-- dump date 20120504_150427 -- class Genbank::misc_feature -- table misc_feature_note -- id note 498761000001 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 498761000002 PAS domain S-box; Region: sensory_box; TIGR00229 498761000003 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 498761000004 putative active site [active] 498761000005 heme pocket [chemical binding]; other site 498761000006 sensor protein ZraS; Provisional; Region: PRK10364 498761000007 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 498761000008 dimer interface [polypeptide binding]; other site 498761000009 phosphorylation site [posttranslational modification] 498761000010 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498761000011 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 498761000012 ligand binding site [chemical binding]; other site 498761000013 flexible hinge region; other site 498761000014 Helix-turn-helix domains; Region: HTH; cl00088 498761000015 4Fe-4S binding domain; Region: Fer4; cl02805 498761000016 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 498761000017 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 498761000018 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 498761000019 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 498761000020 putative uracil binding site [chemical binding]; other site 498761000021 putative active site [active] 498761000022 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000023 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000024 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000025 heat shock protein 90; Provisional; Region: PRK05218 498761000026 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 498761000027 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761000028 Helix-turn-helix domains; Region: HTH; cl00088 498761000029 Transposase; Region: DDE_Tnp_ISL3; pfam01610 498761000030 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 498761000031 TDP-binding site; other site 498761000032 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 498761000033 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000034 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000035 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000036 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761000037 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761000038 putative active site [active] 498761000039 putative NTP binding site [chemical binding]; other site 498761000040 putative nucleic acid binding site [nucleotide binding]; other site 498761000041 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761000042 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761000043 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 498761000044 Domain of unknown function, B. Theta Gene description (DUF3873); Region: DUF3873; pfam12989 498761000045 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761000046 Fic family protein [Function unknown]; Region: COG3177 498761000047 Fic/DOC family; Region: Fic; cl00960 498761000048 Mu-like prophage protein [General function prediction only]; Region: COG3941 498761000049 tape measure domain; Region: tape_meas_nterm; TIGR02675 498761000050 Protein of unknown function (DUF935); Region: DUF935; pfam06074 498761000051 RNA polymerase factor sigma-70; Validated; Region: PRK08295 498761000052 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761000053 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761000054 DNA binding residues [nucleotide binding] 498761000055 Domain of unknown function (DUF4373); Region: DUF4373; pfam14297 498761000056 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498761000057 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 498761000058 sequence-specific DNA binding site [nucleotide binding]; other site 498761000059 salt bridge; other site 498761000060 integrase; Provisional; Region: int; PHA02601 498761000061 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 498761000062 Int/Topo IB signature motif; other site 498761000063 GMP synthase; Reviewed; Region: guaA; PRK00074 498761000064 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 498761000065 AMP/PPi binding site [chemical binding]; other site 498761000066 candidate oxyanion hole; other site 498761000067 catalytic triad [active] 498761000068 potential glutamine specificity residues [chemical binding]; other site 498761000069 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 498761000070 ATP Binding subdomain [chemical binding]; other site 498761000071 Ligand Binding sites [chemical binding]; other site 498761000072 Dimerization subdomain; other site 498761000073 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761000074 active site 498761000075 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 498761000076 MPT binding site; other site 498761000077 trimer interface [polypeptide binding]; other site 498761000078 MOSC domain; Region: MOSC; pfam03473 498761000079 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 498761000080 trimer interface [polypeptide binding]; other site 498761000081 dimer interface [polypeptide binding]; other site 498761000082 putative active site [active] 498761000083 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 498761000084 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 498761000085 FeS/SAM binding site; other site 498761000086 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 498761000087 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 498761000088 active site 498761000089 nucleophile elbow; other site 498761000090 Nitrogen regulatory protein P-II; Region: P-II; cl00412 498761000091 Nitrogen regulatory protein P-II; Region: P-II; smart00938 498761000092 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 498761000093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 498761000094 ANTAR domain; Region: ANTAR; cl04297 498761000095 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 498761000096 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 498761000097 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498761000098 active site 498761000099 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 498761000100 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 498761000101 dimer interface [polypeptide binding]; other site 498761000102 active site 498761000103 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 498761000104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761000105 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 498761000106 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 498761000107 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 498761000108 substrate binding site [chemical binding]; other site 498761000109 oxyanion hole (OAH) forming residues; other site 498761000110 trimer interface [polypeptide binding]; other site 498761000111 Helix-turn-helix domains; Region: HTH; cl00088 498761000112 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 498761000113 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 498761000114 AMP-binding enzyme; Region: AMP-binding; cl15778 498761000115 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761000116 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 498761000117 pyruvate kinase; Provisional; Region: PRK06354 498761000118 domain interfaces; other site 498761000119 active site 498761000120 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 498761000121 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 498761000122 active site 498761000123 ADP/pyrophosphate binding site [chemical binding]; other site 498761000124 dimerization interface [polypeptide binding]; other site 498761000125 allosteric effector site; other site 498761000126 fructose-1,6-bisphosphate binding site; other site 498761000127 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 498761000128 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 498761000129 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 498761000130 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 498761000131 Tryptophan RNA-binding attenuator protein; Region: TrpBP; cl03437 498761000132 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 498761000133 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 498761000134 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 498761000135 generic binding surface II; other site 498761000136 generic binding surface I; other site 498761000137 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 498761000138 putative deacylase active site [active] 498761000139 FeoA domain; Region: FeoA; cl00838 498761000140 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 498761000141 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498761000142 G1 box; other site 498761000143 GTP/Mg2+ binding site [chemical binding]; other site 498761000144 Switch I region; other site 498761000145 G2 box; other site 498761000146 G3 box; other site 498761000147 Switch II region; other site 498761000148 G4 box; other site 498761000149 G5 box; other site 498761000150 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 498761000151 Nucleoside recognition; Region: Gate; cl00486 498761000152 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 498761000153 Nucleoside recognition; Region: Gate; cl00486 498761000154 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 498761000155 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761000156 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 498761000157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498761000158 Coenzyme A binding pocket [chemical binding]; other site 498761000159 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 498761000160 AMP-binding domain protein; Validated; Region: PRK08315 498761000161 AMP-binding enzyme; Region: AMP-binding; cl15778 498761000162 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761000163 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 498761000164 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 498761000165 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08248 498761000166 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 498761000167 homodimer interface [polypeptide binding]; other site 498761000168 substrate-cofactor binding pocket; other site 498761000169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761000170 catalytic residue [active] 498761000171 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761000172 VanW like protein; Region: VanW; pfam04294 498761000173 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 498761000174 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; cd00363 498761000175 active site 498761000176 ADP/pyrophosphate binding site [chemical binding]; other site 498761000177 dimerization interface [polypeptide binding]; other site 498761000178 allosteric effector site; other site 498761000179 fructose-1,6-bisphosphate binding site; other site 498761000180 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 498761000181 aconitate hydratase; Validated; Region: PRK07229 498761000182 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 498761000183 substrate binding site [chemical binding]; other site 498761000184 ligand binding site [chemical binding]; other site 498761000185 Bacterial Aconitase-like swivel domain. Aconitase (aconitate hydratase or citrate hydrolyase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. Cis-aconitate is formed as an intermediate product during the course...; Region: AcnA_Bact_Swivel; cd01579 498761000186 substrate binding site [chemical binding]; other site 498761000187 Protein of unknown function (DUF503); Region: DUF503; cl00669 498761000188 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 498761000189 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 498761000190 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 498761000191 glycogen synthase; Provisional; Region: glgA; PRK00654 498761000192 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 498761000193 ADP-binding pocket [chemical binding]; other site 498761000194 homodimer interface [polypeptide binding]; other site 498761000195 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 498761000196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498761000197 Coenzyme A binding pocket [chemical binding]; other site 498761000198 endonuclease IV; Provisional; Region: PRK01060 498761000199 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 498761000200 AP (apurinic/apyrimidinic) site pocket; other site 498761000201 DNA interaction; other site 498761000202 Metal-binding active site; metal-binding site 498761000203 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 498761000204 thiamine phosphate binding site [chemical binding]; other site 498761000205 active site 498761000206 pyrophosphate binding site [ion binding]; other site 498761000207 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 498761000208 active site 498761000209 thiamine phosphate binding site [chemical binding]; other site 498761000210 pyrophosphate binding site [ion binding]; other site 498761000211 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 498761000212 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 498761000213 minor groove reading motif; other site 498761000214 helix-hairpin-helix signature motif; other site 498761000215 substrate binding pocket [chemical binding]; other site 498761000216 active site 498761000217 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 498761000218 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 498761000219 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_12; cd06347 498761000220 putative ligand binding site [chemical binding]; other site 498761000221 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 498761000222 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 498761000223 Rubrerythrin [Energy production and conversion]; Region: COG1592 498761000224 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 498761000225 binuclear metal center [ion binding]; other site 498761000226 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 498761000227 iron binding site [ion binding]; other site 498761000228 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 498761000229 active site 498761000230 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 498761000231 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 498761000232 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761000233 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761000234 catalytic residues [active] 498761000235 catalytic nucleophile [active] 498761000236 Recombinase; Region: Recombinase; pfam07508 498761000237 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761000238 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 498761000239 Recombinase; Region: Recombinase; pfam07508 498761000240 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498761000241 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761000242 catalytic residues [active] 498761000243 catalytic nucleophile [active] 498761000244 Recombinase; Region: Recombinase; pfam07508 498761000245 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761000246 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761000247 catalytic residues [active] 498761000248 catalytic nucleophile [active] 498761000249 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498761000250 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 498761000251 Immunoglobulin I-set domain; Region: I-set; pfam07679 498761000252 Immunoglobulin domain; Region: Ig; cd00096 498761000253 Immunoglobulin I-set domain; Region: I-set; pfam07679 498761000254 Immunoglobulin domain; Region: Ig; cd00096 498761000255 Immunoglobulin domain; Region: Ig; cd00096 498761000256 Cadherin repeat-like domain; Region: CA_like; cl15786 498761000257 Immunoglobulin domain; Region: Ig; cd00096 498761000258 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 498761000259 S-layer homology domain; Region: SLH; pfam00395 498761000260 S-layer homology domain; Region: SLH; pfam00395 498761000261 S-layer homology domain; Region: SLH; pfam00395 498761000262 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 498761000263 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 498761000264 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 498761000265 Immunoglobulin I-set domain; Region: I-set; pfam07679 498761000266 Immunoglobulin domain; Region: Ig; cd00096 498761000267 Cadherin repeat-like domain; Region: CA_like; cl15786 498761000268 Immunoglobulin domain; Region: Ig; cd00096 498761000269 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 498761000270 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 498761000271 S-layer homology domain; Region: SLH; pfam00395 498761000272 S-layer homology domain; Region: SLH; pfam00395 498761000273 S-layer homology domain; Region: SLH; pfam00395 498761000274 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 498761000275 active site 498761000276 dimerization interface [polypeptide binding]; other site 498761000277 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000278 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000279 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000280 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000281 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000282 HYR domain; Region: HYR; pfam02494 498761000283 HYR domain; Region: HYR; pfam02494 498761000284 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 498761000285 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 498761000286 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000287 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 498761000288 S-layer homology domain; Region: SLH; pfam00395 498761000289 S-layer homology domain; Region: SLH; pfam00395 498761000290 S-layer homology domain; Region: SLH; pfam00395 498761000291 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 498761000292 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 498761000293 active site 498761000294 dimerization interface [polypeptide binding]; other site 498761000295 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 498761000296 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 498761000297 S-layer homology domain; Region: SLH; pfam00395 498761000298 S-layer homology domain; Region: SLH; pfam00395 498761000299 S-layer homology domain; Region: SLH; pfam00395 498761000300 Phage Tail Collar Domain; Region: Collar; pfam07484 498761000301 Phage Tail Collar Domain; Region: Collar; pfam07484 498761000302 Phage Tail Collar Domain; Region: Collar; pfam07484 498761000303 Immunoglobulin I-set domain; Region: I-set; pfam07679 498761000304 Immunoglobulin domain; Region: Ig; cl11960 498761000305 Immunoglobulin I-set domain; Region: I-set; pfam07679 498761000306 Immunoglobulin domain; Region: Ig; cd00096 498761000307 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 498761000308 Immunoglobulin domain; Region: Ig; cd00096 498761000309 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 498761000310 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 498761000311 S-layer homology domain; Region: SLH; pfam00395 498761000312 S-layer homology domain; Region: SLH; pfam00395 498761000313 S-layer homology domain; Region: SLH; pfam00395 498761000314 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761000315 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761000316 putative active site [active] 498761000317 putative NTP binding site [chemical binding]; other site 498761000318 putative nucleic acid binding site [nucleotide binding]; other site 498761000319 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 498761000320 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 498761000321 dimer interface [polypeptide binding]; other site 498761000322 phosphorylation site [posttranslational modification] 498761000323 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 498761000324 ATP binding site [chemical binding]; other site 498761000325 Mg2+ binding site [ion binding]; other site 498761000326 G-X-G motif; other site 498761000327 Response regulator receiver domain; Region: Response_reg; pfam00072 498761000328 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 498761000329 active site 498761000330 phosphorylation site [posttranslational modification] 498761000331 intermolecular recognition site; other site 498761000332 dimerization interface [polypeptide binding]; other site 498761000333 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761000334 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 498761000335 active site 498761000336 phosphorylation site [posttranslational modification] 498761000337 intermolecular recognition site; other site 498761000338 dimerization interface [polypeptide binding]; other site 498761000339 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 498761000340 DNA binding site [nucleotide binding] 498761000341 Domain of unknown function (DUF955); Region: DUF955; cl01076 498761000342 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 498761000343 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 498761000344 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 498761000345 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 498761000346 HsdM N-terminal domain; Region: HsdM_N; pfam12161 498761000347 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761000348 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 498761000349 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 498761000350 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 498761000351 ATP binding site [chemical binding]; other site 498761000352 putative Mg++ binding site [ion binding]; other site 498761000353 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000354 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 498761000355 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761000356 catalytic residues [active] 498761000357 Recombinase; Region: Recombinase; pfam07508 498761000358 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761000359 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761000360 catalytic nucleophile [active] 498761000361 Recombinase; Region: Recombinase; pfam07508 498761000362 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761000363 Helix-turn-helix domains; Region: HTH; cl00088 498761000364 DNA-binding site [nucleotide binding]; DNA binding site 498761000365 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 498761000366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000367 Walker A motif; other site 498761000368 ATP binding site [chemical binding]; other site 498761000369 Walker B motif; other site 498761000370 CHC2 zinc finger; Region: zf-CHC2; cl15369 498761000371 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 498761000372 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 498761000373 active site 498761000374 metal binding site [ion binding]; metal-binding site 498761000375 interdomain interaction site; other site 498761000376 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 498761000377 Sel1 repeat; Region: Sel1; cl02723 498761000378 Sel1 repeat; Region: Sel1; cl02723 498761000379 Sel1 repeat; Region: Sel1; cl02723 498761000380 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761000381 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 498761000382 putative active site pocket [active] 498761000383 dimerization interface [polypeptide binding]; other site 498761000384 putative catalytic residue [active] 498761000385 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 498761000386 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761000387 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 498761000388 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 498761000389 Int/Topo IB signature motif; other site 498761000390 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 498761000391 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761000392 active site 498761000393 DNA binding site [nucleotide binding] 498761000394 Int/Topo IB signature motif; other site 498761000395 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761000396 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761000397 active site 498761000398 DNA binding site [nucleotide binding] 498761000399 Int/Topo IB signature motif; other site 498761000400 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 498761000401 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 498761000402 AAA-like domain; Region: AAA_10; pfam12846 498761000403 Domain of unknown function DUF87; Region: DUF87; pfam01935 498761000404 Fic/DOC family; Region: Fic; cl00960 498761000405 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 498761000406 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 498761000407 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761000408 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761000409 active site 498761000410 DNA binding site [nucleotide binding] 498761000411 Int/Topo IB signature motif; other site 498761000412 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761000413 active site 498761000414 DNA binding site [nucleotide binding] 498761000415 Int/Topo IB signature motif; other site 498761000416 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 498761000417 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 498761000418 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761000419 active site 498761000420 DNA binding site [nucleotide binding] 498761000421 Int/Topo IB signature motif; other site 498761000422 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 498761000423 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 498761000424 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 498761000425 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 498761000426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000427 Walker A motif; other site 498761000428 ATP binding site [chemical binding]; other site 498761000429 Walker B motif; other site 498761000430 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498761000431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000432 SAF-like; Region: SAF_2; pfam13144 498761000433 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 498761000434 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 498761000435 SpoVG; Region: SpoVG; cl00915 498761000436 YodL-like; Region: YodL; pfam14191 498761000437 S-layer homology domain; Region: SLH; pfam00395 498761000438 S-layer homology domain; Region: SLH; pfam00395 498761000439 S-layer homology domain; Region: SLH; pfam00395 498761000440 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 498761000441 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761000442 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 498761000443 Response regulator receiver domain; Region: Response_reg; pfam00072 498761000444 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 498761000445 active site 498761000446 phosphorylation site [posttranslational modification] 498761000447 intermolecular recognition site; other site 498761000448 dimerization interface [polypeptide binding]; other site 498761000449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761000450 metal binding site [ion binding]; metal-binding site 498761000451 active site 498761000452 I-site; other site 498761000453 Cache domain; Region: Cache_1; pfam02743 498761000454 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 498761000455 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 498761000456 dimer interface [polypeptide binding]; other site 498761000457 phosphorylation site [posttranslational modification] 498761000458 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 498761000459 ATP binding site [chemical binding]; other site 498761000460 Mg2+ binding site [ion binding]; other site 498761000461 G-X-G motif; other site 498761000462 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498761000463 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 498761000464 active site 498761000465 phosphorylation site [posttranslational modification] 498761000466 intermolecular recognition site; other site 498761000467 dimerization interface [polypeptide binding]; other site 498761000468 Response regulator receiver domain; Region: Response_reg; pfam00072 498761000469 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 498761000470 active site 498761000471 phosphorylation site [posttranslational modification] 498761000472 intermolecular recognition site; other site 498761000473 dimerization interface [polypeptide binding]; other site 498761000474 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 498761000475 oligoendopeptidase F; Region: pepF; TIGR00181 498761000476 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 498761000477 active site 498761000478 Zn binding site [ion binding]; other site 498761000479 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 498761000480 Cache domain; Region: Cache_1; pfam02743 498761000481 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 498761000482 dimerization interface [polypeptide binding]; other site 498761000483 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761000484 dimer interface [polypeptide binding]; other site 498761000485 putative CheW interface [polypeptide binding]; other site 498761000486 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 498761000487 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 498761000488 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 498761000489 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 498761000490 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 498761000491 DHHA2 domain; Region: DHHA2; pfam02833 498761000492 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498761000493 Cation efflux family; Region: Cation_efflux; cl00316 498761000494 S-layer homology domain; Region: SLH; pfam00395 498761000495 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 498761000496 S-layer homology domain; Region: SLH; pfam00395 498761000497 Predicted Fe-S protein [General function prediction only]; Region: COG2000 498761000498 Putative Fe-S cluster; Region: FeS; pfam04060 498761000499 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000500 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 498761000501 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000502 Walker A/P-loop; other site 498761000503 ATP binding site [chemical binding]; other site 498761000504 Q-loop/lid; other site 498761000505 ABC transporter signature motif; other site 498761000506 Walker B; other site 498761000507 D-loop; other site 498761000508 H-loop/switch region; other site 498761000509 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 498761000510 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761000511 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 498761000512 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 498761000513 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498761000514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761000515 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 498761000516 DNA binding residues [nucleotide binding] 498761000517 Protein of unknown function DUF45; Region: DUF45; cl00636 498761000518 LexA repressor; Validated; Region: PRK00215 498761000519 Helix-turn-helix domains; Region: HTH; cl00088 498761000520 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 498761000521 Catalytic site [active] 498761000522 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 498761000523 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 498761000524 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 498761000525 Peptidase family U32; Region: Peptidase_U32; cl03113 498761000526 YceG-like family; Region: YceG; pfam02618 498761000527 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 498761000528 dimerization interface [polypeptide binding]; other site 498761000529 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 498761000530 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 498761000531 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 498761000532 active site 498761000533 catalytic tetrad [active] 498761000534 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498761000535 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498761000536 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 498761000537 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 498761000538 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 498761000539 motif 1; other site 498761000540 active site 498761000541 motif 2; other site 498761000542 motif 3; other site 498761000543 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 498761000544 DHHA1 domain; Region: DHHA1; pfam02272 498761000545 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 498761000546 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 498761000547 active site 498761000548 C-terminal domain interface [polypeptide binding]; other site 498761000549 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 498761000550 active site 498761000551 N-terminal domain interface [polypeptide binding]; other site 498761000552 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000553 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000554 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000555 deoxyguanosinetriphosphate triphosphohydrolase, putative; Region: dGTP_triPase; TIGR01353 498761000556 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761000557 Zn2+ binding site [ion binding]; other site 498761000558 Mg2+ binding site [ion binding]; other site 498761000559 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 498761000560 putative transposase OrfB; Reviewed; Region: PHA02517 498761000561 HTH-like domain; Region: HTH_21; pfam13276 498761000562 Integrase core domain; Region: rve; cl01316 498761000563 Integrase core domain; Region: rve_3; cl15866 498761000564 Helix-turn-helix domains; Region: HTH; cl00088 498761000565 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000566 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000567 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000568 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000569 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000570 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000571 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498761000572 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498761000573 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 498761000574 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 498761000575 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 498761000576 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 498761000577 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000578 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 498761000579 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 498761000580 Domain of unknown function DUF77; Region: DUF77; cl00307 498761000581 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 498761000582 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 498761000583 Ligand Binding Site [chemical binding]; other site 498761000584 Transposase domain (DUF772); Region: DUF772; pfam05598 498761000585 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761000586 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761000587 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 498761000588 AAA domain; Region: AAA_32; pfam13654 498761000589 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761000590 Rod binding protein; Region: Rod-binding; cl01626 498761000591 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 498761000592 dimerization interface [polypeptide binding]; other site 498761000593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761000594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761000595 dimer interface [polypeptide binding]; other site 498761000596 putative CheW interface [polypeptide binding]; other site 498761000597 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 498761000598 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 498761000599 Walker A/P-loop; other site 498761000600 ATP binding site [chemical binding]; other site 498761000601 Q-loop/lid; other site 498761000602 ABC transporter signature motif; other site 498761000603 Walker B; other site 498761000604 D-loop; other site 498761000605 H-loop/switch region; other site 498761000606 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 498761000607 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 498761000608 Walker A/P-loop; other site 498761000609 ATP binding site [chemical binding]; other site 498761000610 Q-loop/lid; other site 498761000611 ABC transporter signature motif; other site 498761000612 Walker B; other site 498761000613 D-loop; other site 498761000614 H-loop/switch region; other site 498761000615 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 498761000616 TM-ABC transporter signature motif; other site 498761000617 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 498761000618 TM-ABC transporter signature motif; other site 498761000619 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 498761000620 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_12; cd06347 498761000621 putative ligand binding site [chemical binding]; other site 498761000622 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 498761000623 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_12; cd06347 498761000624 putative ligand binding site [chemical binding]; other site 498761000625 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 498761000626 active site 498761000627 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 498761000628 dimer interface [polypeptide binding]; other site 498761000629 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 498761000630 Ligand Binding Site [chemical binding]; other site 498761000631 Molecular Tunnel; other site 498761000632 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 498761000633 Protein export membrane protein; Region: SecD_SecF; cl14618 498761000634 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 498761000635 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 498761000636 dimer interface [polypeptide binding]; other site 498761000637 PYR/PP interface [polypeptide binding]; other site 498761000638 TPP binding site [chemical binding]; other site 498761000639 substrate binding site [chemical binding]; other site 498761000640 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 498761000641 TPP-binding site; other site 498761000642 4Fe-4S binding domain; Region: Fer4; cl02805 498761000643 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761000644 AMP-binding enzyme; Region: AMP-binding; cl15778 498761000645 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 498761000646 Spore germination protein; Region: Spore_permease; cl15802 498761000647 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 498761000648 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498761000649 Predicted GTPase [General function prediction only]; Region: COG0218 498761000650 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 498761000651 G1 box; other site 498761000652 GTP/Mg2+ binding site [chemical binding]; other site 498761000653 Switch I region; other site 498761000654 G2 box; other site 498761000655 G3 box; other site 498761000656 Switch II region; other site 498761000657 G4 box; other site 498761000658 G5 box; other site 498761000659 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 498761000660 Found in ATP-dependent protease La (LON); Region: LON; smart00464 498761000661 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 498761000662 Walker A motif; other site 498761000663 ATP binding site [chemical binding]; other site 498761000664 Walker B motif; other site 498761000665 arginine finger; other site 498761000666 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761000667 ATP-dependent protease LonB; Region: spore_lonB; TIGR02902 498761000668 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 498761000669 Walker A motif; other site 498761000670 ATP binding site [chemical binding]; other site 498761000671 Walker B motif; other site 498761000672 arginine finger; other site 498761000673 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761000674 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 498761000675 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 498761000676 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 498761000677 Walker A motif; other site 498761000678 ATP binding site [chemical binding]; other site 498761000679 Walker B motif; other site 498761000680 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 498761000681 Clp protease; Region: CLP_protease; pfam00574 498761000682 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 498761000683 oligomer interface [polypeptide binding]; other site 498761000684 active site residues [active] 498761000685 trigger factor; Provisional; Region: tig; PRK01490 498761000686 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 498761000687 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 498761000688 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 498761000689 active site 498761000690 dimerization interface [polypeptide binding]; other site 498761000691 ribonuclease PH; Reviewed; Region: rph; PRK00173 498761000692 Ribonuclease PH; Region: RNase_PH_bact; cd11362 498761000693 hexamer interface [polypeptide binding]; other site 498761000694 active site 498761000695 Fumarase C-terminus; Region: Fumerase_C; cl00795 498761000696 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 498761000697 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 498761000698 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498761000699 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 498761000700 Sporulation and spore germination; Region: Germane; cl11253 498761000701 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 498761000702 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 498761000703 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 498761000704 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 498761000705 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 498761000706 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 498761000707 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 498761000708 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 498761000709 active site 498761000710 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498761000711 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 498761000712 ATP binding site [chemical binding]; other site 498761000713 putative Mg++ binding site [ion binding]; other site 498761000714 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 498761000715 nucleotide binding region [chemical binding]; other site 498761000716 ATP-binding site [chemical binding]; other site 498761000717 Uncharacterized conserved protein [Function unknown]; Region: COG1284 498761000718 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498761000719 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498761000720 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 498761000721 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498761000722 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761000723 Zn2+ binding site [ion binding]; other site 498761000724 Mg2+ binding site [ion binding]; other site 498761000725 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 498761000726 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761000727 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761000728 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 498761000729 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 498761000730 anti sigma factor interaction site; other site 498761000731 regulatory phosphorylation site [posttranslational modification]; other site 498761000732 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 498761000733 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761000734 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761000735 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 498761000736 anti sigma factor interaction site; other site 498761000737 regulatory phosphorylation site [posttranslational modification]; other site 498761000738 Flagellin N-methylase; Region: FliB; cl00497 498761000739 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 498761000740 active site 498761000741 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 498761000742 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 498761000743 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 498761000744 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 498761000745 diiron binding motif [ion binding]; other site 498761000746 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 498761000747 Rubredoxin; Region: Rubredoxin; pfam00301 498761000748 iron binding site [ion binding]; other site 498761000749 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 498761000750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761000751 Uncharacterized conserved protein [Function unknown]; Region: COG1565 498761000752 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 498761000753 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 498761000754 E3 interaction surface; other site 498761000755 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 498761000756 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 498761000757 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498761000758 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 498761000759 Walker A/P-loop; other site 498761000760 ATP binding site [chemical binding]; other site 498761000761 Q-loop/lid; other site 498761000762 ABC transporter signature motif; other site 498761000763 Walker B; other site 498761000764 D-loop; other site 498761000765 H-loop/switch region; other site 498761000766 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498761000767 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498761000768 FtsX-like permease family; Region: FtsX; cl15850 498761000769 Cytochrome c552; Region: Cytochrom_C552; pfam02335 498761000770 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 498761000771 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761000772 Zn2+ binding site [ion binding]; other site 498761000773 Mg2+ binding site [ion binding]; other site 498761000774 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 498761000775 Zn binding site [ion binding]; other site 498761000776 Integral membrane protein TerC family; Region: TerC; cl10468 498761000777 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000778 AAA domain; Region: AAA_21; pfam13304 498761000779 Walker A/P-loop; other site 498761000780 ATP binding site [chemical binding]; other site 498761000781 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13651 498761000782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000783 Walker B; other site 498761000784 D-loop; other site 498761000785 H-loop/switch region; other site 498761000786 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 498761000787 heme-binding site [chemical binding]; other site 498761000788 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761000789 dimer interface [polypeptide binding]; other site 498761000790 putative CheW interface [polypeptide binding]; other site 498761000791 Sporulation and spore germination; Region: Germane; cl11253 498761000792 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 498761000793 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 498761000794 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 498761000795 ligand binding site [chemical binding]; other site 498761000796 flexible hinge region; other site 498761000797 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 498761000798 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 498761000799 metal binding triad; other site 498761000800 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 498761000801 active site 498761000802 catalytic site [active] 498761000803 substrate binding site [chemical binding]; other site 498761000804 OpgC protein; Region: OpgC_C; cl00792 498761000805 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 498761000806 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 498761000807 putative active site [active] 498761000808 putative metal binding site [ion binding]; other site 498761000809 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 498761000810 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 498761000811 malonyl-CoA binding site [chemical binding]; other site 498761000812 dimer interface [polypeptide binding]; other site 498761000813 active site 498761000814 product binding site; other site 498761000815 Phospholipid methyltransferase; Region: PEMT; cl00763 498761000816 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 498761000817 active site 498761000818 Response regulator receiver domain; Region: Response_reg; pfam00072 498761000819 phosphorylation site [posttranslational modification] 498761000820 intermolecular recognition site; other site 498761000821 dimerization interface [polypeptide binding]; other site 498761000822 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 498761000823 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 498761000824 Walker A motif; other site 498761000825 ATP binding site [chemical binding]; other site 498761000826 Walker B motif; other site 498761000827 arginine finger; other site 498761000828 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 498761000829 Helix-turn-helix domains; Region: HTH; cl00088 498761000830 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 498761000831 Na binding site [ion binding]; other site 498761000832 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000833 Asp23 family; Region: Asp23; cl00574 498761000834 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06916 498761000835 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 498761000836 inhibitor-cofactor binding pocket; inhibition site 498761000837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761000838 catalytic residue [active] 498761000839 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 498761000840 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 498761000841 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 498761000842 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 498761000843 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 498761000844 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 498761000845 RNA binding site [nucleotide binding]; other site 498761000846 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 498761000847 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 498761000848 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 498761000849 motif II; other site 498761000850 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 498761000851 THUMP domain; Region: THUMP; cl12076 498761000852 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761000853 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498761000854 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 498761000855 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761000856 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761000857 putative active site [active] 498761000858 putative NTP binding site [chemical binding]; other site 498761000859 putative nucleic acid binding site [nucleotide binding]; other site 498761000860 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761000861 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 498761000862 oxaloacetate decarboxylase; Provisional; Region: PRK12331 498761000863 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 498761000864 active site 498761000865 catalytic residues [active] 498761000866 metal binding site [ion binding]; metal-binding site 498761000867 homodimer binding site [polypeptide binding]; other site 498761000868 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 498761000869 carboxyltransferase (CT) interaction site; other site 498761000870 biotinylation site [posttranslational modification]; other site 498761000871 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 498761000872 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 498761000873 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 498761000874 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 498761000875 B12 binding site [chemical binding]; other site 498761000876 cobalt ligand [ion binding]; other site 498761000877 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 498761000878 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 498761000879 dimer interface [polypeptide binding]; other site 498761000880 substrate binding site [chemical binding]; other site 498761000881 metal binding site [ion binding]; metal-binding site 498761000882 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 498761000883 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 498761000884 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 498761000885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761000886 CoA-ligase; Region: Ligase_CoA; cl02894 498761000887 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 498761000888 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761000889 CoA-ligase; Region: Ligase_CoA; cl02894 498761000890 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 498761000891 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 498761000892 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 498761000893 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 498761000894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761000895 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 498761000896 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 498761000897 putative Iron-sulfur protein interface [polypeptide binding]; other site 498761000898 proximal heme binding site [chemical binding]; other site 498761000899 distal heme binding site [chemical binding]; other site 498761000900 putative dimer interface [polypeptide binding]; other site 498761000901 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 498761000902 L-lactate permease; Region: Lactate_perm; cl00701 498761000903 glycolate transporter; Provisional; Region: PRK09695 498761000904 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 498761000905 catalytic residues [active] 498761000906 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 498761000907 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 498761000908 Cysteine-rich domain; Region: CCG; pfam02754 498761000909 Cysteine-rich domain; Region: CCG; pfam02754 498761000910 FAD binding domain; Region: FAD_binding_4; pfam01565 498761000911 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 498761000912 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 498761000913 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 498761000914 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 498761000915 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 498761000916 Cysteine-rich domain; Region: CCG; pfam02754 498761000917 Cysteine-rich domain; Region: CCG; pfam02754 498761000918 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 498761000919 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 498761000920 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761000921 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 498761000922 TPP-binding site [chemical binding]; other site 498761000923 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 498761000924 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 498761000925 dimer interface [polypeptide binding]; other site 498761000926 PYR/PP interface [polypeptide binding]; other site 498761000927 TPP binding site [chemical binding]; other site 498761000928 substrate binding site [chemical binding]; other site 498761000929 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498761000930 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498761000931 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498761000932 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498761000933 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761000934 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 498761000935 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761000936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761000937 Type III pantothenate kinase; Region: Pan_kinase; cl09130 498761000938 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 498761000939 Predicted amidohydrolase [General function prediction only]; Region: COG0388 498761000940 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 498761000941 putative active site [active] 498761000942 catalytic triad [active] 498761000943 putative dimer interface [polypeptide binding]; other site 498761000944 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 498761000945 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 498761000946 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 498761000947 Integral membrane protein TerC family; Region: TerC; cl10468 498761000948 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 498761000949 Uncharacterized conserved protein [Function unknown]; Region: COG2966 498761000950 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 498761000951 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 498761000952 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761000953 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 498761000954 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498761000955 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498761000956 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761000957 active site 498761000958 ATP binding site [chemical binding]; other site 498761000959 substrate binding site [chemical binding]; other site 498761000960 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 498761000961 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 498761000962 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 498761000963 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761000964 Walker A/P-loop; other site 498761000965 ATP binding site [chemical binding]; other site 498761000966 Q-loop/lid; other site 498761000967 ABC transporter signature motif; other site 498761000968 Walker B; other site 498761000969 D-loop; other site 498761000970 H-loop/switch region; other site 498761000971 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 498761000972 dimer interface [polypeptide binding]; other site 498761000973 conserved gate region; other site 498761000974 putative PBP binding loops; other site 498761000975 ABC-ATPase subunit interface; other site 498761000976 Helix-turn-helix domains; Region: HTH; cl00088 498761000977 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761000978 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 498761000979 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761000980 active site 498761000981 ATP binding site [chemical binding]; other site 498761000982 substrate binding site [chemical binding]; other site 498761000983 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 498761000984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 498761000985 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 498761000986 Cupin domain; Region: Cupin_2; cl09118 498761000987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 498761000988 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 498761000989 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498761000990 Stage V sporulation protein AE1; Region: SpoVAE; pfam14097 498761000991 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 498761000992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761000993 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498761000994 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 498761000995 DNA binding residues [nucleotide binding] 498761000996 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 498761000997 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 498761000998 ATP binding site [chemical binding]; other site 498761000999 Mg2+ binding site [ion binding]; other site 498761001000 G-X-G motif; other site 498761001001 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 498761001002 anti sigma factor interaction site; other site 498761001003 regulatory phosphorylation site [posttranslational modification]; other site 498761001004 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 498761001005 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761001006 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 498761001007 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 498761001008 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 498761001009 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 498761001010 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 498761001011 Sulfatase; Region: Sulfatase; cl10460 498761001012 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 498761001013 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761001014 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761001015 active site 498761001016 DNA binding site [nucleotide binding] 498761001017 Int/Topo IB signature motif; other site 498761001018 manganese transport transcriptional regulator; Provisional; Region: PRK03902 498761001019 Helix-turn-helix domains; Region: HTH; cl00088 498761001020 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 498761001021 Integral membrane protein DUF95; Region: DUF95; cl00572 498761001022 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 498761001023 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 498761001024 dimer interface [polypeptide binding]; other site 498761001025 ADP-ribose binding site [chemical binding]; other site 498761001026 active site 498761001027 nudix motif; other site 498761001028 metal binding site [ion binding]; metal-binding site 498761001029 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 498761001030 peptidase T-like protein; Region: PepT-like; TIGR01883 498761001031 metal binding site [ion binding]; metal-binding site 498761001032 putative dimer interface [polypeptide binding]; other site 498761001033 GAF domain; Region: GAF_2; pfam13185 498761001034 GAF domain; Region: GAF; cl15785 498761001035 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001036 Zn2+ binding site [ion binding]; other site 498761001037 Mg2+ binding site [ion binding]; other site 498761001038 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 498761001039 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 498761001040 dimerization interface [polypeptide binding]; other site 498761001041 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761001042 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761001043 dimer interface [polypeptide binding]; other site 498761001044 putative CheW interface [polypeptide binding]; other site 498761001045 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 498761001046 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 498761001047 active site 498761001048 phosphorylation site [posttranslational modification] 498761001049 intermolecular recognition site; other site 498761001050 dimerization interface [polypeptide binding]; other site 498761001051 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 498761001052 stage IV sporulation protein B; Region: spore_IV_B; TIGR02860 498761001053 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 498761001054 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 498761001055 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 498761001056 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 498761001057 Walker A/P-loop; other site 498761001058 ATP binding site [chemical binding]; other site 498761001059 Q-loop/lid; other site 498761001060 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 498761001061 ABC transporter signature motif; other site 498761001062 Walker B; other site 498761001063 D-loop; other site 498761001064 H-loop/switch region; other site 498761001065 arginine repressor; Provisional; Region: argR; PRK00441 498761001066 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 498761001067 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 498761001068 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001070 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 498761001071 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 498761001072 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 498761001073 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 498761001074 RNA binding surface [nucleotide binding]; other site 498761001075 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001076 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 498761001077 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 498761001078 TPP-binding site; other site 498761001079 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 498761001080 PYR/PP interface [polypeptide binding]; other site 498761001081 dimer interface [polypeptide binding]; other site 498761001082 TPP binding site [chemical binding]; other site 498761001083 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498761001084 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 498761001085 phosphopeptide binding site; other site 498761001086 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 498761001087 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 498761001088 substrate binding pocket [chemical binding]; other site 498761001089 chain length determination region; other site 498761001090 substrate-Mg2+ binding site; other site 498761001091 catalytic residues [active] 498761001092 aspartate-rich region 1; other site 498761001093 active site lid residues [active] 498761001094 aspartate-rich region 2; other site 498761001095 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 498761001096 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 498761001097 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 498761001098 generic binding surface II; other site 498761001099 generic binding surface I; other site 498761001100 putative oxidoreductase; Provisional; Region: PRK12831 498761001101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761001103 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 498761001104 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 498761001105 FAD binding pocket [chemical binding]; other site 498761001106 FAD binding motif [chemical binding]; other site 498761001107 phosphate binding motif [ion binding]; other site 498761001108 beta-alpha-beta structure motif; other site 498761001109 NAD binding pocket [chemical binding]; other site 498761001110 Iron coordination center [ion binding]; other site 498761001111 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: QRI7; COG0533 498761001112 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 498761001113 putative RNA binding site [nucleotide binding]; other site 498761001114 Asp23 family; Region: Asp23; cl00574 498761001115 Asp23 family; Region: Asp23; cl00574 498761001116 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 498761001117 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498761001118 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761001119 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 498761001120 pyruvate carboxylase subunit B; Validated; Region: PRK09282 498761001121 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 498761001122 active site 498761001123 catalytic residues [active] 498761001124 metal binding site [ion binding]; metal-binding site 498761001125 homodimer binding site [polypeptide binding]; other site 498761001126 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 498761001127 carboxyltransferase (CT) interaction site; other site 498761001128 biotinylation site [posttranslational modification]; other site 498761001129 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 498761001130 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 498761001131 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 498761001132 stage III sporulation protein AF; Region: spore_III_AF; TIGR02896 498761001133 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; cl09771 498761001134 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 498761001135 Stage III sporulation protein AC/AD protein family; Region: SpoIIIAC; cl05961 498761001136 Stage III sporulation protein AB (spore_III_AB); Region: Spore_III_AB; cl08022 498761001137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001138 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 498761001139 elongation factor P; Validated; Region: PRK00529 498761001140 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 498761001141 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 498761001142 RNA binding site [nucleotide binding]; other site 498761001143 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 498761001144 RNA binding site [nucleotide binding]; other site 498761001145 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 498761001146 active site 498761001147 trimer interface [polypeptide binding]; other site 498761001148 dimer interface [polypeptide binding]; other site 498761001149 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498761001150 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498761001151 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 498761001152 active site 498761001153 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 498761001154 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 498761001155 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 498761001156 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 498761001157 Late competence development protein ComFB; Region: ComFB; pfam10719 498761001158 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 498761001159 Type II transport protein GspH; Region: GspH; pfam12019 498761001160 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 498761001161 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 498761001162 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 498761001163 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 498761001164 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 498761001165 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 498761001166 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 498761001167 Type II/IV secretion system protein; Region: T2SE; pfam00437 498761001168 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 498761001169 Walker A motif; other site 498761001170 ATP binding site [chemical binding]; other site 498761001171 Walker B motif; other site 498761001172 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 498761001173 Pilus assembly protein, PilO; Region: PilO; cl01234 498761001174 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 498761001175 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 498761001176 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 498761001177 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 498761001178 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 498761001179 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 498761001180 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 498761001181 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 498761001182 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 498761001183 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 498761001184 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 498761001185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001186 Walker A motif; other site 498761001187 ATP binding site [chemical binding]; other site 498761001188 Walker B motif; other site 498761001189 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 498761001190 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 498761001191 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 498761001192 Walker A motif; other site 498761001193 ATP binding site [chemical binding]; other site 498761001194 Walker B motif; other site 498761001195 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 498761001196 active site 498761001197 dimer interface [polypeptide binding]; other site 498761001198 metal binding site [ion binding]; metal-binding site 498761001199 shikimate kinase; Provisional; Region: PRK13947 498761001200 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 498761001201 ADP binding site [chemical binding]; other site 498761001202 magnesium binding site [ion binding]; other site 498761001203 putative shikimate binding site; other site 498761001204 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 498761001205 Tetramer interface [polypeptide binding]; other site 498761001206 active site 498761001207 FMN-binding site [chemical binding]; other site 498761001208 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 498761001209 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 498761001210 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 498761001211 shikimate binding site; other site 498761001212 NAD(P) binding site [chemical binding]; other site 498761001213 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 498761001214 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 498761001215 active site 498761001216 motif I; other site 498761001217 motif II; other site 498761001218 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 498761001219 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 498761001220 active site 498761001221 dimer interface [polypeptide binding]; other site 498761001222 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 498761001223 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 498761001224 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 498761001225 Spore coat protein (Spore_GerQ); Region: Spore_GerQ; cl09881 498761001226 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498761001227 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 498761001228 sporulation sigma factor SigK; Reviewed; Region: PRK05803 498761001229 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761001230 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 498761001231 DNA binding residues [nucleotide binding] 498761001232 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 498761001233 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 498761001234 polyphosphate kinase; Provisional; Region: PRK05443 498761001235 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 498761001236 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 498761001237 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 498761001238 putative domain interface [polypeptide binding]; other site 498761001239 putative active site [active] 498761001240 catalytic site [active] 498761001241 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 498761001242 putative domain interface [polypeptide binding]; other site 498761001243 putative active site [active] 498761001244 catalytic site [active] 498761001245 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 498761001246 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 498761001247 FMN binding site [chemical binding]; other site 498761001248 substrate binding site [chemical binding]; other site 498761001249 putative catalytic residue [active] 498761001250 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 498761001251 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 498761001252 putative substrate translocation pore; other site 498761001253 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 498761001254 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 498761001255 carboxyltransferase (CT) interaction site; other site 498761001256 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 498761001257 biotinylation site [posttranslational modification]; other site 498761001258 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 498761001259 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 498761001260 carboxyltransferase (CT) interaction site; other site 498761001261 biotinylation site [posttranslational modification]; other site 498761001262 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 498761001263 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 498761001264 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 498761001265 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 498761001266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498761001267 Helix-turn-helix domains; Region: HTH; cl00088 498761001268 Uncharacterized conserved protein [Function unknown]; Region: COG2006 498761001269 Domain of unknown function (DUF362); Region: DUF362; pfam04015 498761001270 4Fe-4S binding domain; Region: Fer4; cl02805 498761001271 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 498761001272 4Fe-4S binding domain; Region: Fer4; cl02805 498761001273 Predicted membrane protein [Function unknown]; Region: COG2119 498761001274 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 498761001275 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 498761001276 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 498761001277 S-adenosylmethionine binding site [chemical binding]; other site 498761001278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001279 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 498761001280 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 498761001281 active site 498761001282 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 498761001283 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 498761001284 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001285 Zn2+ binding site [ion binding]; other site 498761001286 Mg2+ binding site [ion binding]; other site 498761001287 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001288 Zn2+ binding site [ion binding]; other site 498761001289 Mg2+ binding site [ion binding]; other site 498761001290 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 498761001291 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 498761001292 Cobalt transport protein component CbiN; Region: CbiN; cl00842 498761001293 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001295 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001296 Cobalt transport protein; Region: CbiQ; cl00463 498761001297 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 498761001298 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 498761001299 Walker A/P-loop; other site 498761001300 ATP binding site [chemical binding]; other site 498761001301 Q-loop/lid; other site 498761001302 ABC transporter signature motif; other site 498761001303 Walker B; other site 498761001304 D-loop; other site 498761001305 H-loop/switch region; other site 498761001306 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 498761001307 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 498761001308 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 498761001309 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 498761001310 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 498761001311 dimer interface [polypeptide binding]; other site 498761001312 substrate binding site [chemical binding]; other site 498761001313 ATP binding site [chemical binding]; other site 498761001314 thiamine monophosphate kinase; Provisional; Region: PRK05731 498761001315 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 498761001316 ATP binding site [chemical binding]; other site 498761001317 dimerization interface [polypeptide binding]; other site 498761001318 ThiC family; Region: ThiC; cl08031 498761001319 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498761001320 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001321 Zn2+ binding site [ion binding]; other site 498761001322 Mg2+ binding site [ion binding]; other site 498761001323 hydroxylamine reductase; Provisional; Region: PRK12310 498761001324 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 498761001325 ACS interaction site; other site 498761001326 CODH interaction site; other site 498761001327 metal cluster binding site [ion binding]; other site 498761001328 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 498761001329 AMP-binding enzyme; Region: AMP-binding; cl15778 498761001330 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761001331 CheB methylesterase; Region: CheB_methylest; pfam01339 498761001332 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 498761001333 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001334 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 498761001335 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498761001336 putative active site [active] 498761001337 heme pocket [chemical binding]; other site 498761001338 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 498761001339 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 498761001340 ATP binding site [chemical binding]; other site 498761001341 Mg2+ binding site [ion binding]; other site 498761001342 G-X-G motif; other site 498761001343 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 498761001344 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 498761001345 active site 498761001346 phosphorylation site [posttranslational modification] 498761001347 intermolecular recognition site; other site 498761001348 dimerization interface [polypeptide binding]; other site 498761001349 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 498761001350 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001351 Zn2+ binding site [ion binding]; other site 498761001352 Mg2+ binding site [ion binding]; other site 498761001353 Glycerate kinase family; Region: Gly_kinase; cl00841 498761001354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498761001355 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 498761001356 substrate binding pocket [chemical binding]; other site 498761001357 membrane-bound complex binding site; other site 498761001358 hinge residues; other site 498761001359 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 498761001360 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 498761001361 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 498761001362 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 498761001363 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cl09719 498761001364 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 498761001365 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761001366 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 498761001367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001368 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001369 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001370 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001371 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 498761001372 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 498761001373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001374 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498761001375 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 498761001376 dimer interface [polypeptide binding]; other site 498761001377 conserved gate region; other site 498761001378 putative PBP binding loops; other site 498761001379 ABC-ATPase subunit interface; other site 498761001380 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498761001381 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 498761001382 dimer interface [polypeptide binding]; other site 498761001383 conserved gate region; other site 498761001384 putative PBP binding loops; other site 498761001385 ABC-ATPase subunit interface; other site 498761001386 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761001387 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761001388 putative active site [active] 498761001389 putative NTP binding site [chemical binding]; other site 498761001390 putative nucleic acid binding site [nucleotide binding]; other site 498761001391 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761001392 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498761001393 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 498761001394 substrate binding pocket [chemical binding]; other site 498761001395 membrane-bound complex binding site; other site 498761001396 hinge residues; other site 498761001397 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 498761001398 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 498761001399 Walker A/P-loop; other site 498761001400 ATP binding site [chemical binding]; other site 498761001401 Q-loop/lid; other site 498761001402 ABC transporter signature motif; other site 498761001403 Walker B; other site 498761001404 D-loop; other site 498761001405 H-loop/switch region; other site 498761001406 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761001407 Zn2+ binding site [ion binding]; other site 498761001408 Mg2+ binding site [ion binding]; other site 498761001409 FOG: CBS domain [General function prediction only]; Region: COG0517 498761001410 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_30; cd04643 498761001411 Uncharacterized conserved protein [Function unknown]; Region: COG2718 498761001412 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 498761001413 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 498761001414 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 498761001415 Cache domain; Region: Cache_1; pfam02743 498761001416 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 498761001417 dimerization interface [polypeptide binding]; other site 498761001418 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761001419 dimer interface [polypeptide binding]; other site 498761001420 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498761001421 putative CheW interface [polypeptide binding]; other site 498761001422 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 498761001423 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 498761001424 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 498761001425 VanW like protein; Region: VanW; pfam04294 498761001426 Helix-turn-helix domains; Region: HTH; cl00088 498761001427 Integrase core domain; Region: rve; cl01316 498761001428 Integrase core domain; Region: rve_3; cl15866 498761001429 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 498761001430 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 498761001431 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001432 Helix-turn-helix domains; Region: HTH; cl00088 498761001433 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001434 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001435 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001436 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001437 putative transposase OrfB; Reviewed; Region: PHA02517 498761001438 HTH-like domain; Region: HTH_21; pfam13276 498761001439 Integrase core domain; Region: rve; cl01316 498761001440 Integrase core domain; Region: rve_3; cl15866 498761001441 Helix-turn-helix domains; Region: HTH; cl00088 498761001442 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001443 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001444 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001445 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761001446 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761001447 HerA helicase [Replication, recombination, and repair]; Region: COG0433 498761001448 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 498761001449 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 498761001450 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 498761001451 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498761001452 aspartate aminotransferase; Provisional; Region: PRK05764 498761001453 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 498761001454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761001455 homodimer interface [polypeptide binding]; other site 498761001456 catalytic residue [active] 498761001457 Spore coat associated protein JA (CotJA); Region: CotJA; pfam11007 498761001458 CotJB protein; Region: CotJB; pfam12652 498761001459 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 498761001460 dimanganese center [ion binding]; other site 498761001461 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 498761001462 SmpB-tmRNA interface; other site 498761001463 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761001464 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 498761001465 CoenzymeA binding site [chemical binding]; other site 498761001466 subunit interaction site [polypeptide binding]; other site 498761001467 PHB binding site; other site 498761001468 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 498761001469 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 498761001470 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 498761001471 enolase; Provisional; Region: eno; PRK00077 498761001472 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 498761001473 dimer interface [polypeptide binding]; other site 498761001474 metal binding site [ion binding]; metal-binding site 498761001475 substrate binding pocket [chemical binding]; other site 498761001476 Sulfatase; Region: Sulfatase; cl10460 498761001477 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 498761001478 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001479 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001480 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001481 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 498761001482 substrate binding site [chemical binding]; other site 498761001483 dimer interface [polypeptide binding]; other site 498761001484 catalytic triad [active] 498761001485 Phosphoglycerate kinase; Region: PGK; pfam00162 498761001486 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 498761001487 substrate binding site [chemical binding]; other site 498761001488 hinge regions; other site 498761001489 ADP binding site [chemical binding]; other site 498761001490 catalytic site [active] 498761001491 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 498761001492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001493 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 498761001494 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 498761001495 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 498761001496 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 498761001497 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 498761001498 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 498761001499 trimer interface [polypeptide binding]; other site 498761001500 active site 498761001501 substrate binding site [chemical binding]; other site 498761001502 CoA binding site [chemical binding]; other site 498761001503 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 498761001504 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 498761001505 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 498761001506 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 498761001507 phosphate binding site [ion binding]; other site 498761001508 putative substrate binding pocket [chemical binding]; other site 498761001509 dimer interface [polypeptide binding]; other site 498761001510 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 498761001511 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 498761001512 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 498761001513 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 498761001514 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 498761001515 active site 498761001516 catalytic site [active] 498761001517 Membrane protein of unknown function; Region: DUF360; cl00850 498761001518 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 498761001519 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 498761001520 GIY-YIG motif/motif A; other site 498761001521 active site 498761001522 catalytic site [active] 498761001523 putative DNA binding site [nucleotide binding]; other site 498761001524 metal binding site [ion binding]; metal-binding site 498761001525 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 498761001526 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 498761001527 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 498761001528 active site 498761001529 dimer interface [polypeptide binding]; other site 498761001530 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 498761001531 dimer interface [polypeptide binding]; other site 498761001532 active site 498761001533 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 498761001534 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 498761001535 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 498761001536 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 498761001537 YmaF family; Region: YmaF; pfam12788 498761001538 excinuclease ABC subunit B; Provisional; Region: PRK05298 498761001539 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 498761001540 ATP binding site [chemical binding]; other site 498761001541 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 498761001542 nucleotide binding region [chemical binding]; other site 498761001543 ATP-binding site [chemical binding]; other site 498761001544 Ultra-violet resistance protein B; Region: UvrB; pfam12344 498761001545 UvrB/uvrC motif; Region: UVR; pfam02151 498761001546 sensor protein ZraS; Provisional; Region: PRK10364 498761001547 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 498761001548 dimer interface [polypeptide binding]; other site 498761001549 phosphorylation site [posttranslational modification] 498761001550 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 498761001551 ATP binding site [chemical binding]; other site 498761001552 G-X-G motif; other site 498761001553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 498761001554 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 498761001555 active site 498761001556 phosphorylation site [posttranslational modification] 498761001557 intermolecular recognition site; other site 498761001558 dimerization interface [polypeptide binding]; other site 498761001559 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 498761001560 Walker A motif; other site 498761001561 ATP binding site [chemical binding]; other site 498761001562 Walker B motif; other site 498761001563 arginine finger; other site 498761001564 Helix-turn-helix domains; Region: HTH; cl00088 498761001565 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 498761001566 4Fe-4S binding domain; Region: Fer4_5; pfam12801 498761001567 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 498761001568 Membrane transport protein; Region: Mem_trans; cl09117 498761001569 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498761001570 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 498761001571 non-specific DNA binding site [nucleotide binding]; other site 498761001572 salt bridge; other site 498761001573 sequence-specific DNA binding site [nucleotide binding]; other site 498761001574 Domain of unknown function (DUF955); Region: DUF955; cl01076 498761001575 S-layer homology domain; Region: SLH; pfam00395 498761001576 S-layer homology domain; Region: SLH; pfam00395 498761001577 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 498761001578 Dynamin family; Region: Dynamin_N; pfam00350 498761001579 G1 box; other site 498761001580 GTP/Mg2+ binding site [chemical binding]; other site 498761001581 G2 box; other site 498761001582 Switch I region; other site 498761001583 G3 box; other site 498761001584 Switch II region; other site 498761001585 G4 box; other site 498761001586 G5 box; other site 498761001587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001588 Dynamin family; Region: Dynamin_N; pfam00350 498761001589 G1 box; other site 498761001590 GTP/Mg2+ binding site [chemical binding]; other site 498761001591 G2 box; other site 498761001592 Switch I region; other site 498761001593 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 498761001594 G2 box; other site 498761001595 G3 box; other site 498761001596 Switch II region; other site 498761001597 GTP/Mg2+ binding site [chemical binding]; other site 498761001598 G4 box; other site 498761001599 G5 box; other site 498761001600 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 498761001601 heme-binding site [chemical binding]; other site 498761001602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761001603 dimer interface [polypeptide binding]; other site 498761001604 putative CheW interface [polypeptide binding]; other site 498761001605 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 498761001606 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 498761001607 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001608 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 498761001609 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 498761001610 C-terminal peptidase (prc); Region: prc; TIGR00225 498761001611 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 498761001612 protein binding site [polypeptide binding]; other site 498761001613 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 498761001614 Catalytic dyad [active] 498761001615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 498761001616 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761001617 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 498761001618 FtsX-like permease family; Region: FtsX; cl15850 498761001619 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 498761001620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001621 Walker A/P-loop; other site 498761001622 ATP binding site [chemical binding]; other site 498761001623 Q-loop/lid; other site 498761001624 ABC transporter signature motif; other site 498761001625 Walker B; other site 498761001626 D-loop; other site 498761001627 H-loop/switch region; other site 498761001628 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 498761001629 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 498761001630 PYR/PP interface [polypeptide binding]; other site 498761001631 dimer interface [polypeptide binding]; other site 498761001632 TPP binding site [chemical binding]; other site 498761001633 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498761001634 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 498761001635 TPP-binding site [chemical binding]; other site 498761001636 dimer interface [polypeptide binding]; other site 498761001637 peptide chain release factor 2; Provisional; Region: PRK05589 498761001638 RF-1 domain; Region: RF-1; cl02875 498761001639 RF-1 domain; Region: RF-1; cl02875 498761001640 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 498761001641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001642 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 498761001643 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 498761001644 nucleotide binding region [chemical binding]; other site 498761001645 ATP-binding site [chemical binding]; other site 498761001646 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 498761001647 30S subunit binding site; other site 498761001648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 498761001649 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 498761001650 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 498761001651 Walker A/P-loop; other site 498761001652 ATP binding site [chemical binding]; other site 498761001653 Q-loop/lid; other site 498761001654 ABC transporter signature motif; other site 498761001655 Walker B; other site 498761001656 D-loop; other site 498761001657 H-loop/switch region; other site 498761001658 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 498761001659 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 498761001660 dimer interface [polypeptide binding]; other site 498761001661 conserved gate region; other site 498761001662 putative PBP binding loops; other site 498761001663 ABC-ATPase subunit interface; other site 498761001664 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 498761001665 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 498761001666 substrate binding pocket [chemical binding]; other site 498761001667 membrane-bound complex binding site; other site 498761001668 hinge residues; other site 498761001669 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 498761001670 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 498761001671 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 498761001672 inhibitor-cofactor binding pocket; inhibition site 498761001673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761001674 catalytic residue [active] 498761001675 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 498761001676 ligand binding site; other site 498761001677 Pathogenicity factor; Region: AvrE; pfam11725 498761001678 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 498761001679 Protein of unknown function (DUF327); Region: DUF327; cl00753 498761001680 Polycystin cation channel protein; Provisional; Region: PLN03223 498761001681 Polycystin cation channel protein; Provisional; Region: PLN03223 498761001682 Flagellar protein FliS; Region: FliS; cl00654 498761001683 flagellin; Reviewed; Region: PRK08869 498761001684 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498761001685 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498761001686 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 498761001687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001688 NAD(P) binding site [chemical binding]; other site 498761001689 active site 498761001690 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 498761001691 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 498761001692 AMP-binding enzyme; Region: AMP-binding; cl15778 498761001693 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 498761001694 classical (c) SDRs; Region: SDR_c; cd05233 498761001695 NAD(P) binding site [chemical binding]; other site 498761001696 active site 498761001697 pseudaminic acid synthase; Region: PseI; TIGR03586 498761001698 NeuB family; Region: NeuB; cl00496 498761001699 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 498761001700 NeuB binding interface [polypeptide binding]; other site 498761001701 putative substrate binding site [chemical binding]; other site 498761001702 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 498761001703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001704 UDP-galactopyranose mutase; Region: GLF; pfam03275 498761001705 phosphomannomutase CpsG; Provisional; Region: PRK15414 498761001706 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 498761001707 active site 498761001708 substrate binding site [chemical binding]; other site 498761001709 metal binding site [ion binding]; metal-binding site 498761001710 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 498761001711 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 498761001712 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001713 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001714 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001715 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 498761001716 Probable Catalytic site; other site 498761001717 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 498761001718 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 498761001719 Substrate binding site; other site 498761001720 Cupin domain; Region: Cupin_2; cl09118 498761001721 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 498761001722 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 498761001723 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 498761001724 Probable Catalytic site; other site 498761001725 metal-binding site 498761001726 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 498761001727 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001729 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001730 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 498761001731 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 498761001732 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 498761001733 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 498761001734 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 498761001735 metal-binding site 498761001736 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 498761001737 S-adenosylmethionine binding site [chemical binding]; other site 498761001738 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 498761001739 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761001740 Integrase core domain; Region: rve_3; cl15866 498761001741 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761001742 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 498761001743 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 498761001744 NAD(P) binding site [chemical binding]; other site 498761001745 homodimer interface [polypeptide binding]; other site 498761001746 substrate binding site [chemical binding]; other site 498761001747 active site 498761001748 FlaG protein; Region: FlaG; cl00591 498761001749 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 498761001750 Flagellar protein FliS; Region: FliS; cl00654 498761001751 flagellar capping protein; Validated; Region: fliD; PRK07737 498761001752 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 498761001753 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 498761001754 flagellin; Reviewed; Region: PRK08869 498761001755 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498761001756 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498761001757 Global regulator protein family; Region: CsrA; cl00670 498761001758 FliW protein; Region: FliW; cl00740 498761001759 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 498761001760 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 498761001761 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 498761001762 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 498761001763 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 498761001764 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 498761001765 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761001766 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498761001767 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 498761001768 FlgN protein; Region: FlgN; cl09176 498761001769 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 498761001770 flagellar operon protein TIGR03826; Region: YvyF 498761001771 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 498761001772 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761001773 active site 498761001774 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 498761001775 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 498761001776 ATP binding site [chemical binding]; other site 498761001777 putative Mg++ binding site [ion binding]; other site 498761001778 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 498761001779 nucleotide binding region [chemical binding]; other site 498761001780 ATP-binding site [chemical binding]; other site 498761001781 excinuclease ABC subunit B; Provisional; Region: PRK05298 498761001782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 498761001783 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 498761001784 active site 498761001785 phosphorylation site [posttranslational modification] 498761001786 intermolecular recognition site; other site 498761001787 dimerization interface [polypeptide binding]; other site 498761001788 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 498761001789 DNA binding residues [nucleotide binding] 498761001790 dimerization interface [polypeptide binding]; other site 498761001791 Sensor protein DegS; Region: DegS; pfam05384 498761001792 Histidine kinase; Region: HisKA_3; pfam07730 498761001793 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 498761001794 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 498761001795 ATP binding site [chemical binding]; other site 498761001796 Mg2+ binding site [ion binding]; other site 498761001797 G-X-G motif; other site 498761001798 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 498761001799 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 498761001800 active site 498761001801 substrate binding site [chemical binding]; other site 498761001802 metal binding site [ion binding]; metal-binding site 498761001803 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 498761001804 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 498761001805 NAD binding site [chemical binding]; other site 498761001806 substrate binding site [chemical binding]; other site 498761001807 homodimer interface [polypeptide binding]; other site 498761001808 active site 498761001809 Bacterial SH3 domain; Region: SH3_3; cl02551 498761001810 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 498761001811 Mg++ binding site [ion binding]; other site 498761001812 putative catalytic motif [active] 498761001813 substrate binding site [chemical binding]; other site 498761001814 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 498761001815 Domain of unknown function (DUF4330); Region: DUF4330; pfam14221 498761001816 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 498761001817 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 498761001818 putative homodimer interface [polypeptide binding]; other site 498761001819 O-Antigen ligase; Region: Wzy_C; cl04850 498761001820 O-Antigen ligase; Region: Wzy_C; cl04850 498761001821 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 498761001822 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 498761001823 putative ADP-binding pocket [chemical binding]; other site 498761001824 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 498761001825 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 498761001826 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 498761001827 Ligand binding site; other site 498761001828 Putative Catalytic site; other site 498761001829 DXD motif; other site 498761001830 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 498761001831 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 498761001832 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 498761001833 NADP binding site [chemical binding]; other site 498761001834 active site 498761001835 putative substrate binding site [chemical binding]; other site 498761001836 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 498761001837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001838 Walker A/P-loop; other site 498761001839 ATP binding site [chemical binding]; other site 498761001840 Q-loop/lid; other site 498761001841 ABC transporter signature motif; other site 498761001842 Walker B; other site 498761001843 D-loop; other site 498761001844 H-loop/switch region; other site 498761001845 TOBE domain; Region: TOBE_2; cl01440 498761001846 Rrf2 family protein; Region: rrf2_super; TIGR00738 498761001847 Helix-turn-helix domains; Region: HTH; cl00088 498761001848 sulfate transport protein; Provisional; Region: cysT; CHL00187 498761001849 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 498761001850 dimer interface [polypeptide binding]; other site 498761001851 conserved gate region; other site 498761001852 putative PBP binding loops; other site 498761001853 ABC-ATPase subunit interface; other site 498761001854 sulfate transport protein; Provisional; Region: cysT; CHL00187 498761001855 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 498761001856 dimer interface [polypeptide binding]; other site 498761001857 conserved gate region; other site 498761001858 putative PBP binding loops; other site 498761001859 ABC-ATPase subunit interface; other site 498761001860 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 498761001861 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 498761001862 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001863 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761001864 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001865 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 498761001866 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 498761001867 CysD dimerization site [polypeptide binding]; other site 498761001868 G1 box; other site 498761001869 putative GEF interaction site [polypeptide binding]; other site 498761001870 GTP/Mg2+ binding site [chemical binding]; other site 498761001871 Switch I region; other site 498761001872 G2 box; other site 498761001873 G3 box; other site 498761001874 Switch II region; other site 498761001875 G4 box; other site 498761001876 G5 box; other site 498761001877 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 498761001878 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 498761001879 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 498761001880 ligand-binding site [chemical binding]; other site 498761001881 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 498761001882 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 498761001883 Active Sites [active] 498761001884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001885 hydroxyglutarate oxidase; Provisional; Region: PRK11728 498761001886 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 498761001887 binding surface 498761001888 TPR motif; other site 498761001889 TPR repeat; Region: TPR_11; pfam13414 498761001890 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 498761001891 Helix-turn-helix domains; Region: HTH; cl00088 498761001892 Winged helix-turn helix; Region: HTH_29; pfam13551 498761001893 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761001894 Winged helix-turn helix; Region: HTH_29; pfam13551 498761001895 Helix-turn-helix domains; Region: HTH; cl00088 498761001896 Integrase core domain; Region: rve; cl01316 498761001897 Integrase core domain; Region: rve_3; cl15866 498761001898 Helix-turn-helix domains; Region: HTH; cl00088 498761001899 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 498761001900 Substrate binding site; other site 498761001901 Mg++ binding site; other site 498761001902 metal-binding site 498761001903 Mg++ binding site; other site 498761001904 metal-binding site 498761001905 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 498761001906 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 498761001907 active site 498761001908 motif I; other site 498761001909 motif II; other site 498761001910 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 498761001911 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 498761001912 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 498761001913 dimer interface [polypeptide binding]; other site 498761001914 active site 498761001915 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 498761001916 extended (e) SDRs; Region: SDR_e; cd08946 498761001917 NAD(P) binding site [chemical binding]; other site 498761001918 active site 498761001919 substrate binding site [chemical binding]; other site 498761001920 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761001921 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 498761001922 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 498761001923 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498761001924 Transposase domain (DUF772); Region: DUF772; pfam05598 498761001925 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761001926 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 498761001927 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 498761001928 Walker A/P-loop; other site 498761001929 ATP binding site [chemical binding]; other site 498761001930 Q-loop/lid; other site 498761001931 ABC transporter signature motif; other site 498761001932 Walker B; other site 498761001933 D-loop; other site 498761001934 H-loop/switch region; other site 498761001935 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761001936 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 498761001937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001938 NAD(P) binding site [chemical binding]; other site 498761001939 active site 498761001940 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761001941 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 498761001942 NAD(P) binding site [chemical binding]; other site 498761001943 active site 498761001944 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 498761001945 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 498761001946 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 498761001947 putative ADP-binding pocket [chemical binding]; other site 498761001948 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 498761001949 Bacterial sugar transferase; Region: Bac_transf; cl00939 498761001950 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001951 Sel1 repeat; Region: Sel1; cl02723 498761001952 Sel1 repeat; Region: Sel1; cl02723 498761001953 Sel1 repeat; Region: Sel1; cl02723 498761001954 Sel1 repeat; Region: Sel1; cl02723 498761001955 O-Antigen ligase; Region: Wzy_C; cl04850 498761001956 O-Antigen ligase; Region: Wzy_C; cl04850 498761001957 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 498761001958 TPR motif; other site 498761001959 binding surface 498761001960 Outer membrane efflux protein; Region: OEP; pfam02321 498761001961 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001962 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001963 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001964 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 498761001965 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001966 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761001967 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498761001968 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761001969 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 498761001970 DNA binding residues [nucleotide binding] 498761001971 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 498761001972 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 498761001973 active site 498761001974 catalytic triad [active] 498761001975 S-layer homology domain; Region: SLH; pfam00395 498761001976 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 498761001977 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 498761001978 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 498761001979 S-layer homology domain; Region: SLH; pfam00395 498761001980 S-layer homology domain; Region: SLH; pfam00395 498761001981 S-layer homology domain; Region: SLH; pfam00395 498761001982 S-layer homology domain; Region: SLH; pfam00395 498761001983 S-layer homology domain; Region: SLH; pfam00395 498761001984 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 498761001985 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 498761001986 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 498761001987 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 498761001988 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 498761001989 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 498761001990 Interdomain contacts; other site 498761001991 Cytokine receptor motif; other site 498761001992 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 498761001993 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 498761001994 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761001995 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761001996 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 498761001997 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761001998 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 498761001999 active site 498761002000 tetramer interface; other site 498761002001 rod shape-determining protein Mbl; Provisional; Region: PRK13928 498761002002 Cell division protein FtsA; Region: FtsA; cl11496 498761002003 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761002004 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761002005 stage II sporulation protein D; Region: spore_II_D; TIGR02870 498761002006 Stage II sporulation protein; Region: SpoIID; pfam08486 498761002007 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 498761002008 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 498761002009 hinge; other site 498761002010 active site 498761002011 Protein of unknown function (DUF1779); Region: DUF1779; pfam08680 498761002012 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 498761002013 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 498761002014 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 498761002015 FeS/SAM binding site; other site 498761002016 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 498761002017 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 498761002018 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 498761002019 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 498761002020 alpha subunit interaction interface [polypeptide binding]; other site 498761002021 Walker A motif; other site 498761002022 ATP binding site [chemical binding]; other site 498761002023 Walker B motif; other site 498761002024 inhibitor binding site; inhibition site 498761002025 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498761002026 ATP synthase; Region: ATP-synt; cl00365 498761002027 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 498761002028 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 498761002029 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 498761002030 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 498761002031 beta subunit interaction interface [polypeptide binding]; other site 498761002032 Walker A motif; other site 498761002033 ATP binding site [chemical binding]; other site 498761002034 Walker B motif; other site 498761002035 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 498761002036 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 498761002037 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 498761002038 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 498761002039 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 498761002040 ATP synthase subunit C; Region: ATP-synt_C; cl00466 498761002041 ATP synthase A chain; Region: ATP-synt_A; cl00413 498761002042 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 498761002043 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 498761002044 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 498761002045 active site 498761002046 homodimer interface [polypeptide binding]; other site 498761002047 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 498761002048 catalytic motif [active] 498761002049 Zn binding site [ion binding]; other site 498761002050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761002051 active site 498761002052 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 498761002053 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 498761002054 dimer interface [polypeptide binding]; other site 498761002055 active site 498761002056 glycine-pyridoxal phosphate binding site [chemical binding]; other site 498761002057 folate binding site [chemical binding]; other site 498761002058 Protein of unknown function (DUF436); Region: DUF436; cl01860 498761002059 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 498761002060 Low molecular weight phosphatase family; Region: LMWPc; cd00115 498761002061 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 498761002062 active site 498761002063 Domain of unknown function DUF; Region: DUF204; pfam02659 498761002064 Domain of unknown function DUF; Region: DUF204; pfam02659 498761002065 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 498761002066 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 498761002067 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 498761002068 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 498761002069 S-adenosylmethionine binding site [chemical binding]; other site 498761002070 peptide chain release factor 1; Validated; Region: prfA; PRK00591 498761002071 RF-1 domain; Region: RF-1; cl02875 498761002072 RF-1 domain; Region: RF-1; cl02875 498761002073 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 498761002074 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 498761002075 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 498761002076 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761002077 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761002078 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 498761002079 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 498761002080 putative active site [active] 498761002081 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 498761002082 active site 498761002083 intersubunit interactions; other site 498761002084 catalytic residue [active] 498761002085 hypothetical protein; Provisional; Region: PRK08185 498761002086 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 498761002087 intersubunit interface [polypeptide binding]; other site 498761002088 active site 498761002089 zinc binding site [ion binding]; other site 498761002090 Na+ binding site [ion binding]; other site 498761002091 Response regulator receiver domain; Region: Response_reg; pfam00072 498761002092 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 498761002093 active site 498761002094 phosphorylation site [posttranslational modification] 498761002095 intermolecular recognition site; other site 498761002096 dimerization interface [polypeptide binding]; other site 498761002097 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 498761002098 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 498761002099 tandem repeat interface [polypeptide binding]; other site 498761002100 oligomer interface [polypeptide binding]; other site 498761002101 active site residues [active] 498761002102 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 498761002103 active site 498761002104 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498761002105 dimer interface [polypeptide binding]; other site 498761002106 substrate binding site [chemical binding]; other site 498761002107 catalytic residues [active] 498761002108 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 498761002109 CTP synthetase; Validated; Region: pyrG; PRK05380 498761002110 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 498761002111 Catalytic site [active] 498761002112 active site 498761002113 UTP binding site [chemical binding]; other site 498761002114 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 498761002115 active site 498761002116 putative oxyanion hole; other site 498761002117 catalytic triad [active] 498761002118 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 498761002119 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 498761002120 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 498761002121 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 498761002122 active site 498761002123 HIGH motif; other site 498761002124 KMSK motif region; other site 498761002125 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 498761002126 tRNA binding surface [nucleotide binding]; other site 498761002127 anticodon binding site; other site 498761002128 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 498761002129 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 498761002130 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 498761002131 ligand binding site [chemical binding]; other site 498761002132 flexible hinge region; other site 498761002133 Helix-turn-helix domains; Region: HTH; cl00088 498761002134 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 498761002135 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761002136 putative CheW interface [polypeptide binding]; other site 498761002137 Cache domain; Region: Cache_1; pfam02743 498761002138 Response regulator receiver domain; Region: Response_reg; pfam00072 498761002139 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 498761002140 active site 498761002141 phosphorylation site [posttranslational modification] 498761002142 intermolecular recognition site; other site 498761002143 dimerization interface [polypeptide binding]; other site 498761002144 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 498761002145 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 498761002146 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 498761002147 dimer interface [polypeptide binding]; other site 498761002148 phosphorylation site [posttranslational modification] 498761002149 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 498761002150 ATP binding site [chemical binding]; other site 498761002151 Mg2+ binding site [ion binding]; other site 498761002152 G-X-G motif; other site 498761002153 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 498761002154 Helix-turn-helix domains; Region: HTH; cl00088 498761002155 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 498761002156 putative dimerization interface [polypeptide binding]; other site 498761002157 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 498761002158 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 498761002159 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 498761002160 NAD binding site [chemical binding]; other site 498761002161 homodimer interface [polypeptide binding]; other site 498761002162 active site 498761002163 substrate binding site [chemical binding]; other site 498761002164 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 498761002165 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 498761002166 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498761002167 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 498761002168 Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); Region: Spore_YhcN_YlaJ; pfam09580 498761002169 SpoVA protein; Region: SpoVA; cl04298 498761002170 stage V sporulation protein AD; Provisional; Region: PRK12404 498761002171 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 498761002172 SpoVA protein; Region: SpoVA; cl04298 498761002173 Protein of unknown function (DUF421); Region: DUF421; cl00990 498761002174 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 498761002175 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 498761002176 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 498761002177 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498761002178 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 498761002179 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 498761002180 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002181 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 498761002182 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 498761002183 active site 498761002184 dimer interface [polypeptide binding]; other site 498761002185 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 498761002186 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 498761002187 active site 498761002188 FMN binding site [chemical binding]; other site 498761002189 substrate binding site [chemical binding]; other site 498761002190 3Fe-4S cluster binding site [ion binding]; other site 498761002191 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 498761002192 domain interface; other site 498761002193 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 498761002194 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 498761002195 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 498761002196 DNA binding site [nucleotide binding] 498761002197 active site 498761002198 histidinol-phosphatase; Provisional; Region: PRK05588 498761002199 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 498761002200 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 498761002201 S-adenosylmethionine binding site [chemical binding]; other site 498761002202 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 498761002203 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 498761002204 putative active site [active] 498761002205 putative metal binding site [ion binding]; other site 498761002206 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 498761002207 catalytic loop [active] 498761002208 iron binding site [ion binding]; other site 498761002209 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 498761002210 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 498761002211 4Fe-4S binding domain; Region: Fer4; cl02805 498761002212 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498761002213 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 498761002214 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 498761002215 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 498761002216 putative dimer interface [polypeptide binding]; other site 498761002217 [2Fe-2S] cluster binding site [ion binding]; other site 498761002218 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 498761002219 dimer interface [polypeptide binding]; other site 498761002220 [2Fe-2S] cluster binding site [ion binding]; other site 498761002221 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 498761002222 SLBB domain; Region: SLBB; pfam10531 498761002223 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 498761002224 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 498761002225 4Fe-4S binding domain; Region: Fer4; cl02805 498761002226 4Fe-4S binding domain; Region: Fer4; cl02805 498761002227 Ion transport protein; Region: Ion_trans; pfam00520 498761002228 Ion channel; Region: Ion_trans_2; cl11596 498761002229 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 498761002230 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 498761002231 putative active site [active] 498761002232 metal binding site [ion binding]; metal-binding site 498761002233 Thymidylate synthase complementing protein; Region: Thy1; cl03630 498761002234 Thymidylate synthase complementing protein; Region: Thy1; cl03630 498761002235 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 498761002236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498761002237 active site 498761002238 HIGH motif; other site 498761002239 nucleotide binding site [chemical binding]; other site 498761002240 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 498761002241 KMSKS motif; other site 498761002242 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 498761002243 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 498761002244 dimer interface [polypeptide binding]; other site 498761002245 substrate binding site [chemical binding]; other site 498761002246 ATP binding site [chemical binding]; other site 498761002247 Small acid-soluble spore protein H family; Region: SspH; cl06949 498761002248 EamA-like transporter family; Region: EamA; cl01037 498761002249 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 498761002250 EamA-like transporter family; Region: EamA; cl01037 498761002251 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 498761002252 active site 498761002253 catalytic triad [active] 498761002254 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 498761002255 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 498761002256 Walker A motif; other site 498761002257 ATP binding site [chemical binding]; other site 498761002258 Walker B motif; other site 498761002259 arginine finger; other site 498761002260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 498761002261 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 498761002262 active site 498761002263 metal binding site [ion binding]; metal-binding site 498761002264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 498761002265 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761002266 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 498761002267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 498761002268 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 498761002269 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 498761002270 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 498761002271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002272 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 498761002273 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 498761002274 ATP binding site [chemical binding]; other site 498761002275 putative Mg++ binding site [ion binding]; other site 498761002276 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 498761002277 nucleotide binding region [chemical binding]; other site 498761002278 ATP-binding site [chemical binding]; other site 498761002279 Helicase associated domain (HA2); Region: HA2; cl04503 498761002280 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 498761002281 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 498761002282 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761002283 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 498761002284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002285 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002286 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 498761002287 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 498761002288 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 498761002289 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 498761002290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002291 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 498761002292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002293 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 498761002294 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 498761002295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761002296 homodimer interface [polypeptide binding]; other site 498761002297 catalytic residue [active] 498761002298 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 498761002299 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 498761002300 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 498761002301 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 498761002302 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 498761002303 protein binding site [polypeptide binding]; other site 498761002304 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761002305 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 498761002306 S-adenosylmethionine binding site [chemical binding]; other site 498761002307 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 498761002308 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 498761002309 hinge; other site 498761002310 active site 498761002311 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 498761002312 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 498761002313 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 498761002314 TPR motif; other site 498761002315 binding surface 498761002316 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 498761002317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002318 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002319 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761002320 G5 domain; Region: G5; pfam07501 498761002321 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761002322 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 498761002323 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 498761002324 FeS/SAM binding site; other site 498761002325 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 498761002326 Protein of unknown function (DUF4001); Region: DUF4001; cl14848 498761002327 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 498761002328 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 498761002329 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 498761002330 GDP-binding site [chemical binding]; other site 498761002331 ACT binding site; other site 498761002332 IMP binding site; other site 498761002333 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 498761002334 active site clefts [active] 498761002335 zinc binding site [ion binding]; other site 498761002336 dimer interface [polypeptide binding]; other site 498761002337 replicative DNA helicase; Region: DnaB; TIGR00665 498761002338 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 498761002339 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 498761002340 Walker A motif; other site 498761002341 ATP binding site [chemical binding]; other site 498761002342 Walker B motif; other site 498761002343 DNA binding loops [nucleotide binding] 498761002344 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 498761002345 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 498761002346 Walker A motif; other site 498761002347 ATP binding site [chemical binding]; other site 498761002348 Walker B motif; other site 498761002349 arginine finger; other site 498761002350 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761002351 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 498761002352 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 498761002353 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 498761002354 Bacitracin resistance protein BacA; Region: BacA; cl00858 498761002355 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 498761002356 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 498761002357 DHH family; Region: DHH; pfam01368 498761002358 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 498761002359 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 498761002360 dimer interface [polypeptide binding]; other site 498761002361 ssDNA binding site [nucleotide binding]; other site 498761002362 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498761002363 GTP-binding protein YchF; Reviewed; Region: PRK09601 498761002364 YchF GTPase; Region: YchF; cd01900 498761002365 G1 box; other site 498761002366 GTP/Mg2+ binding site [chemical binding]; other site 498761002367 Switch I region; other site 498761002368 G2 box; other site 498761002369 Switch II region; other site 498761002370 G3 box; other site 498761002371 G4 box; other site 498761002372 G5 box; other site 498761002373 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 498761002374 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 498761002375 Mechanosensitive ion channel; Region: MS_channel; pfam00924 498761002376 DsrE/DsrF-like family; Region: DrsE; cl00672 498761002377 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 498761002378 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 498761002379 oligomer interface [polypeptide binding]; other site 498761002380 putative active site [active] 498761002381 metal binding site [ion binding]; metal-binding site 498761002382 DNA replication protein DnaC; Validated; Region: PRK06835 498761002383 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 498761002384 Walker A motif; other site 498761002385 ATP binding site [chemical binding]; other site 498761002386 Walker B motif; other site 498761002387 arginine finger; other site 498761002388 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 498761002389 Predicted transcriptional regulator [Transcription]; Region: COG1959 498761002390 Helix-turn-helix domains; Region: HTH; cl00088 498761002391 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 498761002392 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 498761002393 ATP binding site [chemical binding]; other site 498761002394 putative Mg++ binding site [ion binding]; other site 498761002395 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 498761002396 nucleotide binding region [chemical binding]; other site 498761002397 ATP-binding site [chemical binding]; other site 498761002398 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 498761002399 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 498761002400 Predicted permease; Region: DUF318; pfam03773 498761002401 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 498761002402 dimerization interface [polypeptide binding]; other site 498761002403 putative DNA binding site [nucleotide binding]; other site 498761002404 putative Zn2+ binding site [ion binding]; other site 498761002405 acetyl-CoA synthetase; Provisional; Region: PRK04319 498761002406 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 498761002407 AMP-binding enzyme; Region: AMP-binding; cl15778 498761002408 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761002409 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 498761002410 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498761002411 putative substrate translocation pore; other site 498761002412 Protein of unknown function (DUF441); Region: DUF441; cl01041 498761002413 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 498761002414 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; cl00782 498761002415 CASP C terminal; Region: CASP_C; pfam08172 498761002416 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498761002417 NodB motif; other site 498761002418 active site 498761002419 catalytic site [active] 498761002420 Zn binding site [ion binding]; other site 498761002421 Ubiquitin-like proteins; Region: UBQ; cl00155 498761002422 charged pocket; other site 498761002423 hydrophobic patch; other site 498761002424 Spore germination protein; Region: Spore_permease; cl15802 498761002425 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 498761002426 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498761002427 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761002428 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761002429 putative active site [active] 498761002430 putative NTP binding site [chemical binding]; other site 498761002431 putative nucleic acid binding site [nucleotide binding]; other site 498761002432 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761002433 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761002434 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761002435 putative active site [active] 498761002436 putative NTP binding site [chemical binding]; other site 498761002437 putative nucleic acid binding site [nucleotide binding]; other site 498761002438 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761002439 Helix-turn-helix domains; Region: HTH; cl00088 498761002440 putative transposase OrfB; Reviewed; Region: PHA02517 498761002441 HTH-like domain; Region: HTH_21; pfam13276 498761002442 Integrase core domain; Region: rve; cl01316 498761002443 Integrase core domain; Region: rve_3; cl15866 498761002444 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 498761002445 Transposase domain (DUF772); Region: DUF772; pfam05598 498761002446 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761002447 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761002448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 498761002449 Transposase; Region: DDE_Tnp_ISL3; pfam01610 498761002450 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; cl09775 498761002451 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 498761002452 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 498761002453 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 498761002454 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 498761002455 G1 box; other site 498761002456 putative GEF interaction site [polypeptide binding]; other site 498761002457 GTP/Mg2+ binding site [chemical binding]; other site 498761002458 Switch I region; other site 498761002459 G2 box; other site 498761002460 G3 box; other site 498761002461 Switch II region; other site 498761002462 G4 box; other site 498761002463 G5 box; other site 498761002464 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 498761002465 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 498761002466 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 498761002467 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 498761002468 Uncharacterized membrane protein [Function unknown]; Region: COG3949 498761002469 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 498761002470 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 498761002471 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761002472 Protein of unknown function (DUF554); Region: DUF554; cl00784 498761002473 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 498761002474 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 498761002475 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761002476 catalytic residue [active] 498761002477 ParB-like nuclease domain; Region: ParBc; cl02129 498761002478 ParB-like partition proteins; Region: parB_part; TIGR00180 498761002479 KorB domain; Region: KorB; pfam08535 498761002480 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 498761002481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761002482 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 498761002483 Magnesium ion binding site [ion binding]; other site 498761002484 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761002485 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 498761002486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002488 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 498761002489 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 498761002490 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 498761002491 trmE is a tRNA modification GTPase; Region: trmE; cd04164 498761002492 G1 box; other site 498761002493 GTP/Mg2+ binding site [chemical binding]; other site 498761002494 Switch I region; other site 498761002495 G2 box; other site 498761002496 Switch II region; other site 498761002497 G3 box; other site 498761002498 G4 box; other site 498761002499 G5 box; other site 498761002500 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 498761002501 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 498761002502 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 498761002503 G-X-X-G motif; other site 498761002504 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 498761002505 RxxxH motif; other site 498761002506 ribonuclease E; Reviewed; Region: rne; PRK10811 498761002507 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 498761002508 Haemolytic domain; Region: Haemolytic; cl00506 498761002509 Ribonuclease P; Region: Ribonuclease_P; cl00457 498761002510 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 498761002511 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 498761002512 DnaA N-terminal domain; Region: DnaA_N; pfam11638 498761002513 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 498761002514 Walker A motif; other site 498761002515 ATP binding site [chemical binding]; other site 498761002516 Walker B motif; other site 498761002517 arginine finger; other site 498761002518 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 498761002519 DnaA box-binding interface [nucleotide binding]; other site 498761002520 DNA polymerase III subunit beta; Validated; Region: PRK05643 498761002521 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 498761002522 putative DNA binding surface [nucleotide binding]; other site 498761002523 dimer interface [polypeptide binding]; other site 498761002524 beta-clamp/clamp loader binding surface; other site 498761002525 beta-clamp/translesion DNA polymerase binding surface; other site 498761002526 recombination protein F; Reviewed; Region: recF; PRK00064 498761002527 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 498761002528 Walker A/P-loop; other site 498761002529 ATP binding site [chemical binding]; other site 498761002530 Q-loop/lid; other site 498761002531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761002532 ABC transporter signature motif; other site 498761002533 Walker B; other site 498761002534 D-loop; other site 498761002535 H-loop/switch region; other site 498761002536 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 498761002537 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 498761002538 ATP binding site [chemical binding]; other site 498761002539 Mg2+ binding site [ion binding]; other site 498761002540 G-X-G motif; other site 498761002541 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 498761002542 anchoring element; other site 498761002543 dimer interface [polypeptide binding]; other site 498761002544 ATP binding site [chemical binding]; other site 498761002545 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 498761002546 active site 498761002547 putative metal-binding site [ion binding]; other site 498761002548 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 498761002549 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498761002550 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 498761002551 FAD binding site [chemical binding]; other site 498761002552 homotetramer interface [polypeptide binding]; other site 498761002553 substrate binding pocket [chemical binding]; other site 498761002554 catalytic base [active] 498761002555 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 498761002556 B12 binding site [chemical binding]; other site 498761002557 cobalt ligand [ion binding]; other site 498761002558 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761002559 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 498761002560 Methylmalonyl-CoA mutase, N-terminal domain/subunit [Lipid metabolism]; Region: Sbm; COG1884 498761002561 acetyl-CoA synthetase; Provisional; Region: PRK04319 498761002562 AMP-binding enzyme; Region: AMP-binding; cl15778 498761002563 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761002564 acetyl-CoA acetyltransferase; Provisional; Region: PRK08235 498761002565 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 498761002566 dimer interface [polypeptide binding]; other site 498761002567 active site 498761002568 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 498761002569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002570 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 498761002571 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 498761002572 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 498761002573 FAD binding site [chemical binding]; other site 498761002574 homotetramer interface [polypeptide binding]; other site 498761002575 substrate binding pocket [chemical binding]; other site 498761002576 catalytic base [active] 498761002577 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 498761002578 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 498761002579 substrate binding site [chemical binding]; other site 498761002580 oxyanion hole (OAH) forming residues; other site 498761002581 trimer interface [polypeptide binding]; other site 498761002582 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 498761002583 Ligand binding site [chemical binding]; other site 498761002584 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498761002585 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498761002586 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498761002587 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498761002588 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 498761002589 4Fe-4S binding domain; Region: Fer4; cl02805 498761002590 Cysteine-rich domain; Region: CCG; pfam02754 498761002591 Cysteine-rich domain; Region: CCG; pfam02754 498761002592 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 498761002593 putative FMN binding site [chemical binding]; other site 498761002594 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 498761002595 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 498761002596 Walker A/P-loop; other site 498761002597 ATP binding site [chemical binding]; other site 498761002598 Q-loop/lid; other site 498761002599 ABC transporter signature motif; other site 498761002600 Walker B; other site 498761002601 D-loop; other site 498761002602 H-loop/switch region; other site 498761002603 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 498761002604 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 498761002605 Walker A/P-loop; other site 498761002606 ATP binding site [chemical binding]; other site 498761002607 Q-loop/lid; other site 498761002608 ABC transporter signature motif; other site 498761002609 Walker B; other site 498761002610 D-loop; other site 498761002611 H-loop/switch region; other site 498761002612 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 498761002613 TM-ABC transporter signature motif; other site 498761002614 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 498761002615 TM-ABC transporter signature motif; other site 498761002616 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 498761002617 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 498761002618 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 498761002619 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 498761002620 DNA gyrase subunit A; Validated; Region: PRK05560 498761002621 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 498761002622 CAP-like domain; other site 498761002623 active site 498761002624 primary dimer interface [polypeptide binding]; other site 498761002625 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002626 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002627 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002628 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002629 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002630 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 498761002631 Helix-turn-helix domains; Region: HTH; cl00088 498761002632 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 498761002633 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 498761002634 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 498761002635 carboxyltransferase (CT) interaction site; other site 498761002636 biotinylation site [posttranslational modification]; other site 498761002637 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 498761002638 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498761002639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761002640 Walker A/P-loop; other site 498761002641 ATP binding site [chemical binding]; other site 498761002642 Q-loop/lid; other site 498761002643 ABC transporter signature motif; other site 498761002644 Walker B; other site 498761002645 D-loop; other site 498761002646 H-loop/switch region; other site 498761002647 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498761002648 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761002649 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 498761002650 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 498761002651 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 498761002652 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 498761002653 putative active site [active] 498761002654 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 498761002655 hexamer interface [polypeptide binding]; other site 498761002656 RNA binding site [nucleotide binding]; other site 498761002657 Histidine-zinc binding site [chemical binding]; other site 498761002658 Nitrogen regulatory protein P-II; Region: P-II; cl00412 498761002659 Nitrogen regulatory protein P-II; Region: P-II; smart00938 498761002660 Nitrogen regulatory protein P-II; Region: P-II; smart00938 498761002661 Nitrogen regulatory protein P-II; Region: P-II; cl00412 498761002662 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 498761002663 nitrogenase iron protein; Region: nifH; TIGR01287 498761002664 Nucleotide-binding sites [chemical binding]; other site 498761002665 Walker A motif; other site 498761002666 Switch I region of nucleotide binding site; other site 498761002667 Fe4S4 binding sites [ion binding]; other site 498761002668 Switch II region of nucleotide binding site; other site 498761002669 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 498761002670 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 498761002671 MoFe protein alpha/beta subunit interactions; other site 498761002672 Alpha subunit P cluster binding residues; other site 498761002673 FeMoco binding residues [chemical binding]; other site 498761002674 MoFe protein alpha subunit/Fe protein contacts; other site 498761002675 MoFe protein dimer/ dimer interactions; other site 498761002676 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 498761002677 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 498761002678 MoFe protein beta/alpha subunit interactions; other site 498761002679 Beta subunit P cluster binding residues; other site 498761002680 MoFe protein beta subunit/Fe protein contacts; other site 498761002681 MoFe protein dimer/ dimer interactions; other site 498761002682 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 498761002683 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 498761002684 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 498761002685 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 498761002686 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 498761002687 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 498761002688 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 498761002689 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498761002690 FeS/SAM binding site; other site 498761002691 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 498761002692 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 498761002693 active site 498761002694 catalytic residues [active] 498761002695 metal binding site [ion binding]; metal-binding site 498761002696 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 498761002697 active site 498761002698 multimer interface [polypeptide binding]; other site 498761002699 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 498761002700 predicted active site [active] 498761002701 catalytic triad [active] 498761002702 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 498761002703 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 498761002704 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 498761002705 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 498761002706 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 498761002707 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761002708 catalytic residue [active] 498761002709 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 498761002710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002711 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 498761002712 putative L-serine binding site [chemical binding]; other site 498761002713 seryl-tRNA synthetase; Provisional; Region: PRK05431 498761002714 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 498761002715 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 498761002716 dimer interface [polypeptide binding]; other site 498761002717 active site 498761002718 motif 1; other site 498761002719 motif 2; other site 498761002720 motif 3; other site 498761002721 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 498761002722 FOG: CBS domain [General function prediction only]; Region: COG0517 498761002723 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 498761002724 FOG: CBS domain [General function prediction only]; Region: COG0517 498761002725 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 498761002726 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 498761002727 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 498761002728 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 498761002729 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 498761002730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761002731 metal binding site [ion binding]; metal-binding site 498761002732 active site 498761002733 I-site; other site 498761002734 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 498761002735 homotrimer interaction site [polypeptide binding]; other site 498761002736 putative active site [active] 498761002737 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 498761002738 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002739 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 498761002740 Cache domain; Region: Cache_2; cl07034 498761002741 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498761002742 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 498761002743 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761002744 dimer interface [polypeptide binding]; other site 498761002745 putative CheW interface [polypeptide binding]; other site 498761002746 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 498761002747 dimerization domain swap beta strand [polypeptide binding]; other site 498761002748 regulatory protein interface [polypeptide binding]; other site 498761002749 active site 498761002750 regulatory phosphorylation site [posttranslational modification]; other site 498761002751 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498761002752 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 498761002753 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 498761002754 putative active site [active] 498761002755 heme pocket [chemical binding]; other site 498761002756 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 498761002757 Walker A motif; other site 498761002758 ATP binding site [chemical binding]; other site 498761002759 Walker B motif; other site 498761002760 arginine finger; other site 498761002761 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 498761002762 Dak1 domain; Region: Dak1; pfam02733 498761002763 DAK2 domain; Region: Dak2; cl03685 498761002764 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 498761002765 active pocket/dimerization site; other site 498761002766 active site 498761002767 phosphorylation site [posttranslational modification] 498761002768 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 498761002769 dimerization domain swap beta strand [polypeptide binding]; other site 498761002770 regulatory protein interface [polypeptide binding]; other site 498761002771 active site 498761002772 regulatory phosphorylation site [posttranslational modification]; other site 498761002773 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 498761002774 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 498761002775 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 498761002776 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 498761002777 Helix-turn-helix domains; Region: HTH; cl00088 498761002778 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498761002779 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 498761002780 P loop nucleotide binding; other site 498761002781 switch II; other site 498761002782 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498761002783 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 498761002784 P loop nucleotide binding; other site 498761002785 switch II; other site 498761002786 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 498761002787 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 498761002788 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 498761002789 nucleoside/Zn binding site; other site 498761002790 dimer interface [polypeptide binding]; other site 498761002791 catalytic motif [active] 498761002792 Fic family protein [Function unknown]; Region: COG3177 498761002793 Fic/DOC family; Region: Fic; cl00960 498761002794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002795 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 498761002796 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761002797 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 498761002798 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 498761002799 active site residue [active] 498761002800 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 498761002801 putative homodimer interface [polypeptide binding]; other site 498761002802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 498761002803 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 498761002804 dimerization interface [polypeptide binding]; other site 498761002805 GAF domain; Region: GAF; cl15785 498761002806 GAF domain; Region: GAF_2; pfam13185 498761002807 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761002808 Zn2+ binding site [ion binding]; other site 498761002809 Mg2+ binding site [ion binding]; other site 498761002810 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 498761002811 dimer interface [polypeptide binding]; other site 498761002812 phosphorylation site [posttranslational modification] 498761002813 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 498761002814 ATP binding site [chemical binding]; other site 498761002815 Mg2+ binding site [ion binding]; other site 498761002816 G-X-G motif; other site 498761002817 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 498761002818 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 498761002819 Walker A motif; other site 498761002820 ATP binding site [chemical binding]; other site 498761002821 Walker B motif; other site 498761002822 arginine finger; other site 498761002823 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 498761002824 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 498761002825 recombination protein RecR; Reviewed; Region: recR; PRK00076 498761002826 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 498761002827 RecR protein; Region: RecR; pfam02132 498761002828 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 498761002829 putative active site [active] 498761002830 putative metal-binding site [ion binding]; other site 498761002831 tetramer interface [polypeptide binding]; other site 498761002832 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 498761002833 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 498761002834 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 498761002835 dimer interface [polypeptide binding]; other site 498761002836 PYR/PP interface [polypeptide binding]; other site 498761002837 TPP binding site [chemical binding]; other site 498761002838 substrate binding site [chemical binding]; other site 498761002839 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761002840 Domain of unknown function; Region: EKR; cl11037 498761002841 4Fe-4S binding domain; Region: Fer4; cl02805 498761002842 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 498761002843 TPP-binding site [chemical binding]; other site 498761002844 dimer interface [polypeptide binding]; other site 498761002845 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 498761002846 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 498761002847 dimer interface [polypeptide binding]; other site 498761002848 PYR/PP interface [polypeptide binding]; other site 498761002849 TPP binding site [chemical binding]; other site 498761002850 substrate binding site [chemical binding]; other site 498761002851 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498761002852 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 498761002853 TPP-binding site [chemical binding]; other site 498761002854 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 498761002855 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761002856 hypothetical protein; Provisional; Region: PRK13795 498761002857 hypothetical protein; Provisional; Region: PRK13795 498761002858 LabA_like proteins; Region: LabA_like; cd06167 498761002859 putative metal binding site [ion binding]; other site 498761002860 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 498761002861 CrcB-like protein; Region: CRCB; cl09114 498761002862 CrcB-like protein; Region: CRCB; cl09114 498761002863 GGGtGRT protein; Region: GGGtGRT; pfam14057 498761002864 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 498761002865 SEC-C motif; Region: SEC-C; pfam02810 498761002866 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 498761002867 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498761002868 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 498761002869 ATP binding site [chemical binding]; other site 498761002870 putative Mg++ binding site [ion binding]; other site 498761002871 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 498761002872 nucleotide binding region [chemical binding]; other site 498761002873 ATP-binding site [chemical binding]; other site 498761002874 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 498761002875 active site 498761002876 catalytic residues [active] 498761002877 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 498761002878 transcriptional regulator NarL; Provisional; Region: PRK10651 498761002879 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 498761002880 DNA binding residues [nucleotide binding] 498761002881 dimerization interface [polypeptide binding]; other site 498761002882 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 498761002883 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 498761002884 catalytic residues [active] 498761002885 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 498761002886 Predicted permeases [General function prediction only]; Region: COG0701 498761002887 Predicted permease; Region: DUF318; pfam03773 498761002888 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 498761002889 dimerization interface [polypeptide binding]; other site 498761002890 putative DNA binding site [nucleotide binding]; other site 498761002891 putative Zn2+ binding site [ion binding]; other site 498761002892 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 498761002893 Membrane transport protein; Region: Mem_trans; cl09117 498761002894 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 498761002895 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 498761002896 Walker A/P-loop; other site 498761002897 ATP binding site [chemical binding]; other site 498761002898 Q-loop/lid; other site 498761002899 ABC transporter signature motif; other site 498761002900 Walker B; other site 498761002901 D-loop; other site 498761002902 H-loop/switch region; other site 498761002903 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 498761002904 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 498761002905 Walker A/P-loop; other site 498761002906 ATP binding site [chemical binding]; other site 498761002907 Q-loop/lid; other site 498761002908 ABC transporter signature motif; other site 498761002909 Walker B; other site 498761002910 D-loop; other site 498761002911 H-loop/switch region; other site 498761002912 Cobalt transport protein; Region: CbiQ; cl00463 498761002913 Sel1 repeat; Region: Sel1; cl02723 498761002914 Sel1 repeat; Region: Sel1; cl02723 498761002915 Sel1 repeat; Region: Sel1; cl02723 498761002916 Sel1 repeat; Region: Sel1; cl02723 498761002917 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761002918 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761002919 glyoxylate reductase; Reviewed; Region: PRK13243 498761002920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761002921 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 498761002922 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 498761002923 metal binding site [ion binding]; metal-binding site 498761002924 Protein of unknown function (DUF1360); Region: DUF1360; pfam07098 498761002925 Hexokinase [Carbohydrate transport and metabolism]; Region: COG5026 498761002926 Hexokinase; Region: Hexokinase_1; pfam00349 498761002927 Hexokinase; Region: Hexokinase_2; pfam03727 498761002928 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 498761002929 N-acetyl-D-glucosamine binding site [chemical binding]; other site 498761002930 catalytic residue [active] 498761002931 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 498761002932 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761002933 catalytic residue [active] 498761002934 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 498761002935 thymidylate kinase; Validated; Region: tmk; PRK00698 498761002936 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 498761002937 TMP-binding site; other site 498761002938 ATP-binding site [chemical binding]; other site 498761002939 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 498761002940 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 498761002941 Walker A motif; other site 498761002942 ATP binding site [chemical binding]; other site 498761002943 Walker B motif; other site 498761002944 arginine finger; other site 498761002945 PSP1 C-terminal conserved region; Region: PSP1; cl00770 498761002946 Protein of unknown function (DUF972); Region: DUF972; pfam06156 498761002947 Predicted methyltransferases [General function prediction only]; Region: COG0313 498761002948 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761002949 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 498761002950 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 498761002951 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 498761002952 active site 498761002953 HIGH motif; other site 498761002954 KMSKS motif; other site 498761002955 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 498761002956 tRNA binding surface [nucleotide binding]; other site 498761002957 anticodon binding site; other site 498761002958 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 498761002959 dimer interface [polypeptide binding]; other site 498761002960 putative tRNA-binding site [nucleotide binding]; other site 498761002961 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 498761002962 active site 498761002963 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 498761002964 Domain of unknown function (DUF348); Region: DUF348; pfam03990 498761002965 G5 domain; Region: G5; pfam07501 498761002966 3D domain; Region: 3D; cl01439 498761002967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 498761002968 Domain of unknown function (DUF348); Region: DUF348; pfam03990 498761002969 G5 domain; Region: G5; pfam07501 498761002970 3D domain; Region: 3D; cl01439 498761002971 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761002972 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761002973 putative active site [active] 498761002974 putative NTP binding site [chemical binding]; other site 498761002975 putative nucleic acid binding site [nucleotide binding]; other site 498761002976 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761002977 Transposase domain (DUF772); Region: DUF772; pfam05598 498761002978 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761002979 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761002980 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 498761002981 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 498761002982 putative active site [active] 498761002983 putative metal binding site [ion binding]; other site 498761002984 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 498761002985 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761002986 Nitrogen regulatory protein P-II; Region: P-II; cl00412 498761002987 Nitrogen regulatory protein P-II; Region: P-II; smart00938 498761002988 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 498761002989 YabG peptidase U57; Region: Peptidase_U57; cl05250 498761002990 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 498761002991 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 498761002992 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498761002993 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 498761002994 Transcriptional regulators [Transcription]; Region: GntR; COG1802 498761002995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498761002996 DNA-binding site [nucleotide binding]; DNA binding site 498761002997 FCD domain; Region: FCD; cl11656 498761002998 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 498761002999 active site 498761003000 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 498761003001 dinuclear metal binding motif [ion binding]; other site 498761003002 threonine dehydratase; Provisional; Region: PRK08198 498761003003 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 498761003004 tetramer interface [polypeptide binding]; other site 498761003005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761003006 catalytic residue [active] 498761003007 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 498761003008 SpoVG; Region: SpoVG; cl00915 498761003009 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 498761003010 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 498761003011 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 498761003012 Substrate binding site; other site 498761003013 Mg++ binding site; other site 498761003014 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 498761003015 active site 498761003016 substrate binding site [chemical binding]; other site 498761003017 CoA binding site [chemical binding]; other site 498761003018 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 498761003019 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 498761003020 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761003021 active site 498761003022 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 498761003023 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 498761003024 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 498761003025 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 498761003026 5S rRNA interface [nucleotide binding]; other site 498761003027 CTC domain interface [polypeptide binding]; other site 498761003028 L16 interface [polypeptide binding]; other site 498761003029 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 498761003030 putative active site [active] 498761003031 catalytic residue [active] 498761003032 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 498761003033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761003034 Zn2+ binding site [ion binding]; other site 498761003035 Mg2+ binding site [ion binding]; other site 498761003036 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 498761003037 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 498761003038 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 498761003039 ATP binding site [chemical binding]; other site 498761003040 putative Mg++ binding site [ion binding]; other site 498761003041 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 498761003042 nucleotide binding region [chemical binding]; other site 498761003043 ATP-binding site [chemical binding]; other site 498761003044 TRCF domain; Region: TRCF; cl04088 498761003045 SurA N-terminal domain; Region: SurA_N_3; cl07813 498761003046 periplasmic folding chaperone; Provisional; Region: PRK10788 498761003047 PPIC-type PPIASE domain; Region: Rotamase; cl08278 498761003048 stage V sporulation protein T; Region: spore_V_T; TIGR02851 498761003049 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 498761003050 GAF domain; Region: GAF; cl15785 498761003051 MatE; Region: MatE; cl10513 498761003052 stage V sporulation protein B; Region: spore_V_B; TIGR02900 498761003053 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 498761003054 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761003055 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 498761003056 homodimer interface [polypeptide binding]; other site 498761003057 metal binding site [ion binding]; metal-binding site 498761003058 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 498761003059 homodimer interface [polypeptide binding]; other site 498761003060 active site 498761003061 putative chemical substrate binding site [chemical binding]; other site 498761003062 metal binding site [ion binding]; metal-binding site 498761003063 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 498761003064 IHF dimer interface [polypeptide binding]; other site 498761003065 IHF - DNA interface [nucleotide binding]; other site 498761003066 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 498761003067 RNA binding surface [nucleotide binding]; other site 498761003068 YabP family; Region: YabP; cl06766 498761003069 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 498761003070 Septum formation initiator; Region: DivIC; cl11433 498761003071 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 498761003072 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 498761003073 catalytic triad [active] 498761003074 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 498761003075 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761003076 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 498761003077 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 498761003078 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 498761003079 tRNA; other site 498761003080 putative tRNA binding site [nucleotide binding]; other site 498761003081 putative NADP binding site [chemical binding]; other site 498761003082 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 498761003083 Cytochrome c; Region: Cytochrom_C; cl11414 498761003084 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 498761003085 iron-sulfur cluster [ion binding]; other site 498761003086 [2Fe-2S] cluster binding site [ion binding]; other site 498761003087 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 498761003088 Qi binding site; other site 498761003089 intrachain domain interface; other site 498761003090 interchain domain interface [polypeptide binding]; other site 498761003091 heme bH binding site [chemical binding]; other site 498761003092 heme bL binding site [chemical binding]; other site 498761003093 Qo binding site; other site 498761003094 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; cl00193 498761003095 interchain domain interface [polypeptide binding]; other site 498761003096 intrachain domain interface; other site 498761003097 Qi binding site; other site 498761003098 Qo binding site; other site 498761003099 Cytochrome c; Region: Cytochrom_C; cl11414 498761003100 Cytochrome c; Region: Cytochrom_C; cl11414 498761003101 TspO/MBR family; Region: TspO_MBR; cl01379 498761003102 Heme NO binding; Region: HNOB; cl15268 498761003103 UbiA prenyltransferase family; Region: UbiA; cl00337 498761003104 Photosystem II protein; Region: PSII; cl08223 498761003105 Photosystem I psaA/psaB protein; Region: PsaA_PsaB; cl08224 498761003106 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 498761003107 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 498761003108 S-adenosylmethionine binding site [chemical binding]; other site 498761003109 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761003110 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 498761003111 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 498761003112 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 498761003113 FeS/SAM binding site; other site 498761003114 light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein; Region: DPOR_bchL; TIGR01281 498761003115 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 498761003116 P-loop; other site 498761003117 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 498761003118 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 498761003119 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 498761003120 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 498761003121 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 498761003122 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 498761003123 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 498761003124 Walker A motif; other site 498761003125 ATP binding site [chemical binding]; other site 498761003126 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 498761003127 magnesium chelatase ATPase subunit D; Region: BchD-ChlD; TIGR02031 498761003128 Walker A motif; other site 498761003129 ATP binding site [chemical binding]; other site 498761003130 Walker B motif; other site 498761003131 arginine finger; other site 498761003132 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 498761003133 metal ion-dependent adhesion site (MIDAS); other site 498761003134 magnesium chelatase subunit H; Provisional; Region: PRK12493 498761003135 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 498761003136 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 498761003137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003138 phytoene desaturase; Region: crtI_fam; TIGR02734 498761003139 stage II sporulation protein E; Region: spore_II_E; TIGR02865 498761003140 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 498761003141 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 498761003142 Ligand Binding Site [chemical binding]; other site 498761003143 B3/4 domain; Region: B3_4; cl11458 498761003144 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 498761003145 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 498761003146 Walker A motif; other site 498761003147 ATP binding site [chemical binding]; other site 498761003148 Walker B motif; other site 498761003149 arginine finger; other site 498761003150 Peptidase family M41; Region: Peptidase_M41; pfam01434 498761003151 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 498761003152 active site 498761003153 multimer interface [polypeptide binding]; other site 498761003154 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761003155 TIGR01777 family protein; Region: yfcH 498761003156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003157 NAD(P) binding site [chemical binding]; other site 498761003158 active site 498761003159 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 498761003160 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 498761003161 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 498761003162 Potassium binding sites [ion binding]; other site 498761003163 Cesium cation binding sites [ion binding]; other site 498761003164 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761003165 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 498761003166 dihydropteroate synthase; Region: DHPS; TIGR01496 498761003167 substrate binding pocket [chemical binding]; other site 498761003168 dimer interface [polypeptide binding]; other site 498761003169 inhibitor binding site; inhibition site 498761003170 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 498761003171 homooctamer interface [polypeptide binding]; other site 498761003172 active site 498761003173 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 498761003174 catalytic center binding site [active] 498761003175 ATP binding site [chemical binding]; other site 498761003176 pantoate--beta-alanine ligase; Region: panC; TIGR00018 498761003177 Pantoate-beta-alanine ligase; Region: PanC; cd00560 498761003178 active site 498761003179 ATP-binding site [chemical binding]; other site 498761003180 pantoate-binding site; other site 498761003181 HXXH motif; other site 498761003182 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 498761003183 tetramerization interface [polypeptide binding]; other site 498761003184 active site 498761003185 Quinolinate synthetase A protein; Region: NadA; cl00420 498761003186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003187 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 498761003188 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 498761003189 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 498761003190 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 498761003191 dimerization interface [polypeptide binding]; other site 498761003192 active site 498761003193 Helix-turn-helix domains; Region: HTH; cl00088 498761003194 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 498761003195 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 498761003196 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 498761003197 Type III pantothenate kinase; Region: Pan_kinase; cl09130 498761003198 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 498761003199 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 498761003200 FMN binding site [chemical binding]; other site 498761003201 active site 498761003202 catalytic residues [active] 498761003203 substrate binding site [chemical binding]; other site 498761003204 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 498761003205 Isochorismatase family; Region: Isochorismatase; pfam00857 498761003206 catalytic triad [active] 498761003207 dimer interface [polypeptide binding]; other site 498761003208 conserved cis-peptide bond; other site 498761003209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761003210 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 498761003211 Protein of unknown function (DUF3593); Region: DUF3593; pfam12159 498761003212 Protein of unknown function (DUF2499); Region: DUF2499; pfam10693 498761003213 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 498761003214 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 498761003215 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 498761003216 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 498761003217 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 498761003218 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 498761003219 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 498761003220 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 498761003221 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 498761003222 Predicted dehydrogenase [General function prediction only]; Region: COG5322 498761003223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003224 NAD(P) binding pocket [chemical binding]; other site 498761003225 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 498761003226 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 498761003227 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 498761003228 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 498761003229 dimer interface [polypeptide binding]; other site 498761003230 putative anticodon binding site; other site 498761003231 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 498761003232 motif 1; other site 498761003233 dimer interface [polypeptide binding]; other site 498761003234 motif 2; other site 498761003235 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 498761003236 active site 498761003237 motif 3; other site 498761003238 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761003239 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761003240 putative active site [active] 498761003241 putative NTP binding site [chemical binding]; other site 498761003242 putative nucleic acid binding site [nucleotide binding]; other site 498761003243 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761003244 GDYXXLXY protein; Region: GDYXXLXY; cl02066 498761003245 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 498761003246 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 498761003247 non-specific DNA binding site [nucleotide binding]; other site 498761003248 salt bridge; other site 498761003249 sequence-specific DNA binding site [nucleotide binding]; other site 498761003250 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 498761003251 Clp amino terminal domain; Region: Clp_N; pfam02861 498761003252 Clp amino terminal domain; Region: Clp_N; pfam02861 498761003253 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 498761003254 Walker A motif; other site 498761003255 ATP binding site [chemical binding]; other site 498761003256 Walker B motif; other site 498761003257 arginine finger; other site 498761003258 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 498761003259 Walker A motif; other site 498761003260 ATP binding site [chemical binding]; other site 498761003261 Walker B motif; other site 498761003262 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 498761003263 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 498761003264 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 498761003265 UvrB/uvrC motif; Region: UVR; pfam02151 498761003266 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 498761003267 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 498761003268 ADP binding site [chemical binding]; other site 498761003269 phosphagen binding site; other site 498761003270 substrate specificity loop; other site 498761003271 Clp protease ATP binding subunit; Region: clpC; CHL00095 498761003272 Clp amino terminal domain; Region: Clp_N; pfam02861 498761003273 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 498761003274 Walker A motif; other site 498761003275 ATP binding site [chemical binding]; other site 498761003276 Walker B motif; other site 498761003277 arginine finger; other site 498761003278 UvrB/uvrC motif; Region: UVR; pfam02151 498761003279 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 498761003280 Walker A motif; other site 498761003281 ATP binding site [chemical binding]; other site 498761003282 Walker B motif; other site 498761003283 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 498761003284 DNA repair protein RadA; Provisional; Region: PRK11823 498761003285 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 498761003286 Walker A motif/ATP binding site; other site 498761003287 ATP binding site [chemical binding]; other site 498761003288 Walker B motif; other site 498761003289 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761003290 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 498761003291 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 498761003292 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 498761003293 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 498761003294 Coat F domain; Region: Coat_F; cl15836 498761003295 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 498761003296 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 498761003297 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 498761003298 putative active site [active] 498761003299 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 498761003300 substrate binding site; other site 498761003301 dimer interface; other site 498761003302 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 498761003303 homotrimer interaction site [polypeptide binding]; other site 498761003304 zinc binding site [ion binding]; other site 498761003305 CDP-binding sites; other site 498761003306 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 498761003307 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 498761003308 HIGH motif; other site 498761003309 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 498761003310 active site 498761003311 KMSKS motif; other site 498761003312 serine O-acetyltransferase; Region: cysE; TIGR01172 498761003313 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 498761003314 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 498761003315 trimer interface [polypeptide binding]; other site 498761003316 active site 498761003317 substrate binding site [chemical binding]; other site 498761003318 CoA binding site [chemical binding]; other site 498761003319 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 498761003320 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 498761003321 active site 498761003322 HIGH motif; other site 498761003323 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 498761003324 KMSKS motif; other site 498761003325 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 498761003326 tRNA binding surface [nucleotide binding]; other site 498761003327 anticodon binding site; other site 498761003328 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 498761003329 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 498761003330 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 498761003331 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 498761003332 YacP-like NYN domain; Region: NYN_YacP; cl01491 498761003333 RNA polymerase factor sigma-70; Validated; Region: PRK08295 498761003334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761003335 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761003336 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 498761003337 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 498761003338 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 498761003339 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 498761003340 putative homodimer interface [polypeptide binding]; other site 498761003341 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 498761003342 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 498761003343 23S rRNA interface [nucleotide binding]; other site 498761003344 L7/L12 interface [polypeptide binding]; other site 498761003345 putative thiostrepton binding site; other site 498761003346 L25 interface [polypeptide binding]; other site 498761003347 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 498761003348 mRNA/rRNA interface [nucleotide binding]; other site 498761003349 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 498761003350 23S rRNA interface [nucleotide binding]; other site 498761003351 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 498761003352 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 498761003353 peripheral dimer interface [polypeptide binding]; other site 498761003354 core dimer interface [polypeptide binding]; other site 498761003355 L10 interface [polypeptide binding]; other site 498761003356 L11 interface [polypeptide binding]; other site 498761003357 putative EF-Tu interaction site [polypeptide binding]; other site 498761003358 putative EF-G interaction site [polypeptide binding]; other site 498761003359 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 498761003360 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 498761003361 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 498761003362 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 498761003363 RPB1 interaction site [polypeptide binding]; other site 498761003364 RPB10 interaction site [polypeptide binding]; other site 498761003365 RPB11 interaction site [polypeptide binding]; other site 498761003366 RPB3 interaction site [polypeptide binding]; other site 498761003367 RPB12 interaction site [polypeptide binding]; other site 498761003368 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 498761003369 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 498761003370 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 498761003371 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 498761003372 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 498761003373 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 498761003374 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 498761003375 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 498761003376 G-loop; other site 498761003377 DNA binding site [nucleotide binding] 498761003378 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 498761003379 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 498761003380 S17 interaction site [polypeptide binding]; other site 498761003381 S8 interaction site; other site 498761003382 16S rRNA interaction site [nucleotide binding]; other site 498761003383 streptomycin interaction site [chemical binding]; other site 498761003384 23S rRNA interaction site [nucleotide binding]; other site 498761003385 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 498761003386 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 498761003387 elongation factor G; Reviewed; Region: PRK00007 498761003388 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 498761003389 G1 box; other site 498761003390 putative GEF interaction site [polypeptide binding]; other site 498761003391 GTP/Mg2+ binding site [chemical binding]; other site 498761003392 Switch I region; other site 498761003393 G2 box; other site 498761003394 G3 box; other site 498761003395 Switch II region; other site 498761003396 G4 box; other site 498761003397 G5 box; other site 498761003398 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 498761003399 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 498761003400 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 498761003401 elongation factor Tu; Reviewed; Region: PRK00049 498761003402 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 498761003403 G1 box; other site 498761003404 GEF interaction site [polypeptide binding]; other site 498761003405 GTP/Mg2+ binding site [chemical binding]; other site 498761003406 Switch I region; other site 498761003407 G2 box; other site 498761003408 G3 box; other site 498761003409 Switch II region; other site 498761003410 G4 box; other site 498761003411 G5 box; other site 498761003412 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 498761003413 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 498761003414 Antibiotic Binding Site [chemical binding]; other site 498761003415 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 498761003416 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 498761003417 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 498761003418 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 498761003419 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 498761003420 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 498761003421 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 498761003422 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 498761003423 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 498761003424 putative translocon binding site; other site 498761003425 protein-rRNA interface [nucleotide binding]; other site 498761003426 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 498761003427 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 498761003428 G-X-X-G motif; other site 498761003429 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 498761003430 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 498761003431 23S rRNA interface [nucleotide binding]; other site 498761003432 5S rRNA interface [nucleotide binding]; other site 498761003433 putative antibiotic binding site [chemical binding]; other site 498761003434 L25 interface [polypeptide binding]; other site 498761003435 L27 interface [polypeptide binding]; other site 498761003436 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 498761003437 23S rRNA interface [nucleotide binding]; other site 498761003438 putative translocon interaction site; other site 498761003439 signal recognition particle (SRP54) interaction site; other site 498761003440 L23 interface [polypeptide binding]; other site 498761003441 trigger factor interaction site; other site 498761003442 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 498761003443 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 498761003444 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 498761003445 KOW motif; Region: KOW; cl00354 498761003446 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 498761003447 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 498761003448 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 498761003449 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 498761003450 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 498761003451 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 498761003452 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 498761003453 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 498761003454 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 498761003455 23S rRNA interface [nucleotide binding]; other site 498761003456 L21e interface [polypeptide binding]; other site 498761003457 5S rRNA interface [nucleotide binding]; other site 498761003458 L27 interface [polypeptide binding]; other site 498761003459 L5 interface [polypeptide binding]; other site 498761003460 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 498761003461 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 498761003462 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 498761003463 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 498761003464 23S rRNA binding site [nucleotide binding]; other site 498761003465 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 498761003466 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 498761003467 SecY translocase; Region: SecY; pfam00344 498761003468 adenylate kinase; Reviewed; Region: adk; PRK00279 498761003469 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 498761003470 AMP-binding site [chemical binding]; other site 498761003471 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 498761003472 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 498761003473 active site 498761003474 Ribosomal protein L14E/L6E/L27E [Translation, ribosomal structure and biogenesis]; Region: RPL14A; COG2163 498761003475 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 498761003476 rRNA binding site [nucleotide binding]; other site 498761003477 predicted 30S ribosome binding site; other site 498761003478 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 498761003479 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 498761003480 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 498761003481 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 498761003482 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 498761003483 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 498761003484 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 498761003485 RNA binding surface [nucleotide binding]; other site 498761003486 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 498761003487 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 498761003488 alphaNTD - beta interaction site [polypeptide binding]; other site 498761003489 alphaNTD homodimer interface [polypeptide binding]; other site 498761003490 alphaNTD - beta' interaction site [polypeptide binding]; other site 498761003491 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 498761003492 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 498761003493 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 498761003494 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 498761003495 Walker A/P-loop; other site 498761003496 ATP binding site [chemical binding]; other site 498761003497 Q-loop/lid; other site 498761003498 ABC transporter signature motif; other site 498761003499 Walker B; other site 498761003500 D-loop; other site 498761003501 H-loop/switch region; other site 498761003502 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 498761003503 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 498761003504 Walker A/P-loop; other site 498761003505 ATP binding site [chemical binding]; other site 498761003506 Q-loop/lid; other site 498761003507 ABC transporter signature motif; other site 498761003508 Walker B; other site 498761003509 D-loop; other site 498761003510 H-loop/switch region; other site 498761003511 Cobalt transport protein; Region: CbiQ; cl00463 498761003512 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 498761003513 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 498761003514 dimerization interface 3.5A [polypeptide binding]; other site 498761003515 active site 498761003516 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 498761003517 23S rRNA interface [nucleotide binding]; other site 498761003518 L3 interface [polypeptide binding]; other site 498761003519 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 498761003520 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 498761003521 putative CheA interaction surface; other site 498761003522 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 498761003523 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 498761003524 putative binding surface; other site 498761003525 active site 498761003526 P2 response regulator binding domain; Region: P2; pfam07194 498761003527 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 498761003528 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 498761003529 ATP binding site [chemical binding]; other site 498761003530 Mg2+ binding site [ion binding]; other site 498761003531 G-X-G motif; other site 498761003532 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 498761003533 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 498761003534 anti sigma factor interaction site; other site 498761003535 regulatory phosphorylation site [posttranslational modification]; other site 498761003536 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498761003537 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 498761003538 dimerization interface [polypeptide binding]; other site 498761003539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761003540 dimer interface [polypeptide binding]; other site 498761003541 putative CheW interface [polypeptide binding]; other site 498761003542 cyclase homology domain; Region: CHD; cd07302 498761003543 nucleotidyl binding site; other site 498761003544 metal binding site [ion binding]; metal-binding site 498761003545 dimer interface [polypeptide binding]; other site 498761003546 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 498761003547 metal binding triad [ion binding]; metal-binding site 498761003548 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 498761003549 oligomerisation interface [polypeptide binding]; other site 498761003550 mobile loop; other site 498761003551 roof hairpin; other site 498761003552 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 498761003553 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 498761003554 ring oligomerisation interface [polypeptide binding]; other site 498761003555 ATP/Mg binding site [chemical binding]; other site 498761003556 stacking interactions; other site 498761003557 hinge regions; other site 498761003558 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498761003559 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 498761003560 active site 498761003561 metal binding site [ion binding]; metal-binding site 498761003562 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 498761003563 hypothetical protein; Provisional; Region: PRK03881 498761003564 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 498761003565 AMMECR1; Region: AMMECR1; cl00911 498761003566 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 498761003567 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498761003568 FeS/SAM binding site; other site 498761003569 EamA-like transporter family; Region: EamA; cl01037 498761003570 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 498761003571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003572 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 498761003573 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 498761003574 heterotetramer interface [polypeptide binding]; other site 498761003575 active site pocket [active] 498761003576 cleavage site 498761003577 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 498761003578 feedback inhibition sensing region; other site 498761003579 homohexameric interface [polypeptide binding]; other site 498761003580 nucleotide binding site [chemical binding]; other site 498761003581 N-acetyl-L-glutamate binding site [chemical binding]; other site 498761003582 acetylornithine aminotransferase; Provisional; Region: PRK02627 498761003583 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 498761003584 inhibitor-cofactor binding pocket; inhibition site 498761003585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761003586 catalytic residue [active] 498761003587 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 498761003588 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 498761003589 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 498761003590 catalytic site [active] 498761003591 subunit interface [polypeptide binding]; other site 498761003592 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 498761003593 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498761003594 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761003595 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 498761003596 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498761003597 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761003598 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 498761003599 IMP binding site; other site 498761003600 dimer interface [polypeptide binding]; other site 498761003601 interdomain contacts; other site 498761003602 partial ornithine binding site; other site 498761003603 ornithine carbamoyltransferase; Provisional; Region: PRK00779 498761003604 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498761003605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003606 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 498761003607 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 498761003608 ANP binding site [chemical binding]; other site 498761003609 Substrate Binding Site II [chemical binding]; other site 498761003610 Substrate Binding Site I [chemical binding]; other site 498761003611 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003612 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003613 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761003614 Integrase core domain; Region: rve; cl01316 498761003615 Integrase core domain; Region: rve_3; cl15866 498761003616 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 498761003617 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 498761003618 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 498761003619 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 498761003620 LytTr DNA-binding domain; Region: LytTR; cl04498 498761003621 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; cl00246 498761003622 FAD binding site [chemical binding]; other site 498761003623 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 498761003624 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 498761003625 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 498761003626 catalytic residues [active] 498761003627 catalytic nucleophile [active] 498761003628 Probable transposase; Region: OrfB_IS605; pfam01385 498761003629 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 498761003630 binding surface 498761003631 TPR motif; other site 498761003632 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 498761003633 TPR repeat; Region: TPR_11; pfam13414 498761003634 binding surface 498761003635 TPR motif; other site 498761003636 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498761003637 Helix-turn-helix domains; Region: HTH; cl00088 498761003638 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 498761003639 argininosuccinate lyase; Provisional; Region: PRK00855 498761003640 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 498761003641 active sites [active] 498761003642 tetramer interface [polypeptide binding]; other site 498761003643 4Fe-4S binding domain; Region: Fer4; cl02805 498761003644 hypothetical protein; Provisional; Region: PRK13795 498761003645 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 498761003646 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 498761003647 AMP-binding enzyme; Region: AMP-binding; cl15778 498761003648 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 498761003649 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 498761003650 dimer interface [polypeptide binding]; other site 498761003651 PYR/PP interface [polypeptide binding]; other site 498761003652 TPP binding site [chemical binding]; other site 498761003653 substrate binding site [chemical binding]; other site 498761003654 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 498761003655 TPP-binding site; other site 498761003656 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 498761003657 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761003658 NlpC/P60 family; Region: NLPC_P60; cl11438 498761003659 isocitrate dehydrogenase; Validated; Region: PRK07362 498761003660 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 498761003661 malate dehydrogenase; Reviewed; Region: PRK06223 498761003662 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 498761003663 NAD(P) binding site [chemical binding]; other site 498761003664 dimer interface [polypeptide binding]; other site 498761003665 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498761003666 substrate binding site [chemical binding]; other site 498761003667 Helix-turn-helix domains; Region: HTH; cl00088 498761003668 Predicted transcriptional regulator [Transcription]; Region: COG2345 498761003669 Heme NO binding; Region: HNOB; cl15268 498761003670 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498761003671 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 498761003672 DNA binding residues [nucleotide binding] 498761003673 B12 binding domain; Region: B12-binding_2; cl03653 498761003674 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; cd02065 498761003675 B12 binding site [chemical binding]; other site 498761003676 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 498761003677 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 498761003678 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 498761003679 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 498761003680 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 498761003681 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 498761003682 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 498761003683 putative substrate-binding site; other site 498761003684 nickel binding site [ion binding]; other site 498761003685 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 498761003686 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 498761003687 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761003688 Acylphosphatase; Region: Acylphosphatase; cl00551 498761003689 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 498761003690 HypF finger; Region: zf-HYPF; pfam07503 498761003691 HypF finger; Region: zf-HYPF; pfam07503 498761003692 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 498761003693 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 498761003694 HupF/HypC family; Region: HupF_HypC; cl00394 498761003695 Hydrogenase formation hypA family; Region: HypD; cl12072 498761003696 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 498761003697 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 498761003698 dimerization interface [polypeptide binding]; other site 498761003699 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 498761003700 ATP binding site [chemical binding]; other site 498761003701 intracellular protease, PfpI family; Region: PfpI; TIGR01382 498761003702 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 498761003703 conserved cys residue [active] 498761003704 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 498761003705 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 498761003706 putative FMN binding site [chemical binding]; other site 498761003707 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 498761003708 putative active site [active] 498761003709 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 498761003710 PAS fold; Region: PAS_4; pfam08448 498761003711 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 498761003712 putative FPP binding hydrophobic cleft; other site 498761003713 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761003714 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 498761003715 homodimer interface [polypeptide binding]; other site 498761003716 metal binding site [ion binding]; metal-binding site 498761003717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 498761003718 Helix-turn-helix domains; Region: HTH; cl00088 498761003719 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 498761003720 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 498761003721 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 498761003722 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 498761003723 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 498761003724 Walker A/P-loop; other site 498761003725 ATP binding site [chemical binding]; other site 498761003726 Q-loop/lid; other site 498761003727 ABC transporter signature motif; other site 498761003728 Walker B; other site 498761003729 D-loop; other site 498761003730 H-loop/switch region; other site 498761003731 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 498761003732 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761003733 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 498761003734 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 498761003735 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 498761003736 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 498761003737 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 498761003738 flagellar motor protein MotB; Reviewed; Region: motB; PRK07734 498761003739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 498761003740 ligand binding site [chemical binding]; other site 498761003741 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003742 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761003743 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003744 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 498761003745 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 498761003746 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 498761003747 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 498761003748 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761003749 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 498761003750 homodimer interface [polypeptide binding]; other site 498761003751 substrate-cofactor binding pocket; other site 498761003752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761003753 catalytic residue [active] 498761003754 Dehydratase family; Region: ILVD_EDD; cl00340 498761003755 6-phosphogluconate dehydratase; Region: edd; TIGR01196 498761003756 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 498761003757 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 498761003758 putative valine binding site [chemical binding]; other site 498761003759 dimer interface [polypeptide binding]; other site 498761003760 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 498761003761 ketol-acid reductoisomerase; Provisional; Region: PRK05479 498761003762 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003763 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 498761003764 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 498761003765 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 498761003766 PYR/PP interface [polypeptide binding]; other site 498761003767 dimer interface [polypeptide binding]; other site 498761003768 TPP binding site [chemical binding]; other site 498761003769 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 498761003770 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 498761003771 TPP-binding site [chemical binding]; other site 498761003772 dimer interface [polypeptide binding]; other site 498761003773 2-isopropylmalate synthase; Validated; Region: PRK00915 498761003774 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 498761003775 active site 498761003776 catalytic residues [active] 498761003777 metal binding site [ion binding]; metal-binding site 498761003778 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 498761003779 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 498761003780 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 498761003781 substrate binding site [chemical binding]; other site 498761003782 ligand binding site [chemical binding]; other site 498761003783 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 498761003784 substrate binding site [chemical binding]; other site 498761003785 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 498761003786 tartrate dehydrogenase; Provisional; Region: PRK08194 498761003787 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 498761003788 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 498761003789 active site 498761003790 catalytic residues [active] 498761003791 metal binding site [ion binding]; metal-binding site 498761003792 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 498761003793 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 498761003794 Uncharacterized conserved protein [Function unknown]; Region: COG1624 498761003795 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 498761003796 YbbR-like protein; Region: YbbR; pfam07949 498761003797 YbbR-like protein; Region: YbbR; pfam07949 498761003798 YbbR-like protein; Region: YbbR; pfam07949 498761003799 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 498761003800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003801 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 498761003802 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 498761003803 active site 498761003804 substrate binding site [chemical binding]; other site 498761003805 metal binding site [ion binding]; metal-binding site 498761003806 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 498761003807 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 498761003808 glutaminase active site [active] 498761003809 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 498761003810 dimer interface [polypeptide binding]; other site 498761003811 active site 498761003812 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 498761003813 dimer interface [polypeptide binding]; other site 498761003814 active site 498761003815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003816 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 498761003817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761003818 Transcriptional regulator [Transcription]; Region: LysR; COG0583 498761003819 Helix-turn-helix domains; Region: HTH; cl00088 498761003820 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 498761003821 dimerization interface [polypeptide binding]; other site 498761003822 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 498761003823 iron binding site [ion binding]; other site 498761003824 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 498761003825 diiron binding motif [ion binding]; other site 498761003826 SNF2 Helicase protein; Region: DUF3670; pfam12419 498761003827 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 498761003828 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 498761003829 ATP binding site [chemical binding]; other site 498761003830 putative Mg++ binding site [ion binding]; other site 498761003831 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 498761003832 nucleotide binding region [chemical binding]; other site 498761003833 ATP-binding site [chemical binding]; other site 498761003834 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761003835 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 498761003836 active site 498761003837 phosphorylation site [posttranslational modification] 498761003838 intermolecular recognition site; other site 498761003839 dimerization interface [polypeptide binding]; other site 498761003840 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 498761003841 DNA binding site [nucleotide binding] 498761003842 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 498761003843 dimer interface [polypeptide binding]; other site 498761003844 phosphorylation site [posttranslational modification] 498761003845 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 498761003846 ATP binding site [chemical binding]; other site 498761003847 Mg2+ binding site [ion binding]; other site 498761003848 G-X-G motif; other site 498761003849 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 498761003850 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 498761003851 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 498761003852 Protein export membrane protein; Region: SecD_SecF; cl14618 498761003853 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 498761003854 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 498761003855 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 498761003856 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 498761003857 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 498761003858 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 498761003859 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 498761003860 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 498761003861 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 498761003862 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761003863 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 498761003864 Walker A/P-loop; other site 498761003865 ATP binding site [chemical binding]; other site 498761003866 Q-loop/lid; other site 498761003867 ABC transporter signature motif; other site 498761003868 Walker B; other site 498761003869 D-loop; other site 498761003870 H-loop/switch region; other site 498761003871 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 498761003872 dimer interface [polypeptide binding]; other site 498761003873 conserved gate region; other site 498761003874 putative PBP binding loops; other site 498761003875 ABC-ATPase subunit interface; other site 498761003876 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 498761003877 Integral membrane protein TerC family; Region: TerC; cl10468 498761003878 YibE/F-like protein; Region: YibE_F; cl02259 498761003879 Transposase; Region: DEDD_Tnp_IS110; pfam01548 498761003880 putative transposase OrfB; Reviewed; Region: PHA02517 498761003881 HTH-like domain; Region: HTH_21; pfam13276 498761003882 Integrase core domain; Region: rve; cl01316 498761003883 Integrase core domain; Region: rve_3; cl15866 498761003884 Helix-turn-helix domains; Region: HTH; cl00088 498761003885 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003886 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003887 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003888 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761003889 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003890 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003891 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761003892 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003893 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 498761003894 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761003895 Transposase domain (DUF772); Region: DUF772; pfam05598 498761003896 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761003897 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761003898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761003899 AAA domain; Region: AAA_22; pfam13401 498761003900 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 498761003901 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 498761003902 Protein export membrane protein; Region: SecD_SecF; cl14618 498761003903 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 498761003904 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 498761003905 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 498761003906 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 498761003907 Helix-turn-helix domains; Region: HTH; cl00088 498761003908 AIR synthase related protein, N-terminal domain; Region: AIRS; pfam00586 498761003909 EamA-like transporter family; Region: EamA; cl01037 498761003910 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 498761003911 EamA-like transporter family; Region: EamA; cl01037 498761003912 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 498761003913 dimer interface [polypeptide binding]; other site 498761003914 phosphorylation site [posttranslational modification] 498761003915 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 498761003916 ATP binding site [chemical binding]; other site 498761003917 Mg2+ binding site [ion binding]; other site 498761003918 G-X-G motif; other site 498761003919 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761003920 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 498761003921 active site 498761003922 phosphorylation site [posttranslational modification] 498761003923 intermolecular recognition site; other site 498761003924 dimerization interface [polypeptide binding]; other site 498761003925 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 498761003926 DNA binding site [nucleotide binding] 498761003927 Aconitase B [Energy production and conversion]; Region: AcnB; COG1049 498761003928 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 498761003929 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 498761003930 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 498761003931 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761003932 metal binding site [ion binding]; metal-binding site 498761003933 active site 498761003934 I-site; other site 498761003935 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761003936 Zn2+ binding site [ion binding]; other site 498761003937 Mg2+ binding site [ion binding]; other site 498761003938 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 498761003939 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 498761003940 active site 498761003941 metal binding site [ion binding]; metal-binding site 498761003942 DNA binding site [nucleotide binding] 498761003943 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 498761003944 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 498761003945 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 498761003946 Walker A/P-loop; other site 498761003947 ATP binding site [chemical binding]; other site 498761003948 exonuclease SbcC; Region: sbcc; TIGR00618 498761003949 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761003950 ABC transporter signature motif; other site 498761003951 Walker B; other site 498761003952 D-loop; other site 498761003953 H-loop/switch region; other site 498761003954 integral membrane protein MviN; Region: mviN; TIGR01695 498761003955 MatE; Region: MatE; cl10513 498761003956 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 498761003957 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761003958 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498761003959 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761003960 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 498761003961 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 498761003962 amphipathic channel; other site 498761003963 Asn-Pro-Ala signature motifs; other site 498761003964 glycerol kinase; Provisional; Region: glpK; PRK00047 498761003965 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 498761003966 N- and C-terminal domain interface [polypeptide binding]; other site 498761003967 active site 498761003968 MgATP binding site [chemical binding]; other site 498761003969 catalytic site [active] 498761003970 metal binding site [ion binding]; metal-binding site 498761003971 glycerol binding site [chemical binding]; other site 498761003972 homotetramer interface [polypeptide binding]; other site 498761003973 homodimer interface [polypeptide binding]; other site 498761003974 FBP binding site [chemical binding]; other site 498761003975 protein IIAGlc interface [polypeptide binding]; other site 498761003976 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 498761003977 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 498761003978 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 498761003979 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 498761003980 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 498761003981 Cysteine-rich domain; Region: CCG; pfam02754 498761003982 Cysteine-rich domain; Region: CCG; pfam02754 498761003983 pyruvate kinase; Provisional; Region: PRK06354 498761003984 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 498761003985 domain interfaces; other site 498761003986 active site 498761003987 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 498761003988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761003989 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 498761003990 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 498761003991 Phosphoglycerate kinase; Region: PGK; pfam00162 498761003992 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 498761003993 substrate binding site [chemical binding]; other site 498761003994 hinge regions; other site 498761003995 ADP binding site [chemical binding]; other site 498761003996 catalytic site [active] 498761003997 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 498761003998 substrate binding site [chemical binding]; other site 498761003999 dimer interface [polypeptide binding]; other site 498761004000 catalytic triad [active] 498761004001 enolase; Provisional; Region: eno; PRK00077 498761004002 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 498761004003 dimer interface [polypeptide binding]; other site 498761004004 metal binding site [ion binding]; metal-binding site 498761004005 substrate binding pocket [chemical binding]; other site 498761004006 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761004007 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761004008 dimer interface [polypeptide binding]; other site 498761004009 putative CheW interface [polypeptide binding]; other site 498761004010 NMT1-like family; Region: NMT1_2; cl15260 498761004011 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 498761004012 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 498761004013 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 498761004014 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 498761004015 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 498761004016 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 498761004017 putative active site [active] 498761004018 heme pocket [chemical binding]; other site 498761004019 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 498761004020 putative active site [active] 498761004021 heme pocket [chemical binding]; other site 498761004022 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 498761004023 putative active site [active] 498761004024 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 498761004025 heme pocket [chemical binding]; other site 498761004026 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 498761004027 dimer interface [polypeptide binding]; other site 498761004028 phosphorylation site [posttranslational modification] 498761004029 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 498761004030 ATP binding site [chemical binding]; other site 498761004031 Mg2+ binding site [ion binding]; other site 498761004032 G-X-G motif; other site 498761004033 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004034 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 498761004035 active site 498761004036 phosphorylation site [posttranslational modification] 498761004037 intermolecular recognition site; other site 498761004038 dimerization interface [polypeptide binding]; other site 498761004039 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 498761004040 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 498761004041 motif II; other site 498761004042 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 498761004043 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 498761004044 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 498761004045 active site 498761004046 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 498761004047 4Fe-4S binding domain; Region: Fer4; cl02805 498761004048 4Fe-4S binding domain; Region: Fer4; cl02805 498761004049 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498761004050 Transposase domain (DUF772); Region: DUF772; pfam05598 498761004051 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004052 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761004053 PAS domain S-box; Region: sensory_box; TIGR00229 498761004054 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 498761004055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 498761004056 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 498761004057 dimer interface [polypeptide binding]; other site 498761004058 phosphorylation site [posttranslational modification] 498761004059 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 498761004060 ATP binding site [chemical binding]; other site 498761004061 Mg2+ binding site [ion binding]; other site 498761004062 G-X-G motif; other site 498761004063 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from archaea and bacteria; Region: NTP-PPase_COG4997; cd11532 498761004064 metal binding site [ion binding]; metal-binding site 498761004065 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 498761004066 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 498761004067 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 498761004068 active site 498761004069 catalytic triad [active] 498761004070 oxyanion hole [active] 498761004071 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 498761004072 putative FMN binding site [chemical binding]; other site 498761004073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 498761004074 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 498761004075 ATP binding site [chemical binding]; other site 498761004076 Mg2+ binding site [ion binding]; other site 498761004077 G-X-G motif; other site 498761004078 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761004079 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761004080 putative active site [active] 498761004081 putative NTP binding site [chemical binding]; other site 498761004082 putative nucleic acid binding site [nucleotide binding]; other site 498761004083 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761004084 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 498761004085 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761004086 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 498761004087 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 498761004088 AIR carboxylase; Region: AIRC; cl00310 498761004089 Protein of unknown function DUF111; Region: DUF111; cl03398 498761004090 Protein of unknown function DUF111; Region: DUF111; cl03398 498761004091 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 498761004092 aspartate aminotransferase; Provisional; Region: PRK06836 498761004093 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 498761004094 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004095 homodimer interface [polypeptide binding]; other site 498761004096 catalytic residue [active] 498761004097 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 498761004098 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 498761004099 catalytic residues [active] 498761004100 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761004101 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 498761004102 active site 498761004103 phosphorylation site [posttranslational modification] 498761004104 intermolecular recognition site; other site 498761004105 dimerization interface [polypeptide binding]; other site 498761004106 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 498761004107 DNA binding site [nucleotide binding] 498761004108 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 498761004109 dimer interface [polypeptide binding]; other site 498761004110 phosphorylation site [posttranslational modification] 498761004111 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 498761004112 ATP binding site [chemical binding]; other site 498761004113 Mg2+ binding site [ion binding]; other site 498761004114 G-X-G motif; other site 498761004115 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498761004116 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 498761004117 Walker A/P-loop; other site 498761004118 ATP binding site [chemical binding]; other site 498761004119 Q-loop/lid; other site 498761004120 ABC transporter signature motif; other site 498761004121 Walker B; other site 498761004122 D-loop; other site 498761004123 H-loop/switch region; other site 498761004124 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761004125 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004126 Transposase domain (DUF772); Region: DUF772; pfam05598 498761004127 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004128 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761004129 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761004130 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 498761004131 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 498761004132 active site 498761004133 metal binding site [ion binding]; metal-binding site 498761004134 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 498761004135 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 498761004136 Transposase domain (DUF772); Region: DUF772; pfam05598 498761004137 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004138 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761004139 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 498761004140 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 498761004141 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 498761004142 transmembrane helices; other site 498761004143 Uncharacterized conserved protein [Function unknown]; Region: COG1284 498761004144 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 498761004145 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 498761004146 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498761004147 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 498761004148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761004149 dimer interface [polypeptide binding]; other site 498761004150 putative CheW interface [polypeptide binding]; other site 498761004151 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 498761004152 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761004153 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761004154 putative active site [active] 498761004155 putative NTP binding site [chemical binding]; other site 498761004156 putative nucleic acid binding site [nucleotide binding]; other site 498761004157 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761004158 Protein of unknown function (DUF445); Region: DUF445; pfam04286 498761004159 Protein of unknown function (DUF445); Region: DUF445; pfam04286 498761004160 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498761004161 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 498761004162 dimer interface [polypeptide binding]; other site 498761004163 phosphorylation site [posttranslational modification] 498761004164 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 498761004165 ATP binding site [chemical binding]; other site 498761004166 Mg2+ binding site [ion binding]; other site 498761004167 G-X-G motif; other site 498761004168 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 498761004169 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498761004170 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 498761004171 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 498761004172 G1 box; other site 498761004173 putative GEF interaction site [polypeptide binding]; other site 498761004174 GTP/Mg2+ binding site [chemical binding]; other site 498761004175 Switch I region; other site 498761004176 G2 box; other site 498761004177 G3 box; other site 498761004178 Switch II region; other site 498761004179 G4 box; other site 498761004180 G5 box; other site 498761004181 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 498761004182 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 498761004183 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 498761004184 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 498761004185 Carbon starvation protein CstA; Region: CstA; pfam02554 498761004186 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 498761004187 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 498761004188 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004189 active site 498761004190 phosphorylation site [posttranslational modification] 498761004191 intermolecular recognition site; other site 498761004192 dimerization interface [polypeptide binding]; other site 498761004193 LytTr DNA-binding domain; Region: LytTR; cl04498 498761004194 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 498761004195 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 498761004196 GAF domain; Region: GAF; cl15785 498761004197 Histidine kinase; Region: His_kinase; pfam06580 498761004198 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 498761004199 ATP binding site [chemical binding]; other site 498761004200 Mg2+ binding site [ion binding]; other site 498761004201 G-X-G motif; other site 498761004202 biotin synthase; Region: bioB; TIGR00433 498761004203 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 498761004204 FeS/SAM binding site; other site 498761004205 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 498761004206 Bacitracin resistance protein BacA; Region: BacA; cl00858 498761004207 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498761004208 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 498761004209 dimer interface [polypeptide binding]; other site 498761004210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004211 catalytic residue [active] 498761004212 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 498761004213 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 498761004214 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 498761004215 Ligand Binding Site [chemical binding]; other site 498761004216 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 498761004217 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498761004218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761004219 Walker A/P-loop; other site 498761004220 ATP binding site [chemical binding]; other site 498761004221 Q-loop/lid; other site 498761004222 ABC transporter signature motif; other site 498761004223 Walker B; other site 498761004224 D-loop; other site 498761004225 H-loop/switch region; other site 498761004226 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761004227 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 498761004228 Circularly permuted ATP-grasp type 2; Region: CP_ATPgrasp_2; cl00503 498761004229 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 498761004230 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 498761004231 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 498761004232 metal-binding site [ion binding] 498761004233 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 498761004234 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 498761004235 metal-binding site [ion binding] 498761004236 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498761004237 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 498761004238 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 498761004239 putative homodimer interface [polypeptide binding]; other site 498761004240 putative homotetramer interface [polypeptide binding]; other site 498761004241 putative allosteric switch controlling residues; other site 498761004242 putative metal binding site [ion binding]; other site 498761004243 putative homodimer-homodimer interface [polypeptide binding]; other site 498761004244 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 498761004245 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 498761004246 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 498761004247 putative CheA interaction surface; other site 498761004248 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 498761004249 putative carbohydrate kinase; Provisional; Region: PRK10565 498761004250 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 498761004251 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 498761004252 putative substrate binding site [chemical binding]; other site 498761004253 putative ATP binding site [chemical binding]; other site 498761004254 FOG: CBS domain [General function prediction only]; Region: COG0517 498761004255 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 498761004256 alanine racemase; Reviewed; Region: alr; PRK00053 498761004257 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 498761004258 active site 498761004259 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498761004260 dimer interface [polypeptide binding]; other site 498761004261 substrate binding site [chemical binding]; other site 498761004262 catalytic residues [active] 498761004263 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 498761004264 PemK-like protein; Region: PemK; cl00995 498761004265 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 498761004266 Peptidase C26; Region: Peptidase_C26; pfam07722 498761004267 catalytic triad [active] 498761004268 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761004269 Zn2+ binding site [ion binding]; other site 498761004270 Mg2+ binding site [ion binding]; other site 498761004271 L-asparaginase II; Region: Asparaginase_II; cl01842 498761004272 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 498761004273 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 498761004274 Amidohydrolase; Region: Amidohydro_4; pfam13147 498761004275 active site 498761004276 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004277 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 498761004278 active site 498761004279 phosphorylation site [posttranslational modification] 498761004280 intermolecular recognition site; other site 498761004281 dimerization interface [polypeptide binding]; other site 498761004282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761004283 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 498761004284 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 498761004285 Glycoprotease family; Region: Peptidase_M22; pfam00814 498761004286 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 498761004287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 498761004288 Coenzyme A binding pocket [chemical binding]; other site 498761004289 FOG: CBS domain [General function prediction only]; Region: COG0517 498761004290 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 498761004291 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 498761004292 substrate binding pocket [chemical binding]; other site 498761004293 dimer interface [polypeptide binding]; other site 498761004294 inhibitor binding site; inhibition site 498761004295 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 498761004296 S-adenosylmethionine binding site [chemical binding]; other site 498761004297 UGMP family protein; Validated; Region: PRK09604 498761004298 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 498761004299 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 498761004300 intersubunit interface [polypeptide binding]; other site 498761004301 active site 498761004302 Zn2+ binding site [ion binding]; other site 498761004303 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 498761004304 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498761004305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761004306 cystathionine gamma-synthase; Reviewed; Region: PRK08247 498761004307 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 498761004308 homodimer interface [polypeptide binding]; other site 498761004309 substrate-cofactor binding pocket; other site 498761004310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004311 catalytic residue [active] 498761004312 cystathionine beta-lyase; Provisional; Region: PRK08064 498761004313 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 498761004314 homodimer interface [polypeptide binding]; other site 498761004315 substrate-cofactor binding pocket; other site 498761004316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004317 catalytic residue [active] 498761004318 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498761004319 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 498761004320 dimer interface [polypeptide binding]; other site 498761004321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004322 catalytic residue [active] 498761004323 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 498761004324 Uncharacterized small protein (DUF2292); Region: DUF2292; cl02371 498761004325 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 498761004326 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 498761004327 Helix-turn-helix domains; Region: HTH; cl00088 498761004328 Transposase domain (DUF772); Region: DUF772; pfam05598 498761004329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004330 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761004331 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 498761004332 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 498761004333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004334 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 498761004335 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 498761004336 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 498761004337 putative dimer interface [polypeptide binding]; other site 498761004338 [2Fe-2S] cluster binding site [ion binding]; other site 498761004339 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 498761004340 dimer interface [polypeptide binding]; other site 498761004341 [2Fe-2S] cluster binding site [ion binding]; other site 498761004342 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 498761004343 SLBB domain; Region: SLBB; pfam10531 498761004344 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 498761004345 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 498761004346 4Fe-4S binding domain; Region: Fer4; cl02805 498761004347 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 498761004348 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 498761004349 catalytic loop [active] 498761004350 iron binding site [ion binding]; other site 498761004351 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 498761004352 4Fe-4S binding domain; Region: Fer4; cl02805 498761004353 4Fe-4S binding domain; Region: Fer4; cl02805 498761004354 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 498761004355 [4Fe-4S] binding site [ion binding]; other site 498761004356 molybdopterin cofactor binding site; other site 498761004357 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 498761004358 molybdopterin cofactor binding site; other site 498761004359 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 498761004360 DNA polymerase I; Region: pola; TIGR00593 498761004361 active site 498761004362 metal binding site 1 [ion binding]; metal-binding site 498761004363 putative 5' ssDNA interaction site; other site 498761004364 metal binding site 3; metal-binding site 498761004365 metal binding site 2 [ion binding]; metal-binding site 498761004366 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 498761004367 putative DNA binding site [nucleotide binding]; other site 498761004368 putative metal binding site [ion binding]; other site 498761004369 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 498761004370 active site 498761004371 substrate binding site [chemical binding]; other site 498761004372 catalytic site [active] 498761004373 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 498761004374 active site 498761004375 DNA binding site [nucleotide binding] 498761004376 catalytic site [active] 498761004377 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 498761004378 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 498761004379 DNA binding site [nucleotide binding] 498761004380 catalytic residue [active] 498761004381 H2TH interface [polypeptide binding]; other site 498761004382 putative catalytic residues [active] 498761004383 turnover-facilitating residue; other site 498761004384 intercalation triad [nucleotide binding]; other site 498761004385 8OG recognition residue [nucleotide binding]; other site 498761004386 putative reading head residues; other site 498761004387 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 498761004388 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 498761004389 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 498761004390 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 498761004391 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 498761004392 ABC transporter; Region: ABC_tran_2; pfam12848 498761004393 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 498761004394 ABC transporter; Region: ABC_tran_2; pfam12848 498761004395 putative sporulation protein YtaF; Region: spore_YtaF; TIGR02840 498761004396 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 498761004397 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 498761004398 CoA-binding site [chemical binding]; other site 498761004399 ATP-binding [chemical binding]; other site 498761004400 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 498761004401 N-acetyl-D-glucosamine binding site [chemical binding]; other site 498761004402 catalytic residue [active] 498761004403 Protein of unknown function (DUF421); Region: DUF421; cl00990 498761004404 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 498761004405 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 498761004406 DXD motif; other site 498761004407 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 498761004408 spermidine synthase; Provisional; Region: PRK00811 498761004409 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 498761004410 S-adenosylmethionine binding site [chemical binding]; other site 498761004411 TspO/MBR family; Region: TspO_MBR; cl01379 498761004412 NlpC/P60 family; Region: NLPC_P60; cl11438 498761004413 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761004414 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 498761004415 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761004416 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 498761004417 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 498761004418 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 498761004419 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761004420 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 498761004421 active site 498761004422 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 498761004423 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 498761004424 LysE type translocator; Region: LysE; cl00565 498761004425 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 498761004426 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 498761004427 synthetase active site [active] 498761004428 NTP binding site [chemical binding]; other site 498761004429 metal binding site [ion binding]; metal-binding site 498761004430 Protein of unknown function (DUF458); Region: DUF458; cl00861 498761004431 YtxC-like family; Region: YtxC; cl08500 498761004432 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 498761004433 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 498761004434 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 498761004435 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 498761004436 active site 498761004437 dimer interface [polypeptide binding]; other site 498761004438 motif 1; other site 498761004439 motif 2; other site 498761004440 motif 3; other site 498761004441 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 498761004442 anticodon binding site; other site 498761004443 AMP-binding enzyme; Region: AMP-binding; cl15778 498761004444 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 498761004445 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 498761004446 AMP-binding enzyme; Region: AMP-binding; cl15778 498761004447 AMP-binding enzyme; Region: AMP-binding; cl15778 498761004448 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 498761004449 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 498761004450 putative active site; other site 498761004451 catalytic residue [active] 498761004452 3-dehydroquinate synthase (EC 4.6.1.3); Region: DHQS; cl00640 498761004453 translation initiation factor IF-3; Region: infC; TIGR00168 498761004454 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 498761004455 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 498761004456 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 498761004457 ribosomal protein L20; Region: rpl20; CHL00068 498761004458 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 498761004459 23S rRNA binding site [nucleotide binding]; other site 498761004460 L21 binding site [polypeptide binding]; other site 498761004461 L13 binding site [polypeptide binding]; other site 498761004462 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 498761004463 Cation transport protein; Region: TrkH; cl10514 498761004464 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 498761004465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004466 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 498761004467 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 498761004468 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 498761004469 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 498761004470 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 498761004471 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 498761004472 dimer interface [polypeptide binding]; other site 498761004473 motif 1; other site 498761004474 active site 498761004475 motif 2; other site 498761004476 motif 3; other site 498761004477 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 498761004478 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 498761004479 putative tRNA-binding site [nucleotide binding]; other site 498761004480 B3/4 domain; Region: B3_4; cl11458 498761004481 tRNA synthetase B5 domain; Region: B5; cl08394 498761004482 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 498761004483 dimer interface [polypeptide binding]; other site 498761004484 motif 1; other site 498761004485 motif 3; other site 498761004486 motif 2; other site 498761004487 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 498761004488 Cell division protein ZapA; Region: ZapA; cl01146 498761004489 hypothetical protein; Provisional; Region: PRK08609 498761004490 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 498761004491 metal binding triad [ion binding]; metal-binding site 498761004492 Uncharacterized conserved protein [Function unknown]; Region: COG0327 498761004493 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 498761004494 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 498761004495 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 498761004496 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 498761004497 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 498761004498 Peptidase family U32; Region: Peptidase_U32; cl03113 498761004499 Collagenase; Region: DUF3656; pfam12392 498761004500 Peptidase family U32; Region: Peptidase_U32; cl03113 498761004501 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 498761004502 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 498761004503 Walker A/P-loop; other site 498761004504 ATP binding site [chemical binding]; other site 498761004505 Q-loop/lid; other site 498761004506 ABC transporter signature motif; other site 498761004507 Walker B; other site 498761004508 D-loop; other site 498761004509 H-loop/switch region; other site 498761004510 Smr domain; Region: Smr; cl02619 498761004511 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 498761004512 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 498761004513 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 498761004514 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 498761004515 dimer interface [polypeptide binding]; other site 498761004516 phosphorylation site [posttranslational modification] 498761004517 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 498761004518 ATP binding site [chemical binding]; other site 498761004519 Mg2+ binding site [ion binding]; other site 498761004520 G-X-G motif; other site 498761004521 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761004522 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 498761004523 active site 498761004524 phosphorylation site [posttranslational modification] 498761004525 intermolecular recognition site; other site 498761004526 dimerization interface [polypeptide binding]; other site 498761004527 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 498761004528 DNA binding site [nucleotide binding] 498761004529 Transglycosylase; Region: Transgly; cl07896 498761004530 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 498761004531 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761004532 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 498761004533 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 498761004534 active site 498761004535 HIGH motif; other site 498761004536 dimer interface [polypeptide binding]; other site 498761004537 KMSKS motif; other site 498761004538 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 498761004539 Sporulation protein YunB (Spo_YunB); Region: Spore_YunB; cl09783 498761004540 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 498761004541 Predicted RNA-binding protein; Region: RNA_bind_2; cl00662 498761004542 Transcriptional regulator; Region: Transcrip_reg; cl00361 498761004543 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 498761004544 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 498761004545 putative DNA binding site [nucleotide binding]; other site 498761004546 putative Zn2+ binding site [ion binding]; other site 498761004547 AsnC family; Region: AsnC_trans_reg; pfam01037 498761004548 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 498761004549 active site 498761004550 putative DNA-binding cleft [nucleotide binding]; other site 498761004551 dimer interface [polypeptide binding]; other site 498761004552 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 498761004553 RuvA N terminal domain; Region: RuvA_N; pfam01330 498761004554 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 498761004555 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 498761004556 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 498761004557 Walker A motif; other site 498761004558 ATP binding site [chemical binding]; other site 498761004559 Walker B motif; other site 498761004560 arginine finger; other site 498761004561 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 498761004562 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 498761004563 putative RNA polymerase sigma factor SigI; Reviewed; Region: PRK08311 498761004564 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761004565 Anti-sigma factor N-terminus; Region: RsgI_N; pfam12791 498761004566 Stage II sporulation protein; Region: SpoIID; pfam08486 498761004567 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 498761004568 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 498761004569 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 498761004570 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 498761004571 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 498761004572 Preprotein translocase subunit; Region: YajC; cl00806 498761004573 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 498761004574 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761004575 Zn2+ binding site [ion binding]; other site 498761004576 Mg2+ binding site [ion binding]; other site 498761004577 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 498761004578 Protein export membrane protein; Region: SecD_SecF; cl14618 498761004579 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 498761004580 Protein export membrane protein; Region: SecD_SecF; cl14618 498761004581 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498761004582 Cation efflux family; Region: Cation_efflux; cl00316 498761004583 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 498761004584 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761004585 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 498761004586 synthetase active site [active] 498761004587 NTP binding site [chemical binding]; other site 498761004588 metal binding site [ion binding]; metal-binding site 498761004589 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 498761004590 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 498761004591 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 498761004592 putative active site [active] 498761004593 dimerization interface [polypeptide binding]; other site 498761004594 putative tRNAtyr binding site [nucleotide binding]; other site 498761004595 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761004596 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 498761004597 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 498761004598 FeS/SAM binding site; other site 498761004599 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 498761004600 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 498761004601 dimer interface [polypeptide binding]; other site 498761004602 motif 1; other site 498761004603 active site 498761004604 motif 2; other site 498761004605 motif 3; other site 498761004606 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 498761004607 anticodon binding site; other site 498761004608 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 498761004609 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 498761004610 dimer interface [polypeptide binding]; other site 498761004611 anticodon binding site; other site 498761004612 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 498761004613 homodimer interface [polypeptide binding]; other site 498761004614 motif 1; other site 498761004615 active site 498761004616 motif 2; other site 498761004617 GAD domain; Region: GAD; pfam02938 498761004618 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 498761004619 active site 498761004620 motif 3; other site 498761004621 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 498761004622 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 498761004623 putative ATP binding site [chemical binding]; other site 498761004624 putative substrate interface [chemical binding]; other site 498761004625 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 498761004626 putative homodimer interface [polypeptide binding]; other site 498761004627 putative homotetramer interface [polypeptide binding]; other site 498761004628 putative allosteric switch controlling residues; other site 498761004629 putative metal binding site [ion binding]; other site 498761004630 putative homodimer-homodimer interface [polypeptide binding]; other site 498761004631 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 498761004632 catalytic residues [active] 498761004633 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004634 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 498761004635 active site 498761004636 phosphorylation site [posttranslational modification] 498761004637 intermolecular recognition site; other site 498761004638 dimerization interface [polypeptide binding]; other site 498761004639 PAS domain S-box; Region: sensory_box; TIGR00229 498761004640 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 498761004641 putative active site [active] 498761004642 heme pocket [chemical binding]; other site 498761004643 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 498761004644 PAS domain; Region: PAS_9; pfam13426 498761004645 putative active site [active] 498761004646 heme pocket [chemical binding]; other site 498761004647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761004648 metal binding site [ion binding]; metal-binding site 498761004649 active site 498761004650 I-site; other site 498761004651 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 498761004652 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 498761004653 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 498761004654 FeS/SAM binding site; other site 498761004655 Adenosylcobinamide amidohydrolase; Region: CbiZ; cl00808 498761004656 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 498761004657 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 498761004658 Prenyltransferase-like; Region: Prenyltrans_1; pfam13243 498761004659 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 498761004660 S-layer homology domain; Region: SLH; pfam00395 498761004661 S-layer homology domain; Region: SLH; pfam00395 498761004662 Cobalt transport protein; Region: CbiQ; cl00463 498761004663 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 498761004664 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 498761004665 Walker A/P-loop; other site 498761004666 ATP binding site [chemical binding]; other site 498761004667 Q-loop/lid; other site 498761004668 ABC transporter signature motif; other site 498761004669 Walker B; other site 498761004670 D-loop; other site 498761004671 H-loop/switch region; other site 498761004672 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 498761004673 Walker A/P-loop; other site 498761004674 ATP binding site [chemical binding]; other site 498761004675 Q-loop/lid; other site 498761004676 ABC transporter signature motif; other site 498761004677 Walker B; other site 498761004678 D-loop; other site 498761004679 H-loop/switch region; other site 498761004680 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 498761004681 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 498761004682 photolyase PhrII; Region: phr2; TIGR00591 498761004683 DNA photolyase; Region: DNA_photolyase; pfam00875 498761004684 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 498761004685 Helix-turn-helix domains; Region: HTH; cl00088 498761004686 Rrf2 family protein; Region: rrf2_super; TIGR00738 498761004687 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 498761004688 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 498761004689 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761004690 catalytic residue [active] 498761004691 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 498761004692 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 498761004693 trimerization site [polypeptide binding]; other site 498761004694 active site 498761004695 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 498761004696 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 498761004697 Ligand Binding Site [chemical binding]; other site 498761004698 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 498761004699 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 498761004700 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 498761004701 Domain of unknown function DUF20; Region: UPF0118; pfam01594 498761004702 Transposase domain (DUF772); Region: DUF772; pfam05598 498761004703 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761004704 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761004705 Transposase; Region: DEDD_Tnp_IS110; pfam01548 498761004706 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 498761004707 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 498761004708 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 498761004709 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 498761004710 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_21; cd08520 498761004711 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 498761004712 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 498761004713 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 498761004714 dimer interface [polypeptide binding]; other site 498761004715 conserved gate region; other site 498761004716 putative PBP binding loops; other site 498761004717 ABC-ATPase subunit interface; other site 498761004718 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 498761004719 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 498761004720 dimer interface [polypeptide binding]; other site 498761004721 conserved gate region; other site 498761004722 putative PBP binding loops; other site 498761004723 ABC-ATPase subunit interface; other site 498761004724 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 498761004725 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 498761004726 Walker A/P-loop; other site 498761004727 ATP binding site [chemical binding]; other site 498761004728 Q-loop/lid; other site 498761004729 ABC transporter signature motif; other site 498761004730 Walker B; other site 498761004731 D-loop; other site 498761004732 H-loop/switch region; other site 498761004733 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 498761004734 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 498761004735 Walker A/P-loop; other site 498761004736 ATP binding site [chemical binding]; other site 498761004737 Q-loop/lid; other site 498761004738 ABC transporter signature motif; other site 498761004739 Walker B; other site 498761004740 D-loop; other site 498761004741 H-loop/switch region; other site 498761004742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761004743 diaminopimelate decarboxylase; Region: lysA; TIGR01048 498761004744 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 498761004745 active site 498761004746 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498761004747 substrate binding site [chemical binding]; other site 498761004748 catalytic residues [active] 498761004749 dimer interface [polypeptide binding]; other site 498761004750 DHH family; Region: DHH; pfam01368 498761004751 FOG: CBS domain [General function prediction only]; Region: COG0517 498761004752 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 498761004753 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 498761004754 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 498761004755 active site 498761004756 NTP binding site [chemical binding]; other site 498761004757 metal binding triad [ion binding]; metal-binding site 498761004758 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 498761004759 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761004760 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 498761004761 active site 498761004762 putative substrate binding region [chemical binding]; other site 498761004763 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 498761004764 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 498761004765 active site 498761004766 HIGH motif; other site 498761004767 dimer interface [polypeptide binding]; other site 498761004768 KMSKS motif; other site 498761004769 ScpA/B protein; Region: ScpA_ScpB; cl00598 498761004770 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 498761004771 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 498761004772 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 498761004773 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 498761004774 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 498761004775 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 498761004776 homodimer interface [polypeptide binding]; other site 498761004777 NADP binding site [chemical binding]; other site 498761004778 substrate binding site [chemical binding]; other site 498761004779 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 498761004780 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 498761004781 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 498761004782 Transglycosylase; Region: Transgly; cl07896 498761004783 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 498761004784 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761004785 Nucleoside recognition; Region: Gate; cl00486 498761004786 Nucleoside recognition; Region: Gate; cl00486 498761004787 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 498761004788 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 498761004789 RNA binding surface [nucleotide binding]; other site 498761004790 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 498761004791 active site 498761004792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761004793 Walker A motif; other site 498761004794 ATP binding site [chemical binding]; other site 498761004795 Walker B motif; other site 498761004796 flavoprotein, HI0933 family; Region: TIGR00275 498761004797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004798 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 498761004799 hexamer interface [polypeptide binding]; other site 498761004800 RNA binding site [nucleotide binding]; other site 498761004801 Histidine-zinc binding site [chemical binding]; other site 498761004802 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 498761004803 homotrimer interaction site [polypeptide binding]; other site 498761004804 active site 498761004805 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004806 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 498761004807 active site 498761004808 phosphorylation site [posttranslational modification] 498761004809 intermolecular recognition site; other site 498761004810 dimerization interface [polypeptide binding]; other site 498761004811 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 498761004812 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761004813 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761004814 putative active site [active] 498761004815 putative NTP binding site [chemical binding]; other site 498761004816 putative nucleic acid binding site [nucleotide binding]; other site 498761004817 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761004818 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 498761004819 B12 binding site [chemical binding]; other site 498761004820 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498761004821 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 498761004822 putative active site [active] 498761004823 heme pocket [chemical binding]; other site 498761004824 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 498761004825 dimer interface [polypeptide binding]; other site 498761004826 phosphorylation site [posttranslational modification] 498761004827 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 498761004828 ATP binding site [chemical binding]; other site 498761004829 Mg2+ binding site [ion binding]; other site 498761004830 G-X-G motif; other site 498761004831 Response regulator receiver domain; Region: Response_reg; pfam00072 498761004832 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 498761004833 active site 498761004834 phosphorylation site [posttranslational modification] 498761004835 intermolecular recognition site; other site 498761004836 dimerization interface [polypeptide binding]; other site 498761004837 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 498761004838 active site 498761004839 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 498761004840 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004841 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 498761004842 DsrE/DsrF-like family; Region: DrsE; cl00672 498761004843 C-terminal peptidase (prc); Region: prc; TIGR00225 498761004844 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 498761004845 protein binding site [polypeptide binding]; other site 498761004846 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 498761004847 Catalytic dyad [active] 498761004848 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761004849 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 498761004850 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 498761004851 chorismate binding enzyme; Region: Chorismate_bind; cl10555 498761004852 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 498761004853 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 498761004854 glutamine binding [chemical binding]; other site 498761004855 catalytic triad [active] 498761004856 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 498761004857 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 498761004858 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 498761004859 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 498761004860 active site 498761004861 ribulose/triose binding site [chemical binding]; other site 498761004862 phosphate binding site [ion binding]; other site 498761004863 substrate (anthranilate) binding pocket [chemical binding]; other site 498761004864 product (indole) binding pocket [chemical binding]; other site 498761004865 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 498761004866 active site 498761004867 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 498761004868 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 498761004869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004870 catalytic residue [active] 498761004871 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 498761004872 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 498761004873 substrate binding site [chemical binding]; other site 498761004874 active site 498761004875 catalytic residues [active] 498761004876 heterodimer interface [polypeptide binding]; other site 498761004877 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 498761004878 NeuB family; Region: NeuB; cl00496 498761004879 prephenate dehydratase; Provisional; Region: PRK11898 498761004880 Prephenate dehydratase; Region: PDT; pfam00800 498761004881 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 498761004882 putative L-Phe binding site [chemical binding]; other site 498761004883 prephenate dehydrogenase; Validated; Region: PRK06545 498761004884 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004885 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 498761004886 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 498761004887 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 498761004888 hinge; other site 498761004889 active site 498761004890 cytidylate kinase; Provisional; Region: cmk; PRK00023 498761004891 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 498761004892 CMP-binding site; other site 498761004893 The sites determining sugar specificity; other site 498761004894 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 498761004895 putative acyl-acceptor binding pocket; other site 498761004896 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 498761004897 LytB protein; Region: LYTB; cl00507 498761004898 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 498761004899 RNA binding site [nucleotide binding]; other site 498761004900 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 498761004901 RNA binding site [nucleotide binding]; other site 498761004902 S1_RPS1_repeat_ec3: 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_ec3; cd05688 498761004903 RNA binding site [nucleotide binding]; other site 498761004904 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 498761004905 RNA binding site [nucleotide binding]; other site 498761004906 DNA topoisomerase III; Provisional; Region: PRK07726 498761004907 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 498761004908 active site 498761004909 putative metal-binding site [ion binding]; other site 498761004910 putative interdomain interaction site [polypeptide binding]; other site 498761004911 putative nucleotide binding site [chemical binding]; other site 498761004912 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 498761004913 domain I; other site 498761004914 DNA binding groove [nucleotide binding] 498761004915 phosphate binding site [ion binding]; other site 498761004916 domain II; other site 498761004917 domain III; other site 498761004918 nucleotide binding site [chemical binding]; other site 498761004919 catalytic site [active] 498761004920 domain IV; other site 498761004921 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 498761004922 104 kDa microneme/rhoptry antigen; Provisional; Region: PTZ00449 498761004923 hypothetical protein; Provisional; Region: PRK04435 498761004924 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 498761004925 homoserine dehydrogenase; Provisional; Region: PRK06349 498761004926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004927 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 498761004928 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 498761004929 threonine synthase; Reviewed; Region: PRK06721 498761004930 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 498761004931 homodimer interface [polypeptide binding]; other site 498761004932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004933 catalytic residue [active] 498761004934 homoserine kinase; Provisional; Region: PRK01212 498761004935 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 498761004936 aspartate kinase; Reviewed; Region: PRK06635 498761004937 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 498761004938 putative nucleotide binding site [chemical binding]; other site 498761004939 putative catalytic residues [active] 498761004940 putative Mg ion binding site [ion binding]; other site 498761004941 putative aspartate binding site [chemical binding]; other site 498761004942 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 498761004943 putative allosteric regulatory site; other site 498761004944 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 498761004945 putative allosteric regulatory residue; other site 498761004946 Coat F domain; Region: Coat_F; cl15836 498761004947 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 498761004948 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 498761004949 inhibitor-cofactor binding pocket; inhibition site 498761004950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761004951 catalytic residue [active] 498761004952 N-terminal and C-terminal aromatase/cyclase domains of Streptomyces rimosus OtcD1 and related domains; Region: OtcD1_ARO-CYC_like; cd08861 498761004953 putative hydrophobic ligand binding site [chemical binding]; other site 498761004954 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 498761004955 substrate binding pocket [chemical binding]; other site 498761004956 aspartate-rich region 1; other site 498761004957 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 498761004958 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 498761004959 S-adenosylmethionine binding site [chemical binding]; other site 498761004960 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 498761004961 UbiA prenyltransferase family; Region: UbiA; cl00337 498761004962 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 498761004963 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 498761004964 FeS/SAM binding site; other site 498761004965 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 498761004966 NMT1-like family; Region: NMT1_2; cl15260 498761004967 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 498761004968 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 498761004969 FeS/SAM binding site; other site 498761004970 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 498761004971 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 498761004972 octamerization interface [polypeptide binding]; other site 498761004973 diferric-oxygen binding site [ion binding]; other site 498761004974 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 498761004975 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761004976 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761004977 CheD chemotactic sensory transduction; Region: CheD; cl00810 498761004978 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 498761004979 4Fe-4S binding domain; Region: Fer4_5; pfam12801 498761004980 4Fe-4S binding domain; Region: Fer4; cl02805 498761004981 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 498761004982 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 498761004983 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 498761004984 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 498761004985 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 498761004986 substrate binding pocket [chemical binding]; other site 498761004987 chain length determination region; other site 498761004988 substrate-Mg2+ binding site; other site 498761004989 catalytic residues [active] 498761004990 aspartate-rich region 1; other site 498761004991 active site lid residues [active] 498761004992 aspartate-rich region 2; other site 498761004993 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 498761004994 ResB-like family; Region: ResB; pfam05140 498761004995 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 498761004996 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 498761004997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761004998 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 498761004999 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 498761005000 tRNA; other site 498761005001 putative tRNA binding site [nucleotide binding]; other site 498761005002 putative NADP binding site [chemical binding]; other site 498761005003 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 498761005004 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 498761005005 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 498761005006 domain interfaces; other site 498761005007 active site 498761005008 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761005009 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 498761005010 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 498761005011 active site 498761005012 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 498761005013 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 498761005014 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 498761005015 FeS/SAM binding site; other site 498761005016 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 498761005017 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 498761005018 dimer interface [polypeptide binding]; other site 498761005019 active site 498761005020 Schiff base residues; other site 498761005021 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 498761005022 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 498761005023 FeS/SAM binding site; other site 498761005024 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 498761005025 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 498761005026 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 498761005027 Helix-turn-helix domains; Region: HTH; cl00088 498761005028 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 498761005029 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 498761005030 inhibitor-cofactor binding pocket; inhibition site 498761005031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761005032 catalytic residue [active] 498761005033 EamA-like transporter family; Region: EamA; cl01037 498761005034 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 498761005035 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 498761005036 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 498761005037 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 498761005038 PYR/PP interface [polypeptide binding]; other site 498761005039 dimer interface [polypeptide binding]; other site 498761005040 TPP binding site [chemical binding]; other site 498761005041 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 498761005042 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 498761005043 TPP-binding site [chemical binding]; other site 498761005044 dimer interface [polypeptide binding]; other site 498761005045 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 498761005046 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 498761005047 putative valine binding site [chemical binding]; other site 498761005048 dimer interface [polypeptide binding]; other site 498761005049 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 498761005050 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 498761005051 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 498761005052 homotetramer interface [polypeptide binding]; other site 498761005053 FMN binding site [chemical binding]; other site 498761005054 homodimer contacts [polypeptide binding]; other site 498761005055 putative active site [active] 498761005056 putative substrate binding site [chemical binding]; other site 498761005057 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 498761005058 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 498761005059 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 498761005060 Protein of unknown function (DUF512); Region: DUF512; pfam04459 498761005061 GTP-binding protein Der; Reviewed; Region: PRK00093 498761005062 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 498761005063 G1 box; other site 498761005064 GTP/Mg2+ binding site [chemical binding]; other site 498761005065 Switch I region; other site 498761005066 G2 box; other site 498761005067 Switch II region; other site 498761005068 G3 box; other site 498761005069 G4 box; other site 498761005070 G5 box; other site 498761005071 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 498761005072 G1 box; other site 498761005073 GTP/Mg2+ binding site [chemical binding]; other site 498761005074 Switch I region; other site 498761005075 G2 box; other site 498761005076 G3 box; other site 498761005077 Switch II region; other site 498761005078 G4 box; other site 498761005079 G5 box; other site 498761005080 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 498761005081 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 498761005082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761005083 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 498761005084 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 498761005085 NeuB family; Region: NeuB; cl00496 498761005086 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; cl09772 498761005087 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 498761005088 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 498761005089 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761005090 Zn2+ binding site [ion binding]; other site 498761005091 Mg2+ binding site [ion binding]; other site 498761005092 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 498761005093 DNA primase; Validated; Region: dnaG; PRK05667 498761005094 CHC2 zinc finger; Region: zf-CHC2; cl15369 498761005095 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 498761005096 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 498761005097 active site 498761005098 metal binding site [ion binding]; metal-binding site 498761005099 interdomain interaction site; other site 498761005100 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 498761005101 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 498761005102 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 498761005103 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 498761005104 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 498761005105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761005106 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498761005107 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 498761005108 DNA binding residues [nucleotide binding] 498761005109 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761005110 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 498761005111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 498761005112 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 498761005113 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 498761005114 active site 498761005115 metal binding site [ion binding]; metal-binding site 498761005116 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 498761005117 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498761005118 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 498761005119 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 498761005120 GTP binding site; other site 498761005121 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 498761005122 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 498761005123 Walker A motif; other site 498761005124 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 498761005125 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 498761005126 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 498761005127 Cysteine-rich domain; Region: CCG; pfam02754 498761005128 Cysteine-rich domain; Region: CCG; pfam02754 498761005129 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 498761005130 4Fe-4S binding domain; Region: Fer4; cl02805 498761005131 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 498761005132 F420H2 dehydrogenase subunit F; Provisional; Region: PRK09326 498761005133 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 498761005134 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 498761005135 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 498761005136 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 498761005137 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 498761005138 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 498761005139 FAD binding pocket [chemical binding]; other site 498761005140 FAD binding motif [chemical binding]; other site 498761005141 phosphate binding motif [ion binding]; other site 498761005142 beta-alpha-beta structure motif; other site 498761005143 NAD binding pocket [chemical binding]; other site 498761005144 Iron coordination center [ion binding]; other site 498761005145 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 498761005146 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 498761005147 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 498761005148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761005149 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 498761005150 ligand binding site [chemical binding]; other site 498761005151 flexible hinge region; other site 498761005152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 498761005153 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 498761005154 Response regulator receiver domain; Region: Response_reg; pfam00072 498761005155 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 498761005156 active site 498761005157 phosphorylation site [posttranslational modification] 498761005158 intermolecular recognition site; other site 498761005159 dimerization interface [polypeptide binding]; other site 498761005160 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 498761005161 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761005162 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498761005163 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 498761005164 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 498761005165 dimer interface [polypeptide binding]; other site 498761005166 phosphorylation site [posttranslational modification] 498761005167 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 498761005168 ATP binding site [chemical binding]; other site 498761005169 Mg2+ binding site [ion binding]; other site 498761005170 G-X-G motif; other site 498761005171 Response regulator receiver domain; Region: Response_reg; pfam00072 498761005172 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 498761005173 active site 498761005174 phosphorylation site [posttranslational modification] 498761005175 intermolecular recognition site; other site 498761005176 dimerization interface [polypeptide binding]; other site 498761005177 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761005178 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 498761005179 binding surface 498761005180 Tetratricopeptide repeat; Region: TPR_16; pfam13432 498761005181 TPR motif; other site 498761005182 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 498761005183 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 498761005184 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 498761005185 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498761005186 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761005187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761005188 dimer interface [polypeptide binding]; other site 498761005189 putative CheW interface [polypeptide binding]; other site 498761005190 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 498761005191 putative binding surface; other site 498761005192 active site 498761005193 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 498761005194 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 498761005195 ATP binding site [chemical binding]; other site 498761005196 Mg2+ binding site [ion binding]; other site 498761005197 G-X-G motif; other site 498761005198 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 498761005199 Response regulator receiver domain; Region: Response_reg; pfam00072 498761005200 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 498761005201 active site 498761005202 phosphorylation site [posttranslational modification] 498761005203 intermolecular recognition site; other site 498761005204 dimerization interface [polypeptide binding]; other site 498761005205 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 498761005206 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 498761005207 active site 498761005208 phosphorylation site [posttranslational modification] 498761005209 intermolecular recognition site; other site 498761005210 dimerization interface [polypeptide binding]; other site 498761005211 CheB methylesterase; Region: CheB_methylest; pfam01339 498761005212 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 498761005213 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 498761005214 FeS/SAM binding site; other site 498761005215 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 498761005216 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 498761005217 phosphate binding site [ion binding]; other site 498761005218 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 498761005219 thiS-thiF/thiG interaction site; other site 498761005220 DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the...; Region: ABC_DrrA; cd03265 498761005221 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 498761005222 Walker A/P-loop; other site 498761005223 ATP binding site [chemical binding]; other site 498761005224 Q-loop/lid; other site 498761005225 ABC transporter signature motif; other site 498761005226 Walker B; other site 498761005227 D-loop; other site 498761005228 H-loop/switch region; other site 498761005229 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761005230 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 498761005231 homodimer interface [polypeptide binding]; other site 498761005232 substrate-cofactor binding pocket; other site 498761005233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761005234 catalytic residue [active] 498761005235 histidinol-phosphatase; Provisional; Region: PRK07328 498761005236 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 498761005237 SxDxEG motif; other site 498761005238 active site 498761005239 metal binding site [ion binding]; metal-binding site 498761005240 homopentamer interface [polypeptide binding]; other site 498761005241 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 498761005242 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 498761005243 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 498761005244 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 498761005245 4Fe-4S binding domain; Region: Fer4; cl02805 498761005246 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498761005247 metal binding site 2 [ion binding]; metal-binding site 498761005248 putative DNA binding helix; other site 498761005249 metal binding site 1 [ion binding]; metal-binding site 498761005250 dimer interface [polypeptide binding]; other site 498761005251 structural Zn2+ binding site [ion binding]; other site 498761005252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 498761005253 Uncharacterized conserved protein [Function unknown]; Region: COG1543 498761005254 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 498761005255 active site 498761005256 substrate binding site [chemical binding]; other site 498761005257 catalytic site [active] 498761005258 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 498761005259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498761005260 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 498761005261 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 498761005262 metal binding site [ion binding]; metal-binding site 498761005263 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 498761005264 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 498761005265 ATP binding site [chemical binding]; other site 498761005266 substrate interface [chemical binding]; other site 498761005267 Flavoprotein; Region: Flavoprotein; cl08021 498761005268 aromatic acid decarboxylase; Validated; Region: PRK05920 498761005269 cell division protein MraZ; Reviewed; Region: PRK00326 498761005270 MraZ protein; Region: MraZ; pfam02381 498761005271 MraZ protein; Region: MraZ; pfam02381 498761005272 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 498761005273 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761005274 Septum formation initiator; Region: DivIC; cl11433 498761005275 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 498761005276 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498761005277 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761005278 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 498761005279 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 498761005280 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 498761005281 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498761005282 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761005283 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498761005284 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 498761005285 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498761005286 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761005287 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 498761005288 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 498761005289 Mg++ binding site [ion binding]; other site 498761005290 putative catalytic motif [active] 498761005291 putative substrate binding site [chemical binding]; other site 498761005292 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK14106 498761005293 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761005294 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498761005295 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 498761005296 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 498761005297 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 498761005298 homodimer interface [polypeptide binding]; other site 498761005299 active site 498761005300 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 498761005301 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 498761005302 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761005303 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498761005304 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 498761005305 FAD binding domain; Region: FAD_binding_4; pfam01565 498761005306 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 498761005307 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 498761005308 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 498761005309 hinge; other site 498761005310 active site 498761005311 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 498761005312 Cell division protein FtsQ; Region: FtsQ; pfam03799 498761005313 cell division protein FtsZ; Validated; Region: PRK09330 498761005314 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 498761005315 nucleotide binding site [chemical binding]; other site 498761005316 SulA interaction site; other site 498761005317 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 498761005318 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 498761005319 sporulation sigma factor SigE; Reviewed; Region: PRK08301 498761005320 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761005321 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 498761005322 DNA binding residues [nucleotide binding] 498761005323 sporulation sigma factor SigG; Reviewed; Region: PRK08215 498761005324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761005325 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498761005326 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 498761005327 DNA binding residues [nucleotide binding] 498761005328 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 498761005329 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 498761005330 ATP cone domain; Region: ATP-cone; pfam03477 498761005331 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 498761005332 ATP cone domain; Region: ATP-cone; pfam03477 498761005333 Class III ribonucleotide reductase; Region: RNR_III; cd01675 498761005334 effector binding site; other site 498761005335 active site 498761005336 Zn binding site [ion binding]; other site 498761005337 glycine loop; other site 498761005338 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 498761005339 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 498761005340 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 498761005341 catalytic core [active] 498761005342 ThiC family; Region: ThiC; cl08031 498761005343 ThiC family; Region: ThiC; cl08031 498761005344 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 498761005345 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 498761005346 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 498761005347 FeS/SAM binding site; other site 498761005348 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 498761005349 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 498761005350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761005351 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 498761005352 active site 498761005353 phosphorylation site [posttranslational modification] 498761005354 intermolecular recognition site; other site 498761005355 dimerization interface [polypeptide binding]; other site 498761005356 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 498761005357 DNA binding site [nucleotide binding] 498761005358 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 498761005359 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 498761005360 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 498761005361 dimer interface [polypeptide binding]; other site 498761005362 phosphorylation site [posttranslational modification] 498761005363 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 498761005364 ATP binding site [chemical binding]; other site 498761005365 Mg2+ binding site [ion binding]; other site 498761005366 G-X-G motif; other site 498761005367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761005368 metal binding site [ion binding]; metal-binding site 498761005369 active site 498761005370 I-site; other site 498761005371 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 498761005372 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 498761005373 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761005374 metal binding site [ion binding]; metal-binding site 498761005375 active site 498761005376 I-site; other site 498761005377 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 498761005378 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 498761005379 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 498761005380 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 498761005381 dimer interface [polypeptide binding]; other site 498761005382 conserved gate region; other site 498761005383 putative PBP binding loops; other site 498761005384 ABC-ATPase subunit interface; other site 498761005385 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 498761005386 dimer interface [polypeptide binding]; other site 498761005387 conserved gate region; other site 498761005388 putative PBP binding loops; other site 498761005389 ABC-ATPase subunit interface; other site 498761005390 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 498761005391 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 498761005392 Walker A/P-loop; other site 498761005393 ATP binding site [chemical binding]; other site 498761005394 Q-loop/lid; other site 498761005395 ABC transporter signature motif; other site 498761005396 Walker B; other site 498761005397 D-loop; other site 498761005398 H-loop/switch region; other site 498761005399 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 498761005400 PhoU domain; Region: PhoU; pfam01895 498761005401 PhoU domain; Region: PhoU; pfam01895 498761005402 uracil transporter; Provisional; Region: PRK10720 498761005403 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 498761005404 lipoyl-biotinyl attachment site [posttranslational modification]; other site 498761005405 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 498761005406 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 498761005407 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 498761005408 catalytic residue [active] 498761005409 Protein of unknown function (DUF552); Region: DUF552; cl00775 498761005410 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 498761005411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761005412 YGGT family; Region: YGGT; cl00508 498761005413 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 498761005414 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 498761005415 RNA binding surface [nucleotide binding]; other site 498761005416 DivIVA protein; Region: DivIVA; pfam05103 498761005417 DivIVA domain; Region: DivI1A_domain; TIGR03544 498761005418 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 498761005419 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 498761005420 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 498761005421 HIGH motif; other site 498761005422 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 498761005423 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 498761005424 active site 498761005425 KMSKS motif; other site 498761005426 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 498761005427 tRNA binding surface [nucleotide binding]; other site 498761005428 anticodon binding site; other site 498761005429 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 498761005430 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761005431 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761005432 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 498761005433 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 498761005434 Transport protein particle (TRAPP) component; Region: TRAPP; cl02135 498761005435 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 498761005436 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498761005437 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 498761005438 lipoprotein signal peptidase; Provisional; Region: PRK14787 498761005439 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 498761005440 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 498761005441 RNA binding surface [nucleotide binding]; other site 498761005442 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 498761005443 active site 498761005444 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761005445 active site 498761005446 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 498761005447 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498761005448 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761005449 dihydroorotase; Validated; Region: pyrC; PRK09357 498761005450 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 498761005451 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 498761005452 active site 498761005453 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 498761005454 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 498761005455 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 498761005456 catalytic site [active] 498761005457 subunit interface [polypeptide binding]; other site 498761005458 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 498761005459 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498761005460 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761005461 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 498761005462 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 498761005463 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761005464 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 498761005465 IMP binding site; other site 498761005466 dimer interface [polypeptide binding]; other site 498761005467 interdomain contacts; other site 498761005468 partial ornithine binding site; other site 498761005469 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 498761005470 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 498761005471 FAD binding pocket [chemical binding]; other site 498761005472 FAD binding motif [chemical binding]; other site 498761005473 phosphate binding motif [ion binding]; other site 498761005474 beta-alpha-beta structure motif; other site 498761005475 NAD binding pocket [chemical binding]; other site 498761005476 Iron coordination center [ion binding]; other site 498761005477 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 498761005478 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 498761005479 heterodimer interface [polypeptide binding]; other site 498761005480 active site 498761005481 FMN binding site [chemical binding]; other site 498761005482 homodimer interface [polypeptide binding]; other site 498761005483 substrate binding site [chemical binding]; other site 498761005484 Sulfatase; Region: Sulfatase; cl10460 498761005485 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 498761005486 NlpC/P60 family; Region: NLPC_P60; cl11438 498761005487 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 498761005488 anti sigma factor interaction site; other site 498761005489 regulatory phosphorylation site [posttranslational modification]; other site 498761005490 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 498761005491 Cache domain; Region: Cache_1; pfam02743 498761005492 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 498761005493 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 498761005494 dimerization interface [polypeptide binding]; other site 498761005495 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761005496 dimer interface [polypeptide binding]; other site 498761005497 putative CheW interface [polypeptide binding]; other site 498761005498 Cache domain; Region: Cache_1; pfam02743 498761005499 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 498761005500 dimerization interface [polypeptide binding]; other site 498761005501 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761005502 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761005503 dimer interface [polypeptide binding]; other site 498761005504 putative CheW interface [polypeptide binding]; other site 498761005505 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 498761005506 Domain of unknown function (DUF814); Region: DUF814; pfam05670 498761005507 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 498761005508 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 498761005509 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498761005510 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 498761005511 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 498761005512 motif II; other site 498761005513 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 498761005514 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 498761005515 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 498761005516 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 498761005517 hypothetical protein; Provisional; Region: PRK11820 498761005518 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 498761005519 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 498761005520 Domain of unknown function (DUF370); Region: DUF370; cl00898 498761005521 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 498761005522 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 498761005523 catalytic site [active] 498761005524 G-X2-G-X-G-K; other site 498761005525 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 498761005526 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 498761005527 Flavoprotein; Region: Flavoprotein; cl08021 498761005528 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 498761005529 S-adenosylmethionine synthetase; Validated; Region: PRK05250 498761005530 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 498761005531 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 498761005532 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 498761005533 primosome assembly protein PriA; Validated; Region: PRK05580 498761005534 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 498761005535 ATP binding site [chemical binding]; other site 498761005536 putative Mg++ binding site [ion binding]; other site 498761005537 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 498761005538 nucleotide binding region [chemical binding]; other site 498761005539 ATP-binding site [chemical binding]; other site 498761005540 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 498761005541 active site 498761005542 catalytic residues [active] 498761005543 metal binding site [ion binding]; metal-binding site 498761005544 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 498761005545 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 498761005546 putative active site [active] 498761005547 substrate binding site [chemical binding]; other site 498761005548 putative cosubstrate binding site; other site 498761005549 catalytic site [active] 498761005550 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 498761005551 substrate binding site [chemical binding]; other site 498761005552 Protein of unknown function DUF116; Region: DUF116; cl00800 498761005553 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 498761005554 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 498761005555 FeS/SAM binding site; other site 498761005556 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 498761005557 active site 498761005558 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761005559 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 498761005560 active site 498761005561 ATP binding site [chemical binding]; other site 498761005562 substrate binding site [chemical binding]; other site 498761005563 activation loop (A-loop); other site 498761005564 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498761005565 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498761005566 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 498761005567 GTPase RsgA; Reviewed; Region: PRK00098 498761005568 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 498761005569 RNA binding site [nucleotide binding]; other site 498761005570 homodimer interface [polypeptide binding]; other site 498761005571 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 498761005572 GTPase/Zn-binding domain interface [polypeptide binding]; other site 498761005573 GTP/Mg2+ binding site [chemical binding]; other site 498761005574 G4 box; other site 498761005575 G5 box; other site 498761005576 G1 box; other site 498761005577 Switch I region; other site 498761005578 G2 box; other site 498761005579 G3 box; other site 498761005580 Switch II region; other site 498761005581 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 498761005582 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 498761005583 substrate binding site [chemical binding]; other site 498761005584 hexamer interface [polypeptide binding]; other site 498761005585 metal binding site [ion binding]; metal-binding site 498761005586 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 498761005587 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 498761005588 catalytic motif [active] 498761005589 Zn binding site [ion binding]; other site 498761005590 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 498761005591 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 498761005592 Lumazine binding domain; Region: Lum_binding; pfam00677 498761005593 Lumazine binding domain; Region: Lum_binding; pfam00677 498761005594 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 498761005595 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 498761005596 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 498761005597 dimerization interface [polypeptide binding]; other site 498761005598 active site 498761005599 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 498761005600 homopentamer interface [polypeptide binding]; other site 498761005601 active site 498761005602 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 498761005603 pyridoxal binding site [chemical binding]; other site 498761005604 dimer interface [polypeptide binding]; other site 498761005605 ATP binding site [chemical binding]; other site 498761005606 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 498761005607 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 498761005608 dimerization interface [polypeptide binding]; other site 498761005609 domain crossover interface; other site 498761005610 redox-dependent activation switch; other site 498761005611 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 498761005612 Asp23 family; Region: Asp23; cl00574 498761005613 Predicted kinase related to dihydroxyacetone kinase [General function prediction only]; Region: COG1461 498761005614 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 498761005615 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 498761005616 generic binding surface II; other site 498761005617 ssDNA binding site; other site 498761005618 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 498761005619 putative Mg++ binding site [ion binding]; other site 498761005620 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 498761005621 nucleotide binding region [chemical binding]; other site 498761005622 ATP-binding site [chemical binding]; other site 498761005623 Germination protease; Region: Peptidase_A25; cl04057 498761005624 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 498761005625 S-adenosylmethionine binding site [chemical binding]; other site 498761005626 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 498761005627 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 498761005628 active site 498761005629 (T/H)XGH motif; other site 498761005630 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 498761005631 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 498761005632 Acetokinase family; Region: Acetate_kinase; cl01029 498761005633 acetate kinase; Region: ackA; TIGR00016 498761005634 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 498761005635 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 498761005636 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 498761005637 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 498761005638 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 498761005639 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 498761005640 dimer interface [polypeptide binding]; other site 498761005641 active site 498761005642 CoA binding pocket [chemical binding]; other site 498761005643 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 498761005644 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 498761005645 FMN binding site [chemical binding]; other site 498761005646 substrate binding site [chemical binding]; other site 498761005647 putative catalytic residue [active] 498761005648 Acyl transferase domain; Region: Acyl_transf_1; cl08282 498761005649 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 498761005650 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 498761005651 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 498761005652 NAD(P) binding site [chemical binding]; other site 498761005653 homotetramer interface [polypeptide binding]; other site 498761005654 homodimer interface [polypeptide binding]; other site 498761005655 active site 498761005656 Phosphopantetheine attachment site; Region: PP-binding; cl09936 498761005657 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 498761005658 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 498761005659 FMN binding site [chemical binding]; other site 498761005660 substrate binding site [chemical binding]; other site 498761005661 putative catalytic residue [active] 498761005662 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 498761005663 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 498761005664 dimer interface [polypeptide binding]; other site 498761005665 active site 498761005666 ribonuclease III; Reviewed; Region: rnc; PRK00102 498761005667 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 498761005668 dimerization interface [polypeptide binding]; other site 498761005669 active site 498761005670 metal binding site [ion binding]; metal-binding site 498761005671 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 498761005672 dsRNA binding site [nucleotide binding]; other site 498761005673 Radical SAM superfamily; Region: Radical_SAM; pfam04055 498761005674 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 498761005675 FeS/SAM binding site; other site 498761005676 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 498761005677 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 498761005678 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 498761005679 Walker A/P-loop; other site 498761005680 ATP binding site [chemical binding]; other site 498761005681 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 498761005682 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 498761005683 ABC transporter signature motif; other site 498761005684 Walker B; other site 498761005685 D-loop; other site 498761005686 H-loop/switch region; other site 498761005687 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 498761005688 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 498761005689 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 498761005690 P loop; other site 498761005691 GTP binding site [chemical binding]; other site 498761005692 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 498761005693 active site 1 [active] 498761005694 dimer interface [polypeptide binding]; other site 498761005695 hexamer interface [polypeptide binding]; other site 498761005696 active site 2 [active] 498761005697 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 498761005698 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 498761005699 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 498761005700 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 498761005701 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 498761005702 active site 498761005703 putative substrate binding pocket [chemical binding]; other site 498761005704 GAF domain; Region: GAF; cl15785 498761005705 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761005706 metal binding site [ion binding]; metal-binding site 498761005707 active site 498761005708 I-site; other site 498761005709 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 498761005710 DNA binding residues [nucleotide binding] 498761005711 signal recognition particle protein; Provisional; Region: PRK10867 498761005712 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 498761005713 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 498761005714 P loop; other site 498761005715 GTP binding site [chemical binding]; other site 498761005716 Signal peptide binding domain; Region: SRP_SPB; pfam02978 498761005717 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 498761005718 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 498761005719 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 498761005720 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 498761005721 RimM N-terminal domain; Region: RimM; pfam01782 498761005722 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 498761005723 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 498761005724 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 498761005725 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 498761005726 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 498761005727 Catalytic site [active] 498761005728 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 498761005729 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 498761005730 GTP/Mg2+ binding site [chemical binding]; other site 498761005731 G4 box; other site 498761005732 G5 box; other site 498761005733 G1 box; other site 498761005734 Switch I region; other site 498761005735 G2 box; other site 498761005736 G3 box; other site 498761005737 Switch II region; other site 498761005738 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 498761005739 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 498761005740 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 498761005741 RNA/DNA hybrid binding site [nucleotide binding]; other site 498761005742 active site 498761005743 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 498761005744 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 498761005745 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 498761005746 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 498761005747 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 498761005748 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 498761005749 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 498761005750 NADH dehydrogenase; Region: NADHdh; cl00469 498761005751 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 498761005752 4Fe-4S binding domain; Region: Fer4; cl02805 498761005753 4Fe-4S binding domain; Region: Fer4; cl02805 498761005754 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 498761005755 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 498761005756 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 498761005757 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 498761005758 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 498761005759 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 498761005760 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 498761005761 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 498761005762 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 498761005763 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 498761005764 Restriction endonuclease; Region: Mrr_cat; cl00516 498761005765 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 498761005766 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 498761005767 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 498761005768 Walker A motif; other site 498761005769 ATP binding site [chemical binding]; other site 498761005770 Walker B motif; other site 498761005771 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 498761005772 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 498761005773 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 498761005774 Helix-turn-helix domains; Region: HTH; cl00088 498761005775 DNA topoisomerase I; Validated; Region: PRK05582 498761005776 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 498761005777 active site 498761005778 interdomain interaction site; other site 498761005779 putative metal-binding site [ion binding]; other site 498761005780 nucleotide binding site [chemical binding]; other site 498761005781 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 498761005782 domain I; other site 498761005783 DNA binding groove [nucleotide binding] 498761005784 phosphate binding site [ion binding]; other site 498761005785 domain II; other site 498761005786 domain III; other site 498761005787 nucleotide binding site [chemical binding]; other site 498761005788 catalytic site [active] 498761005789 domain IV; other site 498761005790 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 498761005791 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 498761005792 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 498761005793 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 498761005794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761005795 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 498761005796 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 498761005797 active site 498761005798 Int/Topo IB signature motif; other site 498761005799 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 498761005800 active site 498761005801 HslU subunit interaction site [polypeptide binding]; other site 498761005802 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 498761005803 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 498761005804 Walker A motif; other site 498761005805 ATP binding site [chemical binding]; other site 498761005806 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761005807 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 498761005808 transcriptional repressor CodY; Validated; Region: PRK04158 498761005809 CodY GAF-like domain; Region: CodY; pfam06018 498761005810 Helix-turn-helix domains; Region: HTH; cl00088 498761005811 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 498761005812 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 498761005813 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 498761005814 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 498761005815 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761005816 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 498761005817 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 498761005818 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 498761005819 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 498761005820 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 498761005821 FliG C-terminal domain; Region: FliG_C; pfam01706 498761005822 type III secretion apparatus protein, HrpE/YscL family; Region: HrpE_YscL_not; TIGR02499 498761005823 Flagellar assembly protein FliH; Region: FliH; pfam02108 498761005824 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 498761005825 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 498761005826 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 498761005827 Walker A motif/ATP binding site; other site 498761005828 Walker B motif; other site 498761005829 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 498761005830 MgtE intracellular N domain; Region: MgtE_N; cl15244 498761005831 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 498761005832 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 498761005833 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 498761005834 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 498761005835 Protein of unknown function (DUF3766); Region: DUF3766; cl11797 498761005836 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 498761005837 Flagella basal body rod protein; Region: Flg_bb_rod; cl16922 498761005838 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 498761005839 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 498761005840 Flagellar protein (FlbD); Region: FlbD; cl00683 498761005841 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 498761005842 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 498761005843 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 498761005844 flagellar motor switch protein; Validated; Region: PRK08119 498761005845 Transposase domain (DUF772); Region: DUF772; pfam05598 498761005846 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761005847 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761005848 flagellar motor switch protein; Validated; Region: PRK08119 498761005849 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 498761005850 Response regulator receiver domain; Region: Response_reg; pfam00072 498761005851 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 498761005852 active site 498761005853 phosphorylation site [posttranslational modification] 498761005854 intermolecular recognition site; other site 498761005855 dimerization interface [polypeptide binding]; other site 498761005856 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 498761005857 FliP family; Region: FliP; cl00593 498761005858 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 498761005859 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 498761005860 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 498761005861 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 498761005862 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 498761005863 FHIPEP family; Region: FHIPEP; pfam00771 498761005864 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 498761005865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761005866 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 498761005867 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 498761005868 P-loop; other site 498761005869 Magnesium ion binding site [ion binding]; other site 498761005870 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 498761005871 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 498761005872 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 498761005873 active site 498761005874 phosphorylation site [posttranslational modification] 498761005875 intermolecular recognition site; other site 498761005876 dimerization interface [polypeptide binding]; other site 498761005877 CheB methylesterase; Region: CheB_methylest; pfam01339 498761005878 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 498761005879 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 498761005880 putative binding surface; other site 498761005881 active site 498761005882 P2 response regulator binding domain; Region: P2; pfam07194 498761005883 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 498761005884 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 498761005885 ATP binding site [chemical binding]; other site 498761005886 Mg2+ binding site [ion binding]; other site 498761005887 G-X-G motif; other site 498761005888 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 498761005889 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 498761005890 putative CheA interaction surface; other site 498761005891 CheD chemotactic sensory transduction; Region: CheD; cl00810 498761005892 RNA polymerase sigma factor WhiG; Reviewed; Region: PRK06288 498761005893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761005894 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 498761005895 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 498761005896 DNA binding residues [nucleotide binding] 498761005897 Protein of unknown function (DUF342); Region: DUF342; pfam03961 498761005898 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 498761005899 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 498761005900 rRNA interaction site [nucleotide binding]; other site 498761005901 S8 interaction site; other site 498761005902 putative laminin-1 binding site; other site 498761005903 elongation factor Ts; Reviewed; Region: tsf; PRK12332 498761005904 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 498761005905 Elongation factor TS; Region: EF_TS; pfam00889 498761005906 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 498761005907 putative nucleotide binding site [chemical binding]; other site 498761005908 uridine monophosphate binding site [chemical binding]; other site 498761005909 homohexameric interface [polypeptide binding]; other site 498761005910 ribosome recycling factor; Reviewed; Region: frr; PRK00083 498761005911 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 498761005912 hinge region; other site 498761005913 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 498761005914 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 498761005915 catalytic residue [active] 498761005916 putative FPP diphosphate binding site; other site 498761005917 putative FPP binding hydrophobic cleft; other site 498761005918 dimer interface [polypeptide binding]; other site 498761005919 putative IPP diphosphate binding site; other site 498761005920 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 498761005921 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 498761005922 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 498761005923 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 498761005924 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 498761005925 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 498761005926 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 498761005927 RIP metalloprotease RseP; Region: TIGR00054 498761005928 active site 498761005929 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 498761005930 protein binding site [polypeptide binding]; other site 498761005931 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 498761005932 putative substrate binding region [chemical binding]; other site 498761005933 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 498761005934 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 498761005935 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 498761005936 prolyl-tRNA synthetase; Provisional; Region: PRK09194 498761005937 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 498761005938 dimer interface [polypeptide binding]; other site 498761005939 motif 1; other site 498761005940 active site 498761005941 motif 2; other site 498761005942 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 498761005943 putative deacylase active site [active] 498761005944 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 498761005945 active site 498761005946 motif 3; other site 498761005947 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 498761005948 anticodon binding site; other site 498761005949 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 498761005950 Ligand binding site; other site 498761005951 Putative Catalytic site; other site 498761005952 DXD motif; other site 498761005953 Transposase domain (DUF772); Region: DUF772; pfam05598 498761005954 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761005955 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761005956 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 498761005957 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 498761005958 putative active site [active] 498761005959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761005960 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 498761005961 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 498761005962 DNA polymerase III PolC; Validated; Region: polC; PRK00448 498761005963 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 498761005964 generic binding surface II; other site 498761005965 generic binding surface I; other site 498761005966 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 498761005967 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 498761005968 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 498761005969 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 498761005970 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761005971 Walker A/P-loop; other site 498761005972 ATP binding site [chemical binding]; other site 498761005973 Q-loop/lid; other site 498761005974 ABC transporter signature motif; other site 498761005975 Walker B; other site 498761005976 D-loop; other site 498761005977 H-loop/switch region; other site 498761005978 TOBE domain; Region: TOBE_2; cl01440 498761005979 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 498761005980 dimer interface [polypeptide binding]; other site 498761005981 conserved gate region; other site 498761005982 putative PBP binding loops; other site 498761005983 ABC-ATPase subunit interface; other site 498761005984 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 498761005985 dimer interface [polypeptide binding]; other site 498761005986 conserved gate region; other site 498761005987 putative PBP binding loops; other site 498761005988 ABC-ATPase subunit interface; other site 498761005989 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 498761005990 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 498761005991 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 498761005992 Integral membrane protein DUF92; Region: DUF92; cl00793 498761005993 Cupin domain; Region: Cupin_2; cl09118 498761005994 ribosome maturation protein RimP; Reviewed; Region: PRK00092 498761005995 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 498761005996 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 498761005997 Sm1 motif; other site 498761005998 D1 - D2 interaction site; other site 498761005999 D3 - B interaction site; other site 498761006000 Hfq - Hfq interaction site; other site 498761006001 RNA binding pocket [nucleotide binding]; other site 498761006002 Sm2 motif; other site 498761006003 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 498761006004 NusA N-terminal domain; Region: NusA_N; pfam08529 498761006005 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 498761006006 RNA binding site [nucleotide binding]; other site 498761006007 homodimer interface [polypeptide binding]; other site 498761006008 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 498761006009 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 498761006010 G-X-X-G motif; other site 498761006011 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 498761006012 putative RNA binding cleft [nucleotide binding]; other site 498761006013 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 498761006014 translation initiation factor IF-2; Region: IF-2; TIGR00487 498761006015 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 498761006016 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 498761006017 G1 box; other site 498761006018 putative GEF interaction site [polypeptide binding]; other site 498761006019 GTP/Mg2+ binding site [chemical binding]; other site 498761006020 Switch I region; other site 498761006021 G2 box; other site 498761006022 G3 box; other site 498761006023 Switch II region; other site 498761006024 G4 box; other site 498761006025 G5 box; other site 498761006026 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 498761006027 Translation-initiation factor 2; Region: IF-2; pfam11987 498761006028 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 498761006029 Ribosome-binding factor A; Region: RBFA; cl00542 498761006030 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 498761006031 DHH family; Region: DHH; pfam01368 498761006032 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 498761006033 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 498761006034 RNA binding site [nucleotide binding]; other site 498761006035 active site 498761006036 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 498761006037 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 498761006038 active site 498761006039 Riboflavin kinase; Region: Flavokinase; cl03312 498761006040 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 498761006041 16S/18S rRNA binding site [nucleotide binding]; other site 498761006042 S13e-L30e interaction site [polypeptide binding]; other site 498761006043 25S rRNA binding site [nucleotide binding]; other site 498761006044 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 498761006045 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 498761006046 RNase E interface [polypeptide binding]; other site 498761006047 trimer interface [polypeptide binding]; other site 498761006048 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 498761006049 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 498761006050 RNase E interface [polypeptide binding]; other site 498761006051 trimer interface [polypeptide binding]; other site 498761006052 active site 498761006053 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 498761006054 putative nucleic acid binding region [nucleotide binding]; other site 498761006055 G-X-X-G motif; other site 498761006056 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 498761006057 RNA binding site [nucleotide binding]; other site 498761006058 domain interface; other site 498761006059 Putative catalytic NodB homology domain of uncharacterized protein YlxY from Bacillus subtilis and its bacterial homologs; Region: CE4_BsYlxY_like; cd10950 498761006060 NodB motif; other site 498761006061 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 498761006062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761006063 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 498761006064 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 498761006065 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 498761006066 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 498761006067 dihydrodipicolinate reductase; Provisional; Region: PRK00048 498761006068 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006069 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 498761006070 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 498761006071 Flavoprotein; Region: Flavoprotein; cl08021 498761006072 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 498761006073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006074 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 498761006075 aspartate kinase I; Reviewed; Region: PRK08210 498761006076 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 498761006077 nucleotide binding site [chemical binding]; other site 498761006078 substrate binding site [chemical binding]; other site 498761006079 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 498761006080 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 498761006081 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 498761006082 dihydrodipicolinate synthase; Region: dapA; TIGR00674 498761006083 dimer interface [polypeptide binding]; other site 498761006084 active site 498761006085 catalytic residue [active] 498761006086 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 498761006087 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761006088 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498761006089 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 498761006090 Clp protease; Region: CLP_protease; pfam00574 498761006091 active site 498761006092 YlzJ-like protein; Region: YlzJ; pfam14035 498761006093 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 498761006094 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006095 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 498761006096 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006097 active site 498761006098 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 498761006099 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 498761006100 active site residue [active] 498761006101 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761006102 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 498761006103 Protein of unknown function (DUF520); Region: DUF520; cl00723 498761006104 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 498761006105 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 498761006106 N-carbamolyputrescine amidase; Region: PLN02747 498761006107 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 498761006108 putative active site; other site 498761006109 catalytic triad [active] 498761006110 putative dimer interface [polypeptide binding]; other site 498761006111 agmatine deiminase; Region: agmatine_aguA; TIGR03380 498761006112 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 498761006113 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 498761006114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006115 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 498761006116 glutamine synthetase, type I; Region: GlnA; TIGR00653 498761006117 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 498761006118 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 498761006119 Domain of unknown function (DUF4324); Region: DUF4324; pfam14212 498761006120 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 498761006121 nucleotide binding site [chemical binding]; other site 498761006122 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 498761006123 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 498761006124 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 498761006125 putative DNA binding site [nucleotide binding]; other site 498761006126 putative homodimer interface [polypeptide binding]; other site 498761006127 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 498761006128 active site 498761006129 Substrate binding site; other site 498761006130 Mg++ binding site; other site 498761006131 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 498761006132 Zn binding site [ion binding]; other site 498761006133 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 498761006134 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 498761006135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006136 Family description; Region: UvrD_C_2; cl15862 498761006137 Transcriptional regulators [Transcription]; Region: FadR; COG2186 498761006138 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498761006139 DNA-binding site [nucleotide binding]; DNA binding site 498761006140 FCD domain; Region: FCD; cl11656 498761006141 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 498761006142 phosphate binding site [ion binding]; other site 498761006143 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 498761006144 NodB motif; other site 498761006145 active site 498761006146 catalytic site [active] 498761006147 Zn binding site [ion binding]; other site 498761006148 Response regulator receiver domain; Region: Response_reg; pfam00072 498761006149 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 498761006150 active site 498761006151 phosphorylation site [posttranslational modification] 498761006152 intermolecular recognition site; other site 498761006153 dimerization interface [polypeptide binding]; other site 498761006154 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 498761006155 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 498761006156 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 498761006157 Coenzyme A binding pocket [chemical binding]; other site 498761006158 FOG: CBS domain [General function prediction only]; Region: COG0517 498761006159 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 498761006160 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 498761006161 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 498761006162 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 498761006163 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 498761006164 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 498761006165 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 498761006166 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 498761006167 FeS/SAM binding site; other site 498761006168 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 498761006169 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 498761006170 Walker A motif; other site 498761006171 ATP binding site [chemical binding]; other site 498761006172 Walker B motif; other site 498761006173 arginine finger; other site 498761006174 Peptidase family M41; Region: Peptidase_M41; pfam01434 498761006175 competence damage-inducible protein A; Provisional; Region: PRK00549 498761006176 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 498761006177 putative MPT binding site; other site 498761006178 Competence-damaged protein; Region: CinA; cl00666 498761006179 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 498761006180 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 498761006181 ATP binding site [chemical binding]; other site 498761006182 Mg++ binding site [ion binding]; other site 498761006183 motif III; other site 498761006184 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 498761006185 nucleotide binding region [chemical binding]; other site 498761006186 ATP-binding site [chemical binding]; other site 498761006187 DbpA RNA binding domain; Region: DbpA; pfam03880 498761006188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 498761006189 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 498761006190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 498761006191 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 498761006192 recombinase A; Provisional; Region: recA; PRK09354 498761006193 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 498761006194 hexamer interface [polypeptide binding]; other site 498761006195 Walker A motif; other site 498761006196 ATP binding site [chemical binding]; other site 498761006197 Walker B motif; other site 498761006198 RecX family; Region: RecX; cl00936 498761006199 phosphodiesterase; Provisional; Region: PRK12704 498761006200 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761006201 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 498761006202 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 498761006203 putative active site [active] 498761006204 metal binding site [ion binding]; metal-binding site 498761006205 homodimer binding site [polypeptide binding]; other site 498761006206 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 498761006207 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 498761006208 active site 498761006209 dimer interface [polypeptide binding]; other site 498761006210 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 498761006211 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 498761006212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761006213 homodimer interface [polypeptide binding]; other site 498761006214 catalytic residue [active] 498761006215 CbiD; Region: CbiD; cl00828 498761006216 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 498761006217 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761006218 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 498761006219 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 498761006220 S-adenosylmethionine binding site [chemical binding]; other site 498761006221 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761006222 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 498761006223 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761006224 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 498761006225 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 498761006226 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 498761006227 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 498761006228 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 498761006229 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 498761006230 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 498761006231 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 498761006232 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 498761006233 putative active site [active] 498761006234 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 498761006235 Precorrin-8X methylmutase; Region: CbiC; pfam02570 498761006236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761006237 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 498761006238 homotrimer interface [polypeptide binding]; other site 498761006239 Walker A motif; other site 498761006240 GTP binding site [chemical binding]; other site 498761006241 Walker B motif; other site 498761006242 cobyric acid synthase; Provisional; Region: PRK00784 498761006243 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006244 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006245 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 498761006246 catalytic triad [active] 498761006247 CobD/Cbib protein; Region: CobD_Cbib; cl00561 498761006248 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 498761006249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006250 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 498761006251 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 498761006252 Walker A motif; other site 498761006253 homodimer interface [polypeptide binding]; other site 498761006254 ATP binding site [chemical binding]; other site 498761006255 hydroxycobalamin binding site [chemical binding]; other site 498761006256 Walker B motif; other site 498761006257 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 498761006258 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 498761006259 putative dimer interface [polypeptide binding]; other site 498761006260 active site pocket [active] 498761006261 putative cataytic base [active] 498761006262 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 498761006263 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 498761006264 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 498761006265 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 498761006266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761006267 homodimer interface [polypeptide binding]; other site 498761006268 catalytic residue [active] 498761006269 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 498761006270 catalytic core [active] 498761006271 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 498761006272 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 498761006273 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 498761006274 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 498761006275 active site 498761006276 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 498761006277 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 498761006278 active site 498761006279 motif I; other site 498761006280 motif II; other site 498761006281 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 498761006282 plasmid segregation protein ParM; Provisional; Region: PRK13917 498761006283 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 498761006284 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761006285 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498761006286 recombination factor protein RarA; Reviewed; Region: PRK13342 498761006287 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 498761006288 Walker A motif; other site 498761006289 ATP binding site [chemical binding]; other site 498761006290 Walker B motif; other site 498761006291 arginine finger; other site 498761006292 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 498761006293 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 498761006294 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 498761006295 G1 box; other site 498761006296 putative GEF interaction site [polypeptide binding]; other site 498761006297 GTP/Mg2+ binding site [chemical binding]; other site 498761006298 Switch I region; other site 498761006299 G2 box; other site 498761006300 G3 box; other site 498761006301 Switch II region; other site 498761006302 G4 box; other site 498761006303 G5 box; other site 498761006304 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 498761006305 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 498761006306 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 498761006307 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 498761006308 substrate binding site [chemical binding]; other site 498761006309 dimer interface [polypeptide binding]; other site 498761006310 ATP binding site [chemical binding]; other site 498761006311 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 498761006312 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 498761006313 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 498761006314 Walker A/P-loop; other site 498761006315 ATP binding site [chemical binding]; other site 498761006316 Q-loop/lid; other site 498761006317 ABC transporter signature motif; other site 498761006318 Walker B; other site 498761006319 D-loop; other site 498761006320 H-loop/switch region; other site 498761006321 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 498761006322 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 498761006323 TM-ABC transporter signature motif; other site 498761006324 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 498761006325 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 498761006326 ligand binding site [chemical binding]; other site 498761006327 dimerization interface [polypeptide binding]; other site 498761006328 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 498761006329 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 498761006330 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 498761006331 ABC-ATPase subunit interface; other site 498761006332 dimer interface [polypeptide binding]; other site 498761006333 putative PBP binding regions; other site 498761006334 ferric uptake regulator; Provisional; Region: fur; PRK09462 498761006335 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498761006336 metal binding site 2 [ion binding]; metal-binding site 498761006337 putative DNA binding helix; other site 498761006338 metal binding site 1 [ion binding]; metal-binding site 498761006339 dimer interface [polypeptide binding]; other site 498761006340 structural Zn2+ binding site [ion binding]; other site 498761006341 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 498761006342 Competence protein; Region: Competence; cl00471 498761006343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761006344 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761006345 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 498761006346 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 498761006347 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 498761006348 stage II sporulation protein P; Region: spore_II_P; TIGR02867 498761006349 integral membrane protein MviN; Region: mviN; TIGR01695 498761006350 GTP-binding protein LepA; Provisional; Region: PRK05433 498761006351 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 498761006352 G1 box; other site 498761006353 putative GEF interaction site [polypeptide binding]; other site 498761006354 GTP/Mg2+ binding site [chemical binding]; other site 498761006355 Switch I region; other site 498761006356 G2 box; other site 498761006357 G3 box; other site 498761006358 Switch II region; other site 498761006359 G4 box; other site 498761006360 G5 box; other site 498761006361 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 498761006362 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 498761006363 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 498761006364 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 498761006365 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 498761006366 FeS/SAM binding site; other site 498761006367 HemN C-terminal domain; Region: HemN_C; pfam06969 498761006368 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 498761006369 Helix-turn-helix domains; Region: HTH; cl00088 498761006370 chaperonin families, type I and type II. 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. There are 2 main chaperonin groups. The...; Region: chaperonin_type_I_II; cd00309 498761006371 ring oligomerisation interface [polypeptide binding]; other site 498761006372 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 498761006373 ATP/Mg binding site [chemical binding]; other site 498761006374 hinge regions; other site 498761006375 stacking interactions; other site 498761006376 heat shock protein GrpE; Provisional; Region: PRK14140 498761006377 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 498761006378 dimer interface [polypeptide binding]; other site 498761006379 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 498761006380 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 498761006381 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 498761006382 chaperone protein DnaJ; Provisional; Region: PRK10767 498761006383 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 498761006384 HSP70 interaction site [polypeptide binding]; other site 498761006385 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 498761006386 substrate binding site [polypeptide binding]; other site 498761006387 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 498761006388 Zn binding sites [ion binding]; other site 498761006389 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 498761006390 dimer interface [polypeptide binding]; other site 498761006391 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 498761006392 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 498761006393 S-adenosylmethionine binding site [chemical binding]; other site 498761006394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 498761006395 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 498761006396 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 498761006397 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 498761006398 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 498761006399 FeS/SAM binding site; other site 498761006400 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 498761006401 nucleotide binding site/active site [active] 498761006402 HIT family signature motif; other site 498761006403 catalytic residue [active] 498761006404 GatB domain; Region: GatB_Yqey; cl11497 498761006405 YabP family; Region: YabP; cl06766 498761006406 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 498761006407 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 498761006408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006409 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 498761006410 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 498761006411 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761006412 Zn2+ binding site [ion binding]; other site 498761006413 Mg2+ binding site [ion binding]; other site 498761006414 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 498761006415 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 498761006416 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 498761006417 active site 498761006418 catalytic motif [active] 498761006419 Zn binding site [ion binding]; other site 498761006420 GTPase Era; Reviewed; Region: era; PRK00089 498761006421 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 498761006422 G1 box; other site 498761006423 GTP/Mg2+ binding site [chemical binding]; other site 498761006424 Switch I region; other site 498761006425 G2 box; other site 498761006426 Switch II region; other site 498761006427 G3 box; other site 498761006428 G4 box; other site 498761006429 G5 box; other site 498761006430 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 498761006431 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 498761006432 intersubunit interface [polypeptide binding]; other site 498761006433 active site 498761006434 catalytic residue [active] 498761006435 Recombination protein O N terminal; Region: RecO_N; cl15812 498761006436 Recombination protein O C terminal; Region: RecO_C; pfam02565 498761006437 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 498761006438 dimer interface [polypeptide binding]; other site 498761006439 motif 1; other site 498761006440 active site 498761006441 motif 2; other site 498761006442 motif 3; other site 498761006443 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 498761006444 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 498761006445 Helix-turn-helix domains; Region: HTH; cl00088 498761006446 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_4; cd04617 498761006447 FOG: CBS domain [General function prediction only]; Region: COG0517 498761006448 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 498761006449 pyruvate phosphate dikinase; Provisional; Region: PRK09279 498761006450 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 498761006451 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 498761006452 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 498761006453 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 498761006454 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 498761006455 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761006456 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 498761006457 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 498761006458 trimer interface [polypeptide binding]; other site 498761006459 putative metal binding site [ion binding]; other site 498761006460 3D domain; Region: 3D; cl01439 498761006461 YcfA-like protein; Region: YcfA; cl00752 498761006462 Cell division protein FtsA; Region: FtsA; cl11496 498761006463 cell division protein FtsA; Region: ftsA; TIGR01174 498761006464 Cell division protein FtsA; Region: FtsA; cl11496 498761006465 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 498761006466 trimer interface [polypeptide binding]; other site 498761006467 active site 498761006468 SpoVG; Region: SpoVG; cl00915 498761006469 SpoVG; Region: SpoVG; cl00915 498761006470 ferredoxin; Validated; Region: PRK07118 498761006471 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 498761006472 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 498761006473 homodimer interface [polypeptide binding]; other site 498761006474 substrate-cofactor binding pocket; other site 498761006475 catalytic residue [active] 498761006476 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761006477 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 498761006478 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 498761006479 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 498761006480 Sulfatase; Region: Sulfatase; cl10460 498761006481 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 498761006482 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 498761006483 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 498761006484 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 498761006485 substrate binding pocket [chemical binding]; other site 498761006486 dimer interface [polypeptide binding]; other site 498761006487 inhibitor binding site; inhibition site 498761006488 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 498761006489 B12 binding site [chemical binding]; other site 498761006490 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 498761006491 Helix-turn-helix domains; Region: HTH; cl00088 498761006492 AsnC family; Region: AsnC_trans_reg; pfam01037 498761006493 hypothetical protein; Validated; Region: PRK07682 498761006494 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 498761006495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761006496 homodimer interface [polypeptide binding]; other site 498761006497 catalytic residue [active] 498761006498 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 498761006499 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 498761006500 Beta-Casp domain; Region: Beta-Casp; cl12567 498761006501 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 498761006502 4Fe-4S binding domain; Region: Fer4; cl02805 498761006503 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498761006504 4Fe-4S binding domain; Region: Fer4; cl02805 498761006505 FeoA domain; Region: FeoA; cl00838 498761006506 selenocysteine synthase; Provisional; Region: PRK04311 498761006507 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 498761006508 Selenophosphate synthase [Amino acid transport and metabolism]; Region: SelD; COG0709 498761006509 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 498761006510 dimerization interface [polypeptide binding]; other site 498761006511 putative ATP binding site [chemical binding]; other site 498761006512 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 498761006513 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761006514 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761006515 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498761006516 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 498761006517 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 498761006518 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 498761006519 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 498761006520 Walker A motif; other site 498761006521 ATP binding site [chemical binding]; other site 498761006522 Walker B motif; other site 498761006523 arginine finger; other site 498761006524 Helix-turn-helix domains; Region: HTH; cl00088 498761006525 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498761006526 germination protein YpeB; Region: spore_YpeB; TIGR02889 498761006527 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761006528 Propanediol utilisation protein PduL; Region: PduL; pfam06130 498761006529 Uncharacterized conserved protein [Function unknown]; Region: COG0327 498761006530 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 498761006531 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 498761006532 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 498761006533 active site 498761006534 phosphorylation site [posttranslational modification] 498761006535 intermolecular recognition site; other site 498761006536 dimerization interface [polypeptide binding]; other site 498761006537 ANTAR domain; Region: ANTAR; cl04297 498761006538 Bacterial transcriptional regulator; Region: IclR; pfam01614 498761006539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761006540 dimer interface [polypeptide binding]; other site 498761006541 putative CheW interface [polypeptide binding]; other site 498761006542 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 498761006543 DHH family; Region: DHH; pfam01368 498761006544 DHHA1 domain; Region: DHHA1; pfam02272 498761006545 DNA polymerase IV; Reviewed; Region: PRK03103 498761006546 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 498761006547 active site 498761006548 DNA binding site [nucleotide binding] 498761006549 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 498761006550 S-layer homology domain; Region: SLH; pfam00395 498761006551 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 498761006552 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 498761006553 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006554 oligomerization interface [polypeptide binding]; other site 498761006555 active site 498761006556 NAD+ binding site [chemical binding]; other site 498761006557 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 498761006558 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 498761006559 active site 498761006560 motif I; other site 498761006561 motif II; other site 498761006562 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 498761006563 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 498761006564 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 498761006565 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 498761006566 Protein of unknown function (DUF541); Region: SIMPL; cl01077 498761006567 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 498761006568 metal binding site 2 [ion binding]; metal-binding site 498761006569 putative DNA binding helix; other site 498761006570 metal binding site 1 [ion binding]; metal-binding site 498761006571 dimer interface [polypeptide binding]; other site 498761006572 structural Zn2+ binding site [ion binding]; other site 498761006573 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761006574 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761006575 putative active site [active] 498761006576 putative NTP binding site [chemical binding]; other site 498761006577 putative nucleic acid binding site [nucleotide binding]; other site 498761006578 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761006579 Domain of unknown function (DUF366); Region: DUF366; cl00890 498761006580 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 498761006581 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 498761006582 FeS/SAM binding site; other site 498761006583 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 498761006584 homodecamer interface [polypeptide binding]; other site 498761006585 GTP cyclohydrolase I; Provisional; Region: PLN03044 498761006586 active site 498761006587 putative catalytic site residues [active] 498761006588 zinc binding site [ion binding]; other site 498761006589 GTP-CH-I/GFRP interaction surface; other site 498761006590 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 498761006591 putative active site pocket [active] 498761006592 dimerization interface [polypeptide binding]; other site 498761006593 putative catalytic residue [active] 498761006594 Protein of unknown function (DUF4264); Region: DUF4264; pfam14084 498761006595 Survival protein SurE; Region: SurE; cl00448 498761006596 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 498761006597 MatE; Region: MatE; cl10513 498761006598 integral membrane protein MviN; Region: mviN; TIGR01695 498761006599 MatE; Region: MatE; cl10513 498761006600 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 498761006601 elongation factor G; Reviewed; Region: PRK12740 498761006602 G1 box; other site 498761006603 putative GEF interaction site [polypeptide binding]; other site 498761006604 GTP/Mg2+ binding site [chemical binding]; other site 498761006605 Switch I region; other site 498761006606 G2 box; other site 498761006607 G3 box; other site 498761006608 Switch II region; other site 498761006609 G4 box; other site 498761006610 G5 box; other site 498761006611 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 498761006612 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 498761006613 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 498761006614 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 498761006615 AMP-binding enzyme; Region: AMP-binding; cl15778 498761006616 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 498761006617 ACT domain-containing protein [General function prediction only]; Region: COG4747 498761006618 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 498761006619 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 498761006620 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 498761006621 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 498761006622 reductive dehalogenase; Region: RDH; TIGR02486 498761006623 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 498761006624 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 498761006625 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 498761006626 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 498761006627 LexA repressor; Validated; Region: PRK00215 498761006628 Helix-turn-helix domains; Region: HTH; cl00088 498761006629 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 498761006630 Catalytic site [active] 498761006631 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 498761006632 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 498761006633 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761006634 Protein of unknown function (DUF456); Region: DUF456; cl01069 498761006635 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 498761006636 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 498761006637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761006638 catalytic residue [active] 498761006639 GTPases [General function prediction only]; Region: HflX; COG2262 498761006640 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 498761006641 HflX GTPase family; Region: HflX; cd01878 498761006642 G1 box; other site 498761006643 GTP/Mg2+ binding site [chemical binding]; other site 498761006644 Switch I region; other site 498761006645 G2 box; other site 498761006646 G3 box; other site 498761006647 Switch II region; other site 498761006648 G4 box; other site 498761006649 G5 box; other site 498761006650 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761006651 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761006652 putative active site [active] 498761006653 putative NTP binding site [chemical binding]; other site 498761006654 putative nucleic acid binding site [nucleotide binding]; other site 498761006655 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761006656 stage V sporulation protein K; Region: spore_V_K; TIGR02881 498761006657 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 498761006658 Walker A motif; other site 498761006659 ATP binding site [chemical binding]; other site 498761006660 Walker B motif; other site 498761006661 arginine finger; other site 498761006662 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 498761006663 Sm1 motif; other site 498761006664 intra - hexamer interaction site; other site 498761006665 inter - hexamer interaction site [polypeptide binding]; other site 498761006666 nucleotide binding pocket [chemical binding]; other site 498761006667 Sm2 motif; other site 498761006668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006669 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 498761006670 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 498761006671 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 498761006672 ATP binding site [chemical binding]; other site 498761006673 Mg2+ binding site [ion binding]; other site 498761006674 G-X-G motif; other site 498761006675 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 498761006676 ATP binding site [chemical binding]; other site 498761006677 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 498761006678 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 498761006679 MutS domain I; Region: MutS_I; pfam01624 498761006680 MutS domain II; Region: MutS_II; pfam05188 498761006681 MutS family domain IV; Region: MutS_IV; pfam05190 498761006682 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 498761006683 Walker A/P-loop; other site 498761006684 ATP binding site [chemical binding]; other site 498761006685 Q-loop/lid; other site 498761006686 ABC transporter signature motif; other site 498761006687 Walker B; other site 498761006688 D-loop; other site 498761006689 H-loop/switch region; other site 498761006690 PAS domain S-box; Region: sensory_box; TIGR00229 498761006691 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 498761006692 putative active site [active] 498761006693 heme pocket [chemical binding]; other site 498761006694 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 498761006695 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 498761006696 putative active site [active] 498761006697 heme pocket [chemical binding]; other site 498761006698 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 498761006699 dimer interface [polypeptide binding]; other site 498761006700 phosphorylation site [posttranslational modification] 498761006701 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 498761006702 ATP binding site [chemical binding]; other site 498761006703 Mg2+ binding site [ion binding]; other site 498761006704 G-X-G motif; other site 498761006705 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761006706 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761006707 putative active site [active] 498761006708 putative NTP binding site [chemical binding]; other site 498761006709 putative nucleic acid binding site [nucleotide binding]; other site 498761006710 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761006711 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 498761006712 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 498761006713 active site 498761006714 catalytic residues [active] 498761006715 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 498761006716 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 498761006717 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 498761006718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006719 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 498761006720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761006721 dimer interface [polypeptide binding]; other site 498761006722 putative CheW interface [polypeptide binding]; other site 498761006723 Phage phiEco32-like COOH.NH2 ligase-type 2; Region: COOH-NH2_lig; pfam14395 498761006724 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761006725 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761006726 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761006727 SLBB domain; Region: SLBB; pfam10531 498761006728 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 498761006729 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 498761006730 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 498761006731 anti sigma factor interaction site; other site 498761006732 regulatory phosphorylation site [posttranslational modification]; other site 498761006733 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 498761006734 4Fe-4S binding domain; Region: Fer4; cl02805 498761006735 4Fe-4S binding domain; Region: Fer4; cl02805 498761006736 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 498761006737 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761006738 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761006739 putative active site [active] 498761006740 putative NTP binding site [chemical binding]; other site 498761006741 putative nucleic acid binding site [nucleotide binding]; other site 498761006742 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761006743 FAD binding domain; Region: FAD_binding_4; pfam01565 498761006744 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 498761006745 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 498761006746 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 498761006747 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 498761006748 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 498761006749 Ligand binding site [chemical binding]; other site 498761006750 Electron transfer flavoprotein domain; Region: ETF; pfam01012 498761006751 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 498761006752 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 498761006753 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 498761006754 dimerization interface [polypeptide binding]; other site 498761006755 ATP binding site [chemical binding]; other site 498761006756 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 498761006757 dimerization interface [polypeptide binding]; other site 498761006758 ATP binding site [chemical binding]; other site 498761006759 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 498761006760 putative active site [active] 498761006761 catalytic triad [active] 498761006762 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 498761006763 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 498761006764 NodB motif; other site 498761006765 active site 498761006766 catalytic site [active] 498761006767 Cd binding site [ion binding]; other site 498761006768 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 498761006769 Spore germination protein; Region: Spore_permease; cl15802 498761006770 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 498761006771 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761006772 dimer interface [polypeptide binding]; other site 498761006773 putative CheW interface [polypeptide binding]; other site 498761006774 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 498761006775 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 498761006776 putative binding surface; other site 498761006777 active site 498761006778 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 498761006779 ATP binding site [chemical binding]; other site 498761006780 Mg2+ binding site [ion binding]; other site 498761006781 G-X-G motif; other site 498761006782 Response regulator receiver domain; Region: Response_reg; pfam00072 498761006783 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 498761006784 active site 498761006785 phosphorylation site [posttranslational modification] 498761006786 intermolecular recognition site; other site 498761006787 dimerization interface [polypeptide binding]; other site 498761006788 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 498761006789 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 498761006790 Chemotaxis phosphatase CheX; Region: CheX; cl15816 498761006791 Transposase domain (DUF772); Region: DUF772; pfam05598 498761006792 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761006793 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761006794 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 498761006795 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 498761006796 active site 498761006797 FMN binding site [chemical binding]; other site 498761006798 substrate binding site [chemical binding]; other site 498761006799 3Fe-4S cluster binding site [ion binding]; other site 498761006800 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 498761006801 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 498761006802 Walker A motif; other site 498761006803 ATP binding site [chemical binding]; other site 498761006804 Walker B motif; other site 498761006805 arginine finger; other site 498761006806 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 498761006807 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 498761006808 putative catalytic cysteine [active] 498761006809 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 498761006810 putative active site [active] 498761006811 metal binding site [ion binding]; metal-binding site 498761006812 Response regulator receiver domain; Region: Response_reg; pfam00072 498761006813 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 498761006814 active site 498761006815 phosphorylation site [posttranslational modification] 498761006816 intermolecular recognition site; other site 498761006817 dimerization interface [polypeptide binding]; other site 498761006818 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 498761006819 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 498761006820 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 498761006821 XdhC Rossmann domain; Region: XdhC_C; pfam13478 498761006822 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 498761006823 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 498761006824 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 498761006825 putative MPT binding site; other site 498761006826 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 498761006827 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 498761006828 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 498761006829 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498761006830 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 498761006831 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498761006832 phenylhydantoinase; Validated; Region: PRK08323 498761006833 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 498761006834 tetramer interface [polypeptide binding]; other site 498761006835 active site 498761006836 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 498761006837 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 498761006838 putative substrate binding site [chemical binding]; other site 498761006839 nucleotide binding site [chemical binding]; other site 498761006840 nucleotide binding site [chemical binding]; other site 498761006841 homodimer interface [polypeptide binding]; other site 498761006842 probable carbamoyltransferase YgeW; Region: ygeW; TIGR03316 498761006843 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 498761006844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006845 peptidase; Reviewed; Region: PRK13004 498761006846 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 498761006847 putative metal binding site [ion binding]; other site 498761006848 putative dimer interface [polypeptide binding]; other site 498761006849 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 498761006850 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 498761006851 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 498761006852 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 498761006853 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 498761006854 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 498761006855 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 498761006856 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 498761006857 Transposase domain (DUF772); Region: DUF772; pfam05598 498761006858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761006859 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761006860 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 498761006861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761006862 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 498761006863 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 498761006864 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 498761006865 active site 498761006866 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 498761006867 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498761006868 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 498761006869 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 498761006870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006871 Walker A/P-loop; other site 498761006872 ATP binding site [chemical binding]; other site 498761006873 Q-loop/lid; other site 498761006874 ABC transporter signature motif; other site 498761006875 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 498761006876 Walker B; other site 498761006877 D-loop; other site 498761006878 H-loop/switch region; other site 498761006879 ABC transporter; Region: ABC_tran_2; pfam12848 498761006880 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 498761006881 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 498761006882 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761006883 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761006884 putative active site [active] 498761006885 putative NTP binding site [chemical binding]; other site 498761006886 putative nucleic acid binding site [nucleotide binding]; other site 498761006887 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761006888 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 498761006889 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 498761006890 Na binding site [ion binding]; other site 498761006891 Protein of unknown function, DUF485; Region: DUF485; cl01231 498761006892 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 498761006893 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 498761006894 active site 498761006895 phosphorylation site [posttranslational modification] 498761006896 intermolecular recognition site; other site 498761006897 dimerization interface [polypeptide binding]; other site 498761006898 LytTr DNA-binding domain; Region: LytTR; cl04498 498761006899 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 498761006900 GAF domain; Region: GAF_2; pfam13185 498761006901 Histidine kinase; Region: His_kinase; pfam06580 498761006902 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 498761006903 ATP binding site [chemical binding]; other site 498761006904 Mg2+ binding site [ion binding]; other site 498761006905 G-X-G motif; other site 498761006906 GntP family permease; Region: GntP_permease; pfam02447 498761006907 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 498761006908 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 498761006909 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 498761006910 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 498761006911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 498761006912 DNA-binding site [nucleotide binding]; DNA binding site 498761006913 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 498761006914 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 498761006915 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 498761006916 dimer interface [polypeptide binding]; other site 498761006917 putative functional site; other site 498761006918 putative MPT binding site; other site 498761006919 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 498761006920 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 498761006921 dimer interface [polypeptide binding]; other site 498761006922 putative functional site; other site 498761006923 putative MPT binding site; other site 498761006924 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 498761006925 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 498761006926 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 498761006927 HIGH motif; other site 498761006928 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 498761006929 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 498761006930 active site 498761006931 KMSKS motif; other site 498761006932 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 498761006933 tRNA binding surface [nucleotide binding]; other site 498761006934 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 498761006935 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 498761006936 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 498761006937 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 498761006938 S-adenosylmethionine binding site [chemical binding]; other site 498761006939 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761006940 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 498761006941 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 498761006942 active site 498761006943 Transcriptional regulators [Transcription]; Region: MarR; COG1846 498761006944 Helix-turn-helix domains; Region: HTH; cl00088 498761006945 Helix-turn-helix domains; Region: HTH; cl00088 498761006946 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498761006947 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 498761006948 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761006949 Walker A/P-loop; other site 498761006950 ATP binding site [chemical binding]; other site 498761006951 Q-loop/lid; other site 498761006952 ABC transporter signature motif; other site 498761006953 Walker B; other site 498761006954 D-loop; other site 498761006955 H-loop/switch region; other site 498761006956 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 498761006957 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 498761006958 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 498761006959 Walker A/P-loop; other site 498761006960 ATP binding site [chemical binding]; other site 498761006961 Q-loop/lid; other site 498761006962 ABC transporter signature motif; other site 498761006963 Walker B; other site 498761006964 D-loop; other site 498761006965 H-loop/switch region; other site 498761006966 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 498761006967 Ligand binding site; other site 498761006968 metal-binding site 498761006969 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 498761006970 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 498761006971 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 498761006972 active site 498761006973 putative substrate binding pocket [chemical binding]; other site 498761006974 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 498761006975 TM-ABC transporter signature motif; other site 498761006976 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 498761006977 TM-ABC transporter signature motif; other site 498761006978 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 498761006979 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 498761006980 Walker A/P-loop; other site 498761006981 ATP binding site [chemical binding]; other site 498761006982 Q-loop/lid; other site 498761006983 ABC transporter signature motif; other site 498761006984 Walker B; other site 498761006985 D-loop; other site 498761006986 H-loop/switch region; other site 498761006987 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 498761006988 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 498761006989 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 498761006990 putative ligand binding site [chemical binding]; other site 498761006991 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 498761006992 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 498761006993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 498761006994 catalytic residue [active] 498761006995 threonine synthase; Validated; Region: PRK06260 498761006996 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 498761006997 homodimer interface [polypeptide binding]; other site 498761006998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761006999 catalytic residue [active] 498761007000 Oligomerisation domain; Region: Oligomerisation; cl00519 498761007001 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 498761007002 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 498761007003 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 498761007004 RNA/DNA binding site [nucleotide binding]; other site 498761007005 RRM dimerization site [polypeptide binding]; other site 498761007006 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 498761007007 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 498761007008 active site 498761007009 (T/H)XGH motif; other site 498761007010 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 498761007011 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 498761007012 putative catalytic cysteine [active] 498761007013 gamma-glutamyl kinase; Provisional; Region: PRK05429 498761007014 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 498761007015 nucleotide binding site [chemical binding]; other site 498761007016 homotetrameric interface [polypeptide binding]; other site 498761007017 putative phosphate binding site [ion binding]; other site 498761007018 putative allosteric binding site; other site 498761007019 PUA domain; Region: PUA; cl00607 498761007020 GTPase CgtA; Reviewed; Region: obgE; PRK12297 498761007021 GTP1/OBG; Region: GTP1_OBG; pfam01018 498761007022 Obg GTPase; Region: Obg; cd01898 498761007023 G1 box; other site 498761007024 GTP/Mg2+ binding site [chemical binding]; other site 498761007025 Switch I region; other site 498761007026 G2 box; other site 498761007027 G3 box; other site 498761007028 Switch II region; other site 498761007029 G4 box; other site 498761007030 G5 box; other site 498761007031 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 498761007032 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 498761007033 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761007034 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761007035 putative active site [active] 498761007036 putative NTP binding site [chemical binding]; other site 498761007037 putative nucleic acid binding site [nucleotide binding]; other site 498761007038 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761007039 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 498761007040 Protein of unknown function (DUF464); Region: DUF464; cl01080 498761007041 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 498761007042 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 498761007043 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 498761007044 homodimer interface [polypeptide binding]; other site 498761007045 oligonucleotide binding site [chemical binding]; other site 498761007046 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 498761007047 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 498761007048 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 498761007049 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 498761007050 FeS/SAM binding site; other site 498761007051 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. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 498761007052 active site 498761007053 putative substrate binding region [chemical binding]; other site 498761007054 Peptidase family M23; Region: Peptidase_M23; pfam01551 498761007055 amino acid transporter; Region: 2A0306; TIGR00909 498761007056 Spore germination protein; Region: Spore_permease; cl15802 498761007057 Spore germination protein; Region: Spore_permease; cl15802 498761007058 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761007059 AMIN domain; Region: AMIN; pfam11741 498761007060 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 498761007061 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 498761007062 active site 498761007063 metal binding site [ion binding]; metal-binding site 498761007064 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 498761007065 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 498761007066 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 498761007067 active site 498761007068 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 498761007069 Flagellar protein YcgR; Region: YcgR_2; pfam12945 498761007070 PilZ domain; Region: PilZ; cl01260 498761007071 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 498761007072 Septum formation topological specificity factor MinE; Region: MinE; cl00538 498761007073 septum site-determining protein MinD; Region: minD_bact; TIGR01968 498761007074 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 498761007075 Switch I; other site 498761007076 Switch II; other site 498761007077 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 498761007078 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 498761007079 penicillin-binding protein 2; Provisional; Region: PRK10795 498761007080 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 498761007081 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761007082 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 498761007083 rod shape-determining protein MreC; Region: MreC; pfam04085 498761007084 rod shape-determining protein MreB; Provisional; Region: PRK13927 498761007085 Cell division protein FtsA; Region: FtsA; cl11496 498761007086 hypothetical protein; Reviewed; Region: PRK00024 498761007087 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 498761007088 MPN+ (JAMM) motif; other site 498761007089 Zinc-binding site [ion binding]; other site 498761007090 Maf-like protein; Region: Maf; pfam02545 498761007091 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 498761007092 active site 498761007093 dimer interface [polypeptide binding]; other site 498761007094 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 498761007095 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 498761007096 B12 binding site [chemical binding]; other site 498761007097 Transposase domain (DUF772); Region: DUF772; pfam05598 498761007098 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761007099 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761007100 Glucose inhibited division protein A; Region: GIDA; pfam01134 498761007101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761007102 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 498761007103 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 498761007104 homotrimer interaction site [polypeptide binding]; other site 498761007105 putative active site [active] 498761007106 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 498761007107 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 498761007108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761007109 Phosphate transporter family; Region: PHO4; cl00396 498761007110 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 498761007111 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 498761007112 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 498761007113 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 498761007114 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 498761007115 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 498761007116 HIGH motif; other site 498761007117 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 498761007118 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 498761007119 active site 498761007120 KMSKS motif; other site 498761007121 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 498761007122 tRNA binding surface [nucleotide binding]; other site 498761007123 anticodon binding site; other site 498761007124 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 498761007125 ArgK protein; Region: ArgK; pfam03308 498761007126 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 498761007127 Walker A; other site 498761007128 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 498761007129 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 498761007130 active site residue [active] 498761007131 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 498761007132 oligomerization interface [polypeptide binding]; other site 498761007133 active site 498761007134 metal binding site [ion binding]; metal-binding site 498761007135 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 498761007136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761007137 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 498761007138 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 498761007139 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 498761007140 NAD binding site [chemical binding]; other site 498761007141 dimer interface [polypeptide binding]; other site 498761007142 substrate binding site [chemical binding]; other site 498761007143 tetramer (dimer of dimers) interface [polypeptide binding]; other site 498761007144 Integral membrane protein TerC family; Region: TerC; cl10468 498761007145 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 498761007146 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 498761007147 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 498761007148 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 498761007149 TPP-binding site [chemical binding]; other site 498761007150 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498761007151 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 498761007152 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 498761007153 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 498761007154 dimer interface [polypeptide binding]; other site 498761007155 PYR/PP interface [polypeptide binding]; other site 498761007156 TPP binding site [chemical binding]; other site 498761007157 substrate binding site [chemical binding]; other site 498761007158 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 498761007159 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 498761007160 Ferredoxin [Energy production and conversion]; Region: COG1146 498761007161 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 498761007162 GAF domain; Region: GAF; cl15785 498761007163 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 498761007164 dimer interface [polypeptide binding]; other site 498761007165 phosphorylation site [posttranslational modification] 498761007166 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 498761007167 ATP binding site [chemical binding]; other site 498761007168 Mg2+ binding site [ion binding]; other site 498761007169 G-X-G motif; other site 498761007170 Response regulator receiver domain; Region: Response_reg; pfam00072 498761007171 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 498761007172 active site 498761007173 phosphorylation site [posttranslational modification] 498761007174 intermolecular recognition site; other site 498761007175 dimerization interface [polypeptide binding]; other site 498761007176 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 498761007177 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 498761007178 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 498761007179 NodB motif; other site 498761007180 putative active site [active] 498761007181 putative catalytic site [active] 498761007182 putative Zn binding site [ion binding]; other site 498761007183 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 498761007184 DNA-directed RNA polymerase specialized sigma subunit [Transcription]; Region: FliA; COG1191 498761007185 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761007186 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 498761007187 DNA binding residues [nucleotide binding] 498761007188 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 498761007189 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 498761007190 active site 498761007191 metal-binding site [ion binding] 498761007192 nucleotide-binding site [chemical binding]; other site 498761007193 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 498761007194 CHAD domain; Region: CHAD; cl10506 498761007195 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 498761007196 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 498761007197 dimer interface [polypeptide binding]; other site 498761007198 active site 498761007199 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 498761007200 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761007201 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761007202 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 498761007203 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 498761007204 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 498761007205 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 498761007206 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 498761007207 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 498761007208 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 498761007209 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 498761007210 Walker A motif; other site 498761007211 ATP binding site [chemical binding]; other site 498761007212 Walker B motif; other site 498761007213 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 498761007214 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 498761007215 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 498761007216 [4Fe-4S] binding site [ion binding]; other site 498761007217 molybdopterin cofactor binding site; other site 498761007218 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 498761007219 molybdopterin cofactor binding site; other site 498761007220 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 498761007221 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 498761007222 dimerization interface [polypeptide binding]; other site 498761007223 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 498761007224 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761007225 dimer interface [polypeptide binding]; other site 498761007226 putative CheW interface [polypeptide binding]; other site 498761007227 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 498761007228 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 498761007229 putative acyl-acceptor binding pocket; other site 498761007230 AMP-binding enzyme; Region: AMP-binding; cl15778 498761007231 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 498761007232 4Fe-4S binding domain; Region: Fer4; cl02805 498761007233 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 498761007234 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 498761007235 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 498761007236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498761007237 active site 498761007238 HIGH motif; other site 498761007239 nucleotide binding site [chemical binding]; other site 498761007240 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 498761007241 active site 498761007242 KMSKS motif; other site 498761007243 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 498761007244 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 498761007245 metal-binding site [ion binding] 498761007246 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 498761007247 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 498761007248 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 498761007249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761007250 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 498761007251 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 498761007252 minor groove reading motif; other site 498761007253 helix-hairpin-helix signature motif; other site 498761007254 substrate binding pocket [chemical binding]; other site 498761007255 active site 498761007256 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 498761007257 Carbohydrate binding domain (family 25); Region: CBM_25; cl04060 498761007258 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 498761007259 Protein of unknown function (DUF3243); Region: DUF3243; pfam11588 498761007260 Rubredoxin; Region: Rubredoxin; pfam00301 498761007261 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 498761007262 iron binding site [ion binding]; other site 498761007263 adenylosuccinate lyase; Provisional; Region: PRK09285 498761007264 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 498761007265 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 498761007266 active site 498761007267 catalytic tetrad [active] 498761007268 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 498761007269 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 498761007270 non-specific DNA binding site [nucleotide binding]; other site 498761007271 salt bridge; other site 498761007272 sequence-specific DNA binding site [nucleotide binding]; other site 498761007273 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761007274 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 498761007275 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 498761007276 non-specific DNA binding site [nucleotide binding]; other site 498761007277 salt bridge; other site 498761007278 sequence-specific DNA binding site [nucleotide binding]; other site 498761007279 NAD synthetase; Provisional; Region: PRK13981 498761007280 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 498761007281 multimer interface [polypeptide binding]; other site 498761007282 active site 498761007283 catalytic triad [active] 498761007284 protein interface 1 [polypeptide binding]; other site 498761007285 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 498761007286 homodimer interface [polypeptide binding]; other site 498761007287 NAD binding pocket [chemical binding]; other site 498761007288 ATP binding pocket [chemical binding]; other site 498761007289 Mg binding site [ion binding]; other site 498761007290 active-site loop [active] 498761007291 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 498761007292 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 498761007293 active site 498761007294 metal binding site [ion binding]; metal-binding site 498761007295 S-layer homology domain; Region: SLH; pfam00395 498761007296 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 498761007297 RNA/DNA hybrid binding site [nucleotide binding]; other site 498761007298 active site 498761007299 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007300 active site 498761007301 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 498761007302 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 498761007303 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 498761007304 protein binding site [polypeptide binding]; other site 498761007305 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 498761007306 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 498761007307 active site 498761007308 phosphorylation site [posttranslational modification] 498761007309 intermolecular recognition site; other site 498761007310 dimerization interface [polypeptide binding]; other site 498761007311 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 498761007312 DNA binding site [nucleotide binding] 498761007313 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 498761007314 dimerization interface [polypeptide binding]; other site 498761007315 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 498761007316 dimer interface [polypeptide binding]; other site 498761007317 phosphorylation site [posttranslational modification] 498761007318 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 498761007319 ATP binding site [chemical binding]; other site 498761007320 Mg2+ binding site [ion binding]; other site 498761007321 G-X-G motif; other site 498761007322 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 498761007323 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 498761007324 transmembrane helices; other site 498761007325 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 498761007326 binding surface 498761007327 TPR motif; other site 498761007328 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 498761007329 binding surface 498761007330 TPR motif; other site 498761007331 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 498761007332 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 498761007333 active site 498761007334 ATP binding site [chemical binding]; other site 498761007335 substrate binding site [chemical binding]; other site 498761007336 activation loop (A-loop); other site 498761007337 FeoA domain; Region: FeoA; cl00838 498761007338 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 498761007339 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498761007340 G1 box; other site 498761007341 GTP/Mg2+ binding site [chemical binding]; other site 498761007342 Switch I region; other site 498761007343 G2 box; other site 498761007344 G3 box; other site 498761007345 Switch II region; other site 498761007346 G4 box; other site 498761007347 G5 box; other site 498761007348 Nucleoside recognition; Region: Gate; cl00486 498761007349 Nucleoside recognition; Region: Gate; cl00486 498761007350 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 498761007351 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007352 Walker A/P-loop; other site 498761007353 ATP binding site [chemical binding]; other site 498761007354 Q-loop/lid; other site 498761007355 ABC transporter signature motif; other site 498761007356 Walker B; other site 498761007357 D-loop; other site 498761007358 H-loop/switch region; other site 498761007359 ABC-2 type transporter; Region: ABC2_membrane; cl11417 498761007360 Probable zinc-binding domain; Region: zf-trcl; pfam13451 498761007361 CxxC-x17-CxxC domain; Region: cxxc_cxxc_Mbark; TIGR04272 498761007362 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 498761007363 Ligand Binding Site [chemical binding]; other site 498761007364 RelB antitoxin; Region: RelB; cl01171 498761007365 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761007366 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 498761007367 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761007368 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 498761007369 DNA binding residues [nucleotide binding] 498761007370 NgoMIV restriction enzyme; Region: NgoMIV_restric; pfam09015 498761007371 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 498761007372 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 498761007373 cofactor binding site; other site 498761007374 DNA binding site [nucleotide binding] 498761007375 substrate interaction site [chemical binding]; other site 498761007376 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 498761007377 additional DNA contacts [nucleotide binding]; other site 498761007378 mismatch recognition site; other site 498761007379 active site 498761007380 zinc binding site [ion binding]; other site 498761007381 DNA intercalation site [nucleotide binding]; other site 498761007382 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 498761007383 active site 498761007384 catalytic triad [active] 498761007385 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1223 498761007386 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 498761007387 Walker A motif; other site 498761007388 ATP binding site [chemical binding]; other site 498761007389 Walker B motif; other site 498761007390 arginine finger; other site 498761007391 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498761007392 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761007393 catalytic residues [active] 498761007394 catalytic nucleophile [active] 498761007395 Recombinase; Region: Recombinase; pfam07508 498761007396 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761007397 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498761007398 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761007399 catalytic residues [active] 498761007400 catalytic nucleophile [active] 498761007401 Recombinase; Region: Recombinase; pfam07508 498761007402 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761007403 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 498761007404 amidase catalytic site [active] 498761007405 Zn binding residues [ion binding]; other site 498761007406 substrate binding site [chemical binding]; other site 498761007407 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761007408 Holin family; Region: Phage_holin_4; cl01989 498761007409 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 498761007410 active site 498761007411 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 498761007412 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 498761007413 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 498761007414 Phage-related protein [Function unknown]; Region: COG4722; cl15832 498761007415 Phage tail protein; Region: Sipho_tail; pfam05709 498761007416 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 498761007417 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 498761007418 Phage-related protein [Function unknown]; Region: COG5412 498761007419 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 498761007420 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 498761007421 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 498761007422 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 498761007423 oligomerization interface [polypeptide binding]; other site 498761007424 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 498761007425 Phage capsid family; Region: Phage_capsid; pfam05065 498761007426 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 498761007427 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 498761007428 oligomer interface [polypeptide binding]; other site 498761007429 active site residues [active] 498761007430 Phage-related protein [Function unknown]; Region: COG4695; cl01923 498761007431 Phage portal protein; Region: Phage_portal; pfam04860 498761007432 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 498761007433 Phage Terminase; Region: Terminase_1; pfam03354 498761007434 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 498761007435 putative active site pocket [active] 498761007436 dimerization interface [polypeptide binding]; other site 498761007437 putative catalytic residue [active] 498761007438 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 498761007439 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 498761007440 ParB-like nuclease domain; Region: ParBc; cl02129 498761007441 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007442 ParB-like nuclease domain; Region: ParBc; cl02129 498761007443 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 498761007444 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007445 Phage terminase, small subunit; Region: Terminase_4; cl01525 498761007446 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 498761007447 D5 N terminal like; Region: D5_N; cl07360 498761007448 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 498761007449 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 498761007450 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 498761007451 active site 498761007452 catalytic site [active] 498761007453 substrate binding site [chemical binding]; other site 498761007454 DNA polymerase A type from plastids of higher plants possibly involve in DNA replication or in the repair of errors occurring during replication; Region: DNA_pol_A_plastid_like; cd08640 498761007455 active site 498761007456 DNA binding site [nucleotide binding] 498761007457 catalytic site [active] 498761007458 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 498761007459 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 498761007460 ATP binding site [chemical binding]; other site 498761007461 putative Mg++ binding site [ion binding]; other site 498761007462 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 498761007463 nucleotide binding region [chemical binding]; other site 498761007464 ATP-binding site [chemical binding]; other site 498761007465 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498761007466 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 498761007467 Helix-turn-helix domains; Region: HTH; cl00088 498761007468 NlpC/P60 family; Region: NLPC_P60; cl11438 498761007469 NlpC/P60 family; Region: NLPC_P60; cl11438 498761007470 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 498761007471 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 498761007472 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 498761007473 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 498761007474 DNA binding residues [nucleotide binding] 498761007475 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 498761007476 Helix-turn-helix domains; Region: HTH; cl00088 498761007477 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 498761007478 Protein of unknown function DUF262; Region: DUF262; cl14890 498761007479 Protein of unknown function DUF262; Region: DUF262; cl14890 498761007480 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 498761007481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007482 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007483 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 498761007484 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007485 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007486 Predicted ATPase [General function prediction only]; Region: COG5293 498761007487 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761007488 Helix-turn-helix domains; Region: HTH; cl00088 498761007489 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498761007490 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 498761007491 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 498761007492 active site 498761007493 DNA binding site [nucleotide binding] 498761007494 catalytic site [active] 498761007495 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 498761007496 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 498761007497 Virulence-associated protein E; Region: VirE; pfam05272 498761007498 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 498761007499 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 498761007500 ATP binding site [chemical binding]; other site 498761007501 putative Mg++ binding site [ion binding]; other site 498761007502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007503 nucleotide binding region [chemical binding]; other site 498761007504 ATP-binding site [chemical binding]; other site 498761007505 Phage terminase, small subunit; Region: Terminase_4; cl01525 498761007506 ParB-like nuclease domain; Region: ParBc; cl02129 498761007507 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007508 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007509 cofactor binding site; other site 498761007510 DNA binding site [nucleotide binding] 498761007511 substrate interaction site [chemical binding]; other site 498761007512 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007513 Transposase domain (DUF772); Region: DUF772; pfam05598 498761007514 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761007515 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761007516 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 498761007517 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761007518 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 498761007519 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 498761007520 Int/Topo IB signature motif; other site 498761007521 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 498761007522 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761007523 active site 498761007524 DNA binding site [nucleotide binding] 498761007525 Int/Topo IB signature motif; other site 498761007526 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 498761007527 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 498761007528 active site 498761007529 DNA binding site [nucleotide binding] 498761007530 Int/Topo IB signature motif; other site 498761007531 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 498761007532 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 498761007533 putative active site pocket [active] 498761007534 dimerization interface [polypeptide binding]; other site 498761007535 putative catalytic residue [active] 498761007536 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 498761007537 Phage Terminase; Region: Terminase_1; pfam03354 498761007538 Phage-related protein [Function unknown]; Region: COG4695; cl01923 498761007539 Phage portal protein; Region: Phage_portal; pfam04860 498761007540 Clp protease; Region: CLP_protease; pfam00574 498761007541 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 498761007542 oligomer interface [polypeptide binding]; other site 498761007543 active site residues [active] 498761007544 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 498761007545 Phage capsid family; Region: Phage_capsid; pfam05065 498761007546 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 498761007547 oligomerization interface [polypeptide binding]; other site 498761007548 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 498761007549 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 498761007550 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 498761007551 Myosin tail; Region: Myosin_tail_1; pfam01576 498761007552 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 498761007553 Phage-related protein [Function unknown]; Region: COG5412 498761007554 Phage-related protein [Function unknown]; Region: COG4722; cl15832 498761007555 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 498761007556 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 498761007557 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 498761007558 active site 498761007559 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 498761007560 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 498761007561 Holin family; Region: Phage_holin_4; cl01989 498761007562 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 498761007563 amidase catalytic site [active] 498761007564 Zn binding residues [ion binding]; other site 498761007565 substrate binding site [chemical binding]; other site 498761007566 Sporulation related domain; Region: SPOR; cl10051 498761007567 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761007568 catalytic residues [active] 498761007569 catalytic nucleophile [active] 498761007570 Recombinase; Region: Recombinase; pfam07508 498761007571 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761007572 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 498761007573 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 498761007574 catalytic residues [active] 498761007575 catalytic nucleophile [active] 498761007576 Recombinase; Region: Recombinase; pfam07508 498761007577 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 498761007578 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 498761007579 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 498761007580 DNA binding residues [nucleotide binding] 498761007581 TRAM domain; Region: TRAM; cl01282 498761007582 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 498761007583 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 498761007584 S-adenosylmethionine binding site [chemical binding]; other site 498761007585 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 498761007586 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 498761007587 active site 498761007588 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 498761007589 CAAX protease self-immunity; Region: Abi; cl00558 498761007590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 498761007591 Uncharacterized conserved protein [Function unknown]; Region: COG1543 498761007592 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 498761007593 active site 498761007594 substrate binding site [chemical binding]; other site 498761007595 catalytic site [active] 498761007596 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 498761007597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 498761007598 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 498761007599 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 498761007600 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 498761007601 active site 498761007602 catalytic residues [active] 498761007603 metal binding site [ion binding]; metal-binding site 498761007604 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 498761007605 catalytic triad [active] 498761007606 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 498761007607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007608 Family description; Region: UvrD_C_2; cl15862 498761007609 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498761007610 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 498761007611 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 498761007612 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 498761007613 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 498761007614 generic binding surface I; other site 498761007615 generic binding surface II; other site 498761007616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 498761007617 Zn2+ binding site [ion binding]; other site 498761007618 Mg2+ binding site [ion binding]; other site 498761007619 Uncharacterized conserved protein [Function unknown]; Region: COG2966 498761007620 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 498761007621 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 498761007622 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 498761007623 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 498761007624 Walker A/P-loop; other site 498761007625 ATP binding site [chemical binding]; other site 498761007626 Q-loop/lid; other site 498761007627 ABC transporter signature motif; other site 498761007628 Walker B; other site 498761007629 D-loop; other site 498761007630 H-loop/switch region; other site 498761007631 Cobalt transport protein; Region: CbiQ; cl00463 498761007632 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 498761007633 PDGLE domain; Region: PDGLE; cl07986 498761007634 Restriction endonuclease [Defense mechanisms]; Region: COG3587 498761007635 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 498761007636 ATP binding site [chemical binding]; other site 498761007637 putative Mg++ binding site [ion binding]; other site 498761007638 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007639 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007640 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 498761007641 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 498761007642 putative active site [active] 498761007643 catalytic site [active] 498761007644 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 498761007645 ATP binding site [chemical binding]; other site 498761007646 putative Mg++ binding site [ion binding]; other site 498761007647 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 498761007648 nucleotide binding region [chemical binding]; other site 498761007649 ATP-binding site [chemical binding]; other site 498761007650 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 498761007651 active site 498761007652 NTP binding site [chemical binding]; other site 498761007653 metal binding triad [ion binding]; metal-binding site 498761007654 antibiotic binding site [chemical binding]; other site 498761007655 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761007656 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761007657 putative NTP binding site [chemical binding]; other site 498761007658 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 498761007659 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 498761007660 SdpI/YhfL protein family; Region: SdpI; pfam13630 498761007661 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 498761007662 dimerization interface [polypeptide binding]; other site 498761007663 putative DNA binding site [nucleotide binding]; other site 498761007664 putative Zn2+ binding site [ion binding]; other site 498761007665 L-lactate permease; Region: Lactate_perm; cl00701 498761007666 glycolate transporter; Provisional; Region: PRK09695 498761007667 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 498761007668 FMN binding site [chemical binding]; other site 498761007669 dimer interface [polypeptide binding]; other site 498761007670 Sugar fermentation stimulation protein; Region: SfsA; cl00647 498761007671 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 498761007672 GIY-YIG motif/motif A; other site 498761007673 putative active site [active] 498761007674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007675 putative metal binding site [ion binding]; other site 498761007676 ABC transporter signature motif; other site 498761007677 Walker B; other site 498761007678 D-loop; other site 498761007679 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761007680 dimer interface [polypeptide binding]; other site 498761007681 putative CheW interface [polypeptide binding]; other site 498761007682 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 498761007683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 498761007684 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 498761007685 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 498761007686 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 498761007687 GatB domain; Region: GatB_Yqey; cl11497 498761007688 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 498761007689 Amidase; Region: Amidase; cl11426 498761007690 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 498761007691 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 498761007692 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 498761007693 nucleotide binding pocket [chemical binding]; other site 498761007694 K-X-D-G motif; other site 498761007695 catalytic site [active] 498761007696 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 498761007697 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 498761007698 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 498761007699 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 498761007700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007701 Family description; Region: UvrD_C_2; cl15862 498761007702 Beta propeller domain; Region: Beta_propel; pfam09826 498761007703 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 498761007704 putative substrate translocation pore; other site 498761007705 metabolite-proton symporter; Region: 2A0106; TIGR00883 498761007706 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007707 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 498761007708 Protein of unknown function (DUF2680); Region: DUF2680; pfam10925 498761007709 Nucleoside recognition; Region: Gate; cl00486 498761007710 Nucleoside recognition; Region: Gate; cl00486 498761007711 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 498761007712 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 498761007713 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 498761007714 metal binding site [ion binding]; metal-binding site 498761007715 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 498761007716 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 498761007717 substrate binding site [chemical binding]; other site 498761007718 glutamase interaction surface [polypeptide binding]; other site 498761007719 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 498761007720 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 498761007721 catalytic residues [active] 498761007722 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 498761007723 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 498761007724 putative active site [active] 498761007725 oxyanion strand; other site 498761007726 catalytic triad [active] 498761007727 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 498761007728 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 498761007729 putative active site pocket [active] 498761007730 4-fold oligomerization interface [polypeptide binding]; other site 498761007731 metal binding residues [ion binding]; metal-binding site 498761007732 3-fold/trimer interface [polypeptide binding]; other site 498761007733 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 498761007734 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 498761007735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761007736 homodimer interface [polypeptide binding]; other site 498761007737 catalytic residue [active] 498761007738 histidinol dehydrogenase; Region: hisD; TIGR00069 498761007739 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 498761007740 NAD binding site [chemical binding]; other site 498761007741 dimerization interface [polypeptide binding]; other site 498761007742 product binding site; other site 498761007743 substrate binding site [chemical binding]; other site 498761007744 zinc binding site [ion binding]; other site 498761007745 catalytic residues [active] 498761007746 ATP phosphoribosyltransferase; Region: HisG; cl15266 498761007747 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 498761007748 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 498761007749 dimer interface [polypeptide binding]; other site 498761007750 motif 1; other site 498761007751 active site 498761007752 motif 2; other site 498761007753 motif 3; other site 498761007754 Helix-turn-helix domains; Region: HTH; cl00088 498761007755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 498761007756 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 498761007757 Probable transposase; Region: OrfB_IS605; pfam01385 498761007758 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 498761007759 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 498761007760 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 498761007761 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761007762 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 498761007763 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 498761007764 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 498761007765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 498761007766 catalytic residue [active] 498761007767 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 498761007768 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 498761007769 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 498761007770 YvrJ protein family; Region: YvrJ; pfam12841 498761007771 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761007772 dimer interface [polypeptide binding]; other site 498761007773 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498761007774 putative CheW interface [polypeptide binding]; other site 498761007775 FeoA domain; Region: FeoA; cl00838 498761007776 FeoA domain; Region: FeoA; cl00838 498761007777 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 498761007778 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 498761007779 G1 box; other site 498761007780 GTP/Mg2+ binding site [chemical binding]; other site 498761007781 Switch I region; other site 498761007782 G2 box; other site 498761007783 G3 box; other site 498761007784 Switch II region; other site 498761007785 G4 box; other site 498761007786 G5 box; other site 498761007787 Nucleoside recognition; Region: Gate; cl00486 498761007788 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 498761007789 Nucleoside recognition; Region: Gate; cl00486 498761007790 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 498761007791 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 498761007792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 498761007793 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 498761007794 Transposase domain (DUF772); Region: DUF772; pfam05598 498761007795 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 498761007796 DDE superfamily endonuclease; Region: DDE_4; cl15789 498761007797 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 498761007798 HsdM N-terminal domain; Region: HsdM_N; pfam12161 498761007799 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 498761007800 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 498761007801 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 498761007802 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 498761007803 Helix-turn-helix domains; Region: HTH; cl00088 498761007804 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 498761007805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 498761007806 putative substrate translocation pore; other site 498761007807 PAS domain S-box; Region: sensory_box; TIGR00229 498761007808 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 498761007809 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 498761007810 metal binding site [ion binding]; metal-binding site 498761007811 active site 498761007812 I-site; other site 498761007813 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 498761007814 Cache domain; Region: Cache_1; pfam02743 498761007815 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 498761007816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761007817 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 498761007818 dimer interface [polypeptide binding]; other site 498761007819 putative CheW interface [polypeptide binding]; other site 498761007820 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 498761007821 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 498761007822 FtsX-like permease family; Region: FtsX; cl15850 498761007823 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 498761007824 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 498761007825 Walker A/P-loop; other site 498761007826 ATP binding site [chemical binding]; other site 498761007827 Q-loop/lid; other site 498761007828 ABC transporter signature motif; other site 498761007829 Walker B; other site 498761007830 D-loop; other site 498761007831 H-loop/switch region; other site 498761007832 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 498761007833 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 498761007834 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 498761007835 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 498761007836 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 498761007837 Cation efflux family; Region: Cation_efflux; cl00316 498761007838 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 498761007839 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 498761007840 putative active site [active] 498761007841 putative NTP binding site [chemical binding]; other site 498761007842 putative nucleic acid binding site [nucleotide binding]; other site 498761007843 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 498761007844 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 498761007845 active site 498761007846 metal binding site [ion binding]; metal-binding site 498761007847 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 498761007848 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 498761007849 dimer interface [polypeptide binding]; other site 498761007850 putative CheW interface [polypeptide binding]; other site 498761007851 FOG: CBS domain [General function prediction only]; Region: COG0517 498761007852 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_9; cd04622 498761007853 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 498761007854 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 498761007855 ATP-grasp domain; Region: ATP-grasp_4; cl03087 498761007856 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 498761007857 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 498761007858 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 498761007859 purine monophosphate binding site [chemical binding]; other site 498761007860 dimer interface [polypeptide binding]; other site 498761007861 putative catalytic residues [active] 498761007862 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 498761007863 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 498761007864 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 498761007865 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 498761007866 active site 498761007867 substrate binding site [chemical binding]; other site 498761007868 cosubstrate binding site; other site 498761007869 catalytic site [active] 498761007870 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 498761007871 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 498761007872 dimerization interface [polypeptide binding]; other site 498761007873 putative ATP binding site [chemical binding]; other site 498761007874 amidophosphoribosyltransferase; Provisional; Region: PRK05793 498761007875 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 498761007876 active site 498761007877 tetramer interface [polypeptide binding]; other site 498761007878 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 498761007879 active site 498761007880 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 498761007881 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 498761007882 ATP binding site [chemical binding]; other site 498761007883 active site 498761007884 substrate binding site [chemical binding]; other site 498761007885 adenylosuccinate lyase; Provisional; Region: PRK07492 498761007886 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 498761007887 tetramer interface [polypeptide binding]; other site 498761007888 active site 498761007889 AIR carboxylase; Region: AIRC; cl00310 498761007890 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 498761007891 UbiA prenyltransferase family; Region: UbiA; cl00337 498761007892 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; cl05194 498761007893 Spore germination protein; Region: Spore_permease; cl15802 498761007894 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 498761007895 S-layer homology domain; Region: SLH; pfam00395 498761007896 SpoVG; Region: SpoVG; cl00915