269084006875 putative PBP binding loops; other site 269084006876 ABC-ATPase subunit interface; other site 269084006877 sulfate transport protein; Provisional; Region: cysT; CHL00187 269084006878 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 269084006879 dimer interface [polypeptide binding]; other site 269084006880 conserved gate region; other site 269084006881 putative PBP binding loops; other site 269084006882 ABC-ATPase subunit interface; other site 269084006883 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084006884 sulfate transport protein; Provisional; Region: cysT; CHL00187 269084006885 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 269084006886 dimer interface [polypeptide binding]; other site 269084006887 conserved gate region; other site 269084006888 putative PBP binding loops; other site 269084006889 ABC-ATPase subunit interface; other site 269084006890 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269084006891 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 269084006892 putative switch regulator; other site 269084006893 non-specific DNA interactions [nucleotide binding]; other site 269084006894 DNA binding site [nucleotide binding] 269084006895 sequence specific DNA binding site [nucleotide binding]; other site 269084006896 putative cAMP binding site [chemical binding]; other site 269084006897 NIL domain; Region: NIL; cl09633 269084006898 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 269084006899 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 269084006900 dimer interface [polypeptide binding]; other site 269084006901 conserved gate region; other site 269084006902 putative PBP binding loops; other site 269084006903 ABC-ATPase subunit interface; other site 269084006904 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084006905 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 269084006906 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 269084006907 Walker A/P-loop; other site 269084006908 ATP binding site [chemical binding]; other site 269084006909 Q-loop/lid; other site 269084006910 ABC transporter signature motif; other site 269084006911 Walker B; other site 269084006912 D-loop; other site 269084006913 H-loop/switch region; other site 269084006914 TOBE domain; Region: TOBE_2; cl01440 269084006915 Psb28 protein; Region: Psb28; cl04326 269084006916 Oxygen evolving enhancer protein 3 (PsbQ); Region: PsbQ; cl05363 269084006917 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269084006918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006919 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269084006920 Protein of unknown function (DUF2930); Region: DUF2930; pfam11152 269084006921 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 269084006922 K+-transporting ATPase, c chain; Region: KdpC; cl00944 269084006923 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 269084006924 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269084006925 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 269084006926 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 269084006927 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02705 269084006928 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 269084006929 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269084006930 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 269084006931 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269084006932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084006933 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 269084006934 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269084006935 active site 269084006936 HIGH motif; other site 269084006937 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269084006938 KMSKS motif; other site 269084006939 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 269084006940 tRNA binding surface [nucleotide binding]; other site 269084006941 anticodon binding site; other site 269084006942 Circadian oscillating protein COP23; Region: COP23; pfam14218 269084006943 Ion transport protein; Region: Ion_trans; pfam00520 269084006944 Ion channel; Region: Ion_trans_2; cl11596 269084006945 Double zinc ribbon; Region: DZR; pfam12773 269084006946 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 269084006947 dimer interface [polypeptide binding]; other site 269084006948 FMN binding site [chemical binding]; other site 269084006949 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 269084006950 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 269084006951 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 269084006952 dimer interface [polypeptide binding]; other site 269084006953 active site 269084006954 heme binding site [chemical binding]; other site 269084006955 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 269084006956 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 269084006957 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 269084006958 dimer interface [polypeptide binding]; other site 269084006959 active site 269084006960 metal binding site [ion binding]; metal-binding site 269084006961 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 269084006962 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 269084006963 B12 binding site [chemical binding]; other site 269084006964 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 269084006965 FeS/SAM binding site; other site 269084006966 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 269084006967 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269084006968 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269084006969 Rubrerythrin [Energy production and conversion]; Region: COG1592 269084006970 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 269084006971 binuclear metal center [ion binding]; other site 269084006972 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269084006973 iron binding site [ion binding]; other site 269084006974 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269084006975 metal binding site 2 [ion binding]; metal-binding site 269084006976 putative DNA binding helix; other site 269084006977 metal binding site 1 [ion binding]; metal-binding site 269084006978 dimer interface [polypeptide binding]; other site 269084006979 structural Zn2+ binding site [ion binding]; other site 269084006980 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 269084006981 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 269084006982 dimerization interface [polypeptide binding]; other site 269084006983 active site 269084006984 metal binding site [ion binding]; metal-binding site 269084006985 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 269084006986 dsRNA binding site [nucleotide binding]; other site 269084006987 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084006988 GAF domain; Region: GAF; cl00853 269084006989 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269084006990 GAF domain; Region: GAF; cl00853 269084006991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269084006992 metal binding site [ion binding]; metal-binding site 269084006993 active site 269084006994 I-site; other site 269084006995 Domain of unknown function (DUF389); Region: DUF389; cl00781 269084006996 YacP-like NYN domain; Region: NYN_YacP; cl01491 269084006997 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 269084006998 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 269084006999 Walker A/P-loop; other site 269084007000 ATP binding site [chemical binding]; other site 269084007001 Q-loop/lid; other site 269084007002 ABC transporter signature motif; other site 269084007003 Walker B; other site 269084007004 D-loop; other site 269084007005 H-loop/switch region; other site 269084007006 hypothetical protein; Provisional; Region: PRK13683 269084007007 D2 subunit of photosystem II (PS II); Region: Photosystem-II_D2; cd09288 269084007008 D1 interface; other site 269084007009 chlorophyll binding site; other site 269084007010 pheophytin binding site; other site 269084007011 beta carotene binding site; other site 269084007012 cytochrome b559 beta interface; other site 269084007013 quinone binding site; other site 269084007014 cytochrome b559 alpha interface; other site 269084007015 protein J interface; other site 269084007016 protein H interface; other site 269084007017 protein X interface; other site 269084007018 core light harvesting protein interface; other site 269084007019 protein L interface; other site 269084007020 CP43 interface; other site 269084007021 protein T interface; other site 269084007022 Fe binding site [ion binding]; other site 269084007023 protein M interface; other site 269084007024 Mn-stabilizing polypeptide interface; other site 269084007025 bromide binding site; other site 269084007026 cytochrome c-550 interface; other site 269084007027 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 269084007028 aromatic arch; other site 269084007029 DCoH dimer interaction site [polypeptide binding]; other site 269084007030 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 269084007031 DCoH tetramer interaction site [polypeptide binding]; other site 269084007032 substrate binding site [chemical binding]; other site 269084007033 S-layer homology domain; Region: SLH; pfam00395 269084007034 Membrane fusogenic activity; Region: BMFP; cl01115 269084007035 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269084007036 S-layer homology domain; Region: SLH; pfam00395 269084007037 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269084007038 Rrf2 family protein; Region: rrf2_super; TIGR00738 269084007039 Helix-turn-helix domains; Region: HTH; cl00088 269084007040 cysteine synthase; Region: PLN02565 269084007041 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 269084007042 dimer interface [polypeptide binding]; other site 269084007043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269084007044 catalytic residue [active] 269084007045 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; cl02542 269084007046 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 269084007047 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 269084007048 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 269084007049 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07234 269084007050 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 269084007051 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 269084007052 Domain of unknown function (DUF897); Region: DUF897; cl01312 269084007053 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 269084007054 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 269084007055 Cytochrome c; Region: Cytochrom_C; cl11414 269084007056 Cytochrome B6-F complex subunit 5; Region: PetG; cl03637 269084007057 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 269084007058 S-adenosylmethionine binding site [chemical binding]; other site 269084007059 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 269084007060 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 269084007061 putative active site [active] 269084007062 oxyanion strand; other site 269084007063 catalytic triad [active] 269084007064 Protein of unknown function (DUF3370); Region: DUF3370; pfam11850 269084007065 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 269084007066 nucleotide binding site/active site [active] 269084007067 HIT family signature motif; other site 269084007068 catalytic residue [active] 269084007069 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 269084007070 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269084007071 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 269084007072 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269084007073 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269084007074 Domain of unknown function DUF37; Region: DUF37; cl00506 269084007075 ribosomal protein S4; Reviewed; Region: rps4; CHL00113 269084007076 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 269084007077 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 269084007078 RNA binding surface [nucleotide binding]; other site 269084007079 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269084007080 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269084007081 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 269084007082 dimer interface [polypeptide binding]; other site 269084007083 conserved gate region; other site 269084007084 putative PBP binding loops; other site 269084007085 ABC-ATPase subunit interface; other site 269084007086 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269084007087 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 269084007088 Walker A/P-loop; other site 269084007089 ATP binding site [chemical binding]; other site 269084007090 Q-loop/lid; other site 269084007091 ABC transporter signature motif; other site 269084007092 Walker B; other site 269084007093 D-loop; other site 269084007094 H-loop/switch region; other site 269084007095 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269084007096 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 269084007097 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 269084007098 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 269084007099 Walker A/P-loop; other site 269084007100 ATP binding site [chemical binding]; other site 269084007101 Q-loop/lid; other site 269084007102 ABC transporter signature motif; other site 269084007103 Walker B; other site 269084007104 D-loop; other site 269084007105 H-loop/switch region; other site 269084007106 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; cl01017 269084007107 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 269084007108 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 269084007109 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 269084007110 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 269084007111 feedback inhibition sensing region; other site 269084007112 homohexameric interface [polypeptide binding]; other site 269084007113 carbamate kinase; Reviewed; Region: PRK12686 269084007114 nucleotide binding site [chemical binding]; other site 269084007115 N-acetyl-L-glutamate binding site [chemical binding]; other site 269084007116 Protein of unknown function (DUF2854); Region: DUF2854; pfam11016 269084007117 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 269084007118 catalytic loop [active] 269084007119 iron binding site [ion binding]; other site 269084007120 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 269084007121 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 269084007122 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 269084007123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084007124 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 269084007125 putative L-serine binding site [chemical binding]; other site 269084007126 photosystem II S4 domain protein; Region: PS_II_S4; TIGR03069 269084007127 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 269084007128 RNA binding surface [nucleotide binding]; other site 269084007129 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; cl12088 269084007130 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 269084007131 tartrate dehydrogenase; Provisional; Region: PRK08194 269084007132 tellurium resistance terB-like protein; Region: terB_like; cd07177 269084007133 metal binding site [ion binding]; metal-binding site 269084007134 lipoyl synthase; Provisional; Region: PRK12928 269084007135 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 269084007136 FeS/SAM binding site; other site 269084007137 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 269084007138 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 269084007139 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07408 269084007140 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269084007141 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269084007142 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 269084007143 DNA binding residues [nucleotide binding] 269084007144 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 269084007145 putative hydrophobic ligand binding site [chemical binding]; other site 269084007146 Uncharacterized conserved protein [Function unknown]; Region: COG3349 269084007147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269084007148 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 269084007149 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 269084007150 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 269084007151 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 269084007152 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 269084007153 pseudouridine synthase; Region: TIGR00093 269084007154 active site 269084007155 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 269084007156 Protein phosphatase 2C; Region: PP2C; pfam00481 269084007157 active site 269084007158 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 269084007159 catalytic core [active] 269084007160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269084007161 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 269084007162 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269084007163 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 269084007164 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 269084007165 histidinol dehydrogenase; Region: hisD; TIGR00069 269084007166 NAD binding site [chemical binding]; other site 269084007167 dimerization interface [polypeptide binding]; other site 269084007168 product binding site; other site 269084007169 substrate binding site [chemical binding]; other site 269084007170 zinc binding site [ion binding]; other site 269084007171 catalytic residues [active] 269084007172 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 269084007173 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 269084007174 active site 269084007175 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 269084007176 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 269084007177 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 269084007178 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 269084007179 RPB1 interaction site [polypeptide binding]; other site 269084007180 RPB10 interaction site [polypeptide binding]; other site 269084007181 RPB11 interaction site [polypeptide binding]; other site 269084007182 RPB3 interaction site [polypeptide binding]; other site 269084007183 RPB12 interaction site [polypeptide binding]; other site 269084007184 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 269084007185 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 269084007186 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 269084007187 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 269084007188 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 269084007189 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 269084007190 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 269084007191 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 269084007192 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 269084007193 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 269084007194 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 269084007195 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 269084007196 DNA binding site [nucleotide binding] 269084007197 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 269084007198 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 269084007199 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 269084007200 G1 box; other site 269084007201 putative GEF interaction site [polypeptide binding]; other site 269084007202 GTP/Mg2+ binding site [chemical binding]; other site 269084007203 Switch I region; other site 269084007204 G2 box; other site 269084007205 G3 box; other site 269084007206 Switch II region; other site 269084007207 G4 box; other site 269084007208 G5 box; other site 269084007209 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 269084007210 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 269084007211 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 269084007212 E3 Ubiquitin ligase; Region: GIDE; pfam12483 269084007213 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 269084007214 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 269084007215 Walker A motif; other site 269084007216 ATP binding site [chemical binding]; other site 269084007217 Walker B motif; other site 269084007218 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 269084007219 4Fe-4S binding domain; Region: Fer4_5; pfam12801 269084007220 4Fe-4S binding domain; Region: Fer4_5; pfam12801 269084007221 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 269084007222 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 269084007223 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 269084007224 TOBE domain; Region: TOBE_2; cl01440 269084007225 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269084007226 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 269084007227 dimer interface [polypeptide binding]; other site 269084007228 conserved gate region; other site 269084007229 putative PBP binding loops; other site 269084007230 ABC-ATPase subunit interface; other site 269084007231 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 269084007232 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 269084007233 5' RNA guide strand anchoring site; other site 269084007234 active site 269084007235 RbcX protein; Region: RcbX; pfam02341 269084007236 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 269084007237 catalytic triad [active] 269084007238 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208