-- dump date 20120504_141402 -- class Genbank::misc_feature -- table misc_feature_note -- id note 272561000001 Domain of unknown function (DUF378); Region: DUF378; cl00943 272561000002 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 272561000003 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 272561000004 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 272561000005 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 272561000006 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 272561000007 GatB domain; Region: GatB_Yqey; cl11497 272561000008 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 272561000009 ribonuclease HIII; Region: rnhC; TIGR00716 272561000010 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 272561000011 RNA/DNA hybrid binding site [nucleotide binding]; other site 272561000012 active site 272561000013 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 272561000014 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 272561000015 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 272561000016 putative acyl-acceptor binding pocket; other site 272561000017 Uncharacterized conserved protein [Function unknown]; Region: COG1624 272561000018 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 272561000019 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 272561000020 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 272561000021 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 272561000022 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 272561000023 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 272561000024 putative active site [active] 272561000025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000026 Bacterial SH3 domain; Region: SH3_3; cl02551 272561000027 Bacterial SH3 domain; Region: SH3_3; cl02551 272561000028 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 272561000029 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272561000030 HIGH motif; other site 272561000031 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 272561000032 active site 272561000033 KMSKS motif; other site 272561000034 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 272561000035 tRNA binding surface [nucleotide binding]; other site 272561000036 anticodon binding site; other site 272561000037 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 272561000038 Catalytic site [active] 272561000039 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 272561000040 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 272561000041 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 272561000042 peptide chain release factor 1; Validated; Region: prfA; PRK00591 272561000043 RF-1 domain; Region: RF-1; cl02875 272561000044 RF-1 domain; Region: RF-1; cl02875 272561000045 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 272561000046 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 272561000047 S-adenosylmethionine binding site [chemical binding]; other site 272561000048 signal recognition particle protein; Provisional; Region: PRK10867 272561000049 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272561000050 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 272561000051 P loop; other site 272561000052 GTP binding site [chemical binding]; other site 272561000053 Signal peptide binding domain; Region: SRP_SPB; pfam02978 272561000054 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 272561000055 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 272561000056 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 272561000057 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 272561000058 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 272561000059 RNA/DNA hybrid binding site [nucleotide binding]; other site 272561000060 active site 272561000061 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 272561000062 catalytic site [active] 272561000063 G-X2-G-X-G-K; other site 272561000064 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 272561000065 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 272561000066 active site 272561000067 HIGH motif; other site 272561000068 KMSKS motif; other site 272561000069 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 272561000070 tRNA binding surface [nucleotide binding]; other site 272561000071 anticodon binding site; other site 272561000072 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 272561000073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000074 Uncharacterized conserved protein [Function unknown]; Region: COG4285 272561000075 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 272561000076 conserved cys residue [active] 272561000077 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 272561000078 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272561000079 trimer interface [polypeptide binding]; other site 272561000080 active site 272561000081 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 272561000082 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 272561000083 Walker A motif; other site 272561000084 ATP binding site [chemical binding]; other site 272561000085 Walker B motif; other site 272561000086 arginine finger; other site 272561000087 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 272561000088 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 272561000089 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 272561000090 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272561000091 Tir chaperone protein (CesT); Region: CesT; cl08444 272561000092 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 272561000093 dimer interface [polypeptide binding]; other site 272561000094 ssDNA binding site [nucleotide binding]; other site 272561000095 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272561000096 multifunctional aminopeptidase A; Provisional; Region: PRK00913 272561000097 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 272561000098 interface (dimer of trimers) [polypeptide binding]; other site 272561000099 Substrate-binding/catalytic site; other site 272561000100 Zn-binding sites [ion binding]; other site 272561000101 hypothetical protein; Provisional; Region: PRK05907 272561000102 Predicted methyltransferases [General function prediction only]; Region: COG0313 272561000103 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 272561000104 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; cl00322 272561000105 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 272561000106 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 272561000107 FeS/SAM binding site; other site 272561000108 HemN C-terminal region; Region: HemN_C; pfam06969 272561000109 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 272561000110 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 272561000111 TPP-binding site [chemical binding]; other site 272561000112 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 272561000113 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 272561000114 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 272561000115 E3 interaction surface; other site 272561000116 lipoyl attachment site [posttranslational modification]; other site 272561000117 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272561000118 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 272561000119 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 272561000120 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 272561000121 IncA protein; Region: IncA; pfam04156 272561000122 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cd02749 272561000123 ADP-ribose binding site [chemical binding]; other site 272561000124 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 272561000125 catalytic loop [active] 272561000126 iron binding site [ion binding]; other site 272561000127 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 272561000128 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272561000129 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 272561000130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272561000131 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272561000132 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 272561000133 DNA binding residues [nucleotide binding] 272561000134 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 272561000135 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 272561000136 active site 272561000137 HIGH motif; other site 272561000138 dimer interface [polypeptide binding]; other site 272561000139 KMSKS motif; other site 272561000140 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 272561000141 RNA binding surface [nucleotide binding]; other site 272561000142 6-phosphogluconate dehydrogenase, decarboxylating; Region: gnd; TIGR00873 272561000143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561000144 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 272561000145 GTP-binding protein LepA; Provisional; Region: PRK05433 272561000146 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 272561000147 G1 box; other site 272561000148 putative GEF interaction site [polypeptide binding]; other site 272561000149 GTP/Mg2+ binding site [chemical binding]; other site 272561000150 Switch I region; other site 272561000151 G2 box; other site 272561000152 G3 box; other site 272561000153 Switch II region; other site 272561000154 G4 box; other site 272561000155 G5 box; other site 272561000156 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 272561000157 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 272561000158 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 272561000159 TLC ATP/ADP transporter; Region: TLC; cl03940 272561000160 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272561000161 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272561000162 intersubunit interface [polypeptide binding]; other site 272561000163 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 272561000164 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 272561000165 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 272561000166 ABC-ATPase subunit interface; other site 272561000167 dimer interface [polypeptide binding]; other site 272561000168 putative PBP binding regions; other site 272561000169 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 272561000170 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 272561000171 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 272561000172 ABC-ATPase subunit interface; other site 272561000173 dimer interface [polypeptide binding]; other site 272561000174 putative PBP binding regions; other site 272561000175 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 272561000176 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 272561000177 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 272561000178 RIP metalloprotease RseP; Region: TIGR00054 272561000179 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 272561000180 active site 272561000181 RIP metalloprotease RseP; Region: TIGR00054 272561000182 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 272561000183 putative substrate binding region [chemical binding]; other site 272561000184 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 272561000185 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 272561000186 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 272561000187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000188 Walker A/P-loop; other site 272561000189 ATP binding site [chemical binding]; other site 272561000190 Q-loop/lid; other site 272561000191 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000192 ABC transporter signature motif; other site 272561000193 Walker B; other site 272561000194 DNA polymerase III subunit beta; Validated; Region: PRK05643 272561000195 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 272561000196 putative DNA binding surface [nucleotide binding]; other site 272561000197 dimer interface [polypeptide binding]; other site 272561000198 beta-clamp/clamp loader binding surface; other site 272561000199 beta-clamp/translesion DNA polymerase binding surface; other site 272561000200 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 272561000201 SmpB-tmRNA interface; other site 272561000202 ApbE family; Region: ApbE; cl00643 272561000203 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 272561000204 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 272561000205 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 272561000206 homodimer interface [polypeptide binding]; other site 272561000207 NADP binding site [chemical binding]; other site 272561000208 substrate binding site [chemical binding]; other site 272561000209 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000210 putative active site [active] 272561000211 catalytic site [active] 272561000212 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 272561000213 putative active site [active] 272561000214 catalytic site [active] 272561000215 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 272561000216 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 272561000217 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 272561000218 Tir chaperone protein (CesT); Region: CesT; cl08444 272561000219 HrpJ-like domain; Region: HrpJ; cl15454 272561000220 type III secretion system regulator InvE; Provisional; Region: PRK15338 272561000221 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 272561000222 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 272561000223 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 272561000224 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 272561000225 GTP-binding protein YchF; Reviewed; Region: PRK09601 272561000226 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 272561000227 G1 box; other site 272561000228 GTP/Mg2+ binding site [chemical binding]; other site 272561000229 Switch I region; other site 272561000230 G2 box; other site 272561000231 Switch II region; other site 272561000232 G3 box; other site 272561000233 G4 box; other site 272561000234 G5 box; other site 272561000235 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 272561000236 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 272561000237 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 272561000238 active site 272561000239 Riboflavin kinase; Region: Flavokinase; cl03312 272561000240 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 272561000241 RNA binding site [nucleotide binding]; other site 272561000242 active site 272561000243 Ribosome-binding factor A; Region: RBFA; cl00542 272561000244 translation initiation factor IF-2; Region: IF-2; TIGR00487 272561000245 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 272561000246 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 272561000247 G1 box; other site 272561000248 putative GEF interaction site [polypeptide binding]; other site 272561000249 GTP/Mg2+ binding site [chemical binding]; other site 272561000250 Switch I region; other site 272561000251 G2 box; other site 272561000252 G3 box; other site 272561000253 Switch II region; other site 272561000254 G4 box; other site 272561000255 G5 box; other site 272561000256 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 272561000257 Translation-initiation factor 2; Region: IF-2; pfam11987 272561000258 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 272561000259 transcription termination factor NusA; Region: NusA; TIGR01953 272561000260 NusA N-terminal domain; Region: NusA_N; pfam08529 272561000261 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 272561000262 RNA binding site [nucleotide binding]; other site 272561000263 homodimer interface [polypeptide binding]; other site 272561000264 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 272561000265 G-X-X-G motif; other site 272561000266 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 272561000267 ribosomal protein S1; Region: rpsA; TIGR00717 272561000268 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 272561000269 RNA binding site [nucleotide binding]; other site 272561000270 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 272561000271 RNA binding site [nucleotide binding]; other site 272561000272 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 272561000273 RNA binding site [nucleotide binding]; other site 272561000274 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 272561000275 RNA binding site [nucleotide binding]; other site 272561000276 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 272561000277 RNA binding site [nucleotide binding]; other site 272561000278 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 272561000279 RNA binding site [nucleotide binding]; other site 272561000280 domain interface; other site 272561000281 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 272561000282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561000283 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 272561000284 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 272561000285 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 272561000286 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272561000287 active site 272561000288 motif I; other site 272561000289 motif II; other site 272561000290 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 272561000291 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 272561000292 NAD binding site [chemical binding]; other site 272561000293 homotetramer interface [polypeptide binding]; other site 272561000294 homodimer interface [polypeptide binding]; other site 272561000295 substrate binding site [chemical binding]; other site 272561000296 active site 272561000297 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272561000298 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 272561000299 RNA binding surface [nucleotide binding]; other site 272561000300 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272561000301 active site 272561000302 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 272561000303 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272561000304 minor groove reading motif; other site 272561000305 helix-hairpin-helix signature motif; other site 272561000306 substrate binding pocket [chemical binding]; other site 272561000307 active site 272561000308 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 272561000309 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 272561000310 DNA binding and oxoG recognition site [nucleotide binding] 272561000311 Uncharacterized conserved protein [Function unknown]; Region: COG0327 272561000312 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 272561000313 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272561000314 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 272561000315 ring oligomerisation interface [polypeptide binding]; other site 272561000316 ATP/Mg binding site [chemical binding]; other site 272561000317 stacking interactions; other site 272561000318 hinge regions; other site 272561000319 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 272561000320 oligomerisation interface [polypeptide binding]; other site 272561000321 mobile loop; other site 272561000322 roof hairpin; other site 272561000323 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 272561000324 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 272561000325 active site 272561000326 Zn binding site [ion binding]; other site 272561000327 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 272561000328 Clp amino terminal domain; Region: Clp_N; pfam02861 272561000329 Clp amino terminal domain; Region: Clp_N; pfam02861 272561000330 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 272561000331 Walker A motif; other site 272561000332 ATP binding site [chemical binding]; other site 272561000333 Walker B motif; other site 272561000334 arginine finger; other site 272561000335 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 272561000336 Walker A motif; other site 272561000337 ATP binding site [chemical binding]; other site 272561000338 Walker B motif; other site 272561000339 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272561000340 Uncharacterized conserved protein [Function unknown]; Region: COG2912 272561000341 IncA protein; Region: IncA; pfam04156 272561000342 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 272561000343 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 272561000344 substrate binding site [chemical binding]; other site 272561000345 hexamer interface [polypeptide binding]; other site 272561000346 metal binding site [ion binding]; metal-binding site 272561000347 elongation factor P; Provisional; Region: PRK12426 272561000348 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 272561000349 RNA binding site [nucleotide binding]; other site 272561000350 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 272561000351 RNA binding site [nucleotide binding]; other site 272561000352 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 272561000353 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 272561000354 carboxyltransferase (CT) interaction site; other site 272561000355 biotinylation site [posttranslational modification]; other site 272561000356 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 272561000357 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 272561000358 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272561000359 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 272561000360 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 272561000361 23S rRNA interface [nucleotide binding]; other site 272561000362 L3 interface [polypeptide binding]; other site 272561000363 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 272561000364 NlpC/P60 family; Region: NLPC_P60; cl11438 272561000365 adenylate kinase; Reviewed; Region: adk; PRK00279 272561000366 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 272561000367 AMP-binding site [chemical binding]; other site 272561000368 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 272561000369 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 272561000370 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 272561000371 dimer interface [polypeptide binding]; other site 272561000372 conserved gate region; other site 272561000373 putative PBP binding loops; other site 272561000374 ABC-ATPase subunit interface; other site 272561000375 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 272561000376 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000377 Walker A/P-loop; other site 272561000378 ATP binding site [chemical binding]; other site 272561000379 Q-loop/lid; other site 272561000380 ABC transporter signature motif; other site 272561000381 Walker B; other site 272561000382 D-loop; other site 272561000383 H-loop/switch region; other site 272561000384 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 272561000385 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561000386 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 272561000387 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 272561000388 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 272561000389 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 272561000390 active site 272561000391 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 272561000392 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 272561000393 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 272561000394 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 272561000395 SEC-C motif; Region: SEC-C; pfam02810 272561000396 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272561000397 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272561000398 active site 272561000399 ATP binding site [chemical binding]; other site 272561000400 substrate binding site [chemical binding]; other site 272561000401 activation loop (A-loop); other site 272561000402 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 272561000403 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 272561000404 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 272561000405 nucleotide binding pocket [chemical binding]; other site 272561000406 K-X-D-G motif; other site 272561000407 catalytic site [active] 272561000408 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 272561000409 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 272561000410 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 272561000411 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 272561000412 Dimer interface [polypeptide binding]; other site 272561000413 BRCT sequence motif; other site 272561000414 hypothetical protein; Provisional; Region: PRK06184 272561000415 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 272561000416 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 272561000417 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 272561000418 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 272561000419 FtsX-like permease family; Region: FtsX; pfam02687 272561000420 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272561000421 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 272561000422 Walker A/P-loop; other site 272561000423 ATP binding site [chemical binding]; other site 272561000424 Q-loop/lid; other site 272561000425 ABC transporter signature motif; other site 272561000426 Walker B; other site 272561000427 D-loop; other site 272561000428 H-loop/switch region; other site 272561000429 MAC/Perforin domain; Region: MACPF; cl02616 272561000430 Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases; Region: MIR; smart00472 272561000431 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000432 putative active site [active] 272561000433 catalytic site [active] 272561000434 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 272561000435 putative active site [active] 272561000436 catalytic site [active] 272561000437 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000438 putative active site [active] 272561000439 catalytic site [active] 272561000440 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000441 putative active site [active] 272561000442 catalytic site [active] 272561000443 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000444 putative active site [active] 272561000445 catalytic site [active] 272561000446 nuclease NucT; Provisional; Region: PRK13912 272561000447 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 272561000448 putative active site [active] 272561000449 catalytic site [active] 272561000450 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000451 putative active site [active] 272561000452 catalytic site [active] 272561000453 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 272561000454 putative active site [active] 272561000455 catalytic site [active] 272561000456 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000457 TcdB toxin N-terminal helical domain; Region: TcdB_N; pfam12918 272561000458 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 272561000459 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 272561000460 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 272561000461 Trp repressor protein; Region: Trp_repressor; cl01121 272561000462 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 272561000463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272561000464 catalytic residue [active] 272561000465 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 272561000466 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 272561000467 substrate binding site [chemical binding]; other site 272561000468 active site 272561000469 catalytic residues [active] 272561000470 heterodimer interface [polypeptide binding]; other site 272561000471 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272561000472 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272561000473 peptide binding site [polypeptide binding]; other site 272561000474 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 272561000475 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272561000476 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 272561000477 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000478 Walker A/P-loop; other site 272561000479 ATP binding site [chemical binding]; other site 272561000480 Q-loop/lid; other site 272561000481 ABC transporter signature motif; other site 272561000482 Walker B; other site 272561000483 D-loop; other site 272561000484 H-loop/switch region; other site 272561000485 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 272561000486 Ligand binding site; other site 272561000487 oligomer interface; other site 272561000488 CTP synthetase; Validated; Region: pyrG; PRK05380 272561000489 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 272561000490 Catalytic site [active] 272561000491 active site 272561000492 UTP binding site [chemical binding]; other site 272561000493 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 272561000494 active site 272561000495 putative oxyanion hole; other site 272561000496 catalytic triad [active] 272561000497 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 272561000498 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 272561000499 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 272561000500 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 272561000501 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 272561000502 putative active site [active] 272561000503 DNA polymerase III subunit delta'; Validated; Region: PRK05917 272561000504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000505 thymidylate kinase; Validated; Region: tmk; PRK00698 272561000506 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 272561000507 TMP-binding site; other site 272561000508 ATP-binding site [chemical binding]; other site 272561000509 DNA gyrase, A subunit; Region: gyrA; TIGR01063 272561000510 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 272561000511 CAP-like domain; other site 272561000512 active site 272561000513 primary dimer interface [polypeptide binding]; other site 272561000514 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000517 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000518 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000519 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 272561000520 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 272561000521 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 272561000522 ATP binding site [chemical binding]; other site 272561000523 Mg2+ binding site [ion binding]; other site 272561000524 G-X-G motif; other site 272561000525 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 272561000526 anchoring element; other site 272561000527 dimer interface [polypeptide binding]; other site 272561000528 ATP binding site [chemical binding]; other site 272561000529 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 272561000530 active site 272561000531 putative metal-binding site [ion binding]; other site 272561000532 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272561000533 Protein of unknown function (DUF721); Region: DUF721; cl02324 272561000534 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 272561000535 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 272561000536 MgtE intracellular N domain; Region: MgtE_N; cl15244 272561000537 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 272561000538 Divalent cation transporter; Region: MgtE; cl00786 272561000539 UGMP family protein; Validated; Region: PRK09604 272561000540 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272561000541 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272561000542 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 272561000543 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 272561000544 peptide binding site [polypeptide binding]; other site 272561000545 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 272561000546 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 272561000547 dimer interface [polypeptide binding]; other site 272561000548 conserved gate region; other site 272561000549 putative PBP binding loops; other site 272561000550 ABC-ATPase subunit interface; other site 272561000551 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 272561000552 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 272561000553 dimer interface [polypeptide binding]; other site 272561000554 conserved gate region; other site 272561000555 putative PBP binding loops; other site 272561000556 ABC-ATPase subunit interface; other site 272561000557 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 272561000558 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 272561000559 Walker A/P-loop; other site 272561000560 ATP binding site [chemical binding]; other site 272561000561 Q-loop/lid; other site 272561000562 ABC transporter signature motif; other site 272561000563 Walker B; other site 272561000564 D-loop; other site 272561000565 H-loop/switch region; other site 272561000566 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272561000567 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272561000568 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 272561000569 Walker A/P-loop; other site 272561000570 ATP binding site [chemical binding]; other site 272561000571 Q-loop/lid; other site 272561000572 ABC transporter signature motif; other site 272561000573 Walker B; other site 272561000574 D-loop; other site 272561000575 H-loop/switch region; other site 272561000576 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272561000577 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 272561000578 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 272561000579 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 272561000580 transmembrane helices; other site 272561000581 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 272561000582 active site 272561000583 ADP/pyrophosphate binding site [chemical binding]; other site 272561000584 dimerization interface [polypeptide binding]; other site 272561000585 allosteric effector site; other site 272561000586 fructose-1,6-bisphosphate binding site; other site 272561000587 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 272561000588 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 272561000589 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 272561000590 active site 272561000591 ADP/pyrophosphate binding site [chemical binding]; other site 272561000592 dimerization interface [polypeptide binding]; other site 272561000593 allosteric effector site; other site 272561000594 fructose-1,6-bisphosphate binding site; other site 272561000595 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 272561000596 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 272561000597 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 272561000598 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 272561000599 HIGH motif; other site 272561000600 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 272561000601 active site 272561000602 KMSKS motif; other site 272561000603 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 272561000604 tRNA binding surface [nucleotide binding]; other site 272561000605 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 272561000606 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 272561000607 inhibitor-cofactor binding pocket; inhibition site 272561000608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272561000609 catalytic residue [active] 272561000610 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 272561000611 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 272561000612 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 272561000613 tetramer (dimer of dimers) interface [polypeptide binding]; other site 272561000614 active site 272561000615 dimer interface [polypeptide binding]; other site 272561000616 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 272561000617 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 272561000618 putative active site; other site 272561000619 catalytic residue [active] 272561000620 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 272561000621 Amino acid permease; Region: AA_permease; cl00524 272561000622 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 272561000623 Ligand Binding Site [chemical binding]; other site 272561000624 Survival protein SurE; Region: SurE; cl00448 272561000625 UbiA prenyltransferase family; Region: UbiA; cl00337 272561000626 aromatic acid decarboxylase; Validated; Region: PRK05920 272561000627 Flavoprotein; Region: Flavoprotein; cl08021 272561000628 Uncharacterized conserved protein [Function unknown]; Region: COG1284 272561000629 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 272561000630 IncA protein; Region: IncA; pfam04156 272561000631 IncA protein; Region: IncA; pfam04156 272561000632 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272561000633 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 272561000634 TLC ATP/ADP transporter; Region: TLC; cl03940 272561000635 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 272561000636 ligand binding site [chemical binding]; other site 272561000637 flexible hinge region; other site 272561000638 Phosphopantetheine attachment site; Region: PP-binding; cl09936 272561000639 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 272561000640 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 272561000641 NAD(P) binding site [chemical binding]; other site 272561000642 homotetramer interface [polypeptide binding]; other site 272561000643 homodimer interface [polypeptide binding]; other site 272561000644 active site 272561000645 Acyl transferase domain; Region: Acyl_transf_1; cl08282 272561000646 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 272561000647 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 272561000648 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 272561000649 dimer interface [polypeptide binding]; other site 272561000650 active site 272561000651 CoA binding pocket [chemical binding]; other site 272561000652 recombination protein RecR; Region: recR; TIGR00615 272561000653 RecR protein; Region: RecR; pfam02132 272561000654 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 272561000655 putative active site [active] 272561000656 putative metal-binding site [ion binding]; other site 272561000657 tetramer interface [polypeptide binding]; other site 272561000658 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 272561000659 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272561000660 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272561000661 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272561000662 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 272561000663 Surface antigen; Region: Bac_surface_Ag; cl03097 272561000664 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 272561000665 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 272561000666 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 272561000667 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 272561000668 trimer interface [polypeptide binding]; other site 272561000669 active site 272561000670 UDP-GlcNAc binding site [chemical binding]; other site 272561000671 lipid binding site [chemical binding]; lipid-binding site 272561000672 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 272561000673 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 272561000674 tetramer interface [polypeptide binding]; other site 272561000675 TPP-binding site [chemical binding]; other site 272561000676 heterodimer interface [polypeptide binding]; other site 272561000677 phosphorylation loop region [posttranslational modification] 272561000678 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272561000679 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 272561000680 alpha subunit interface [polypeptide binding]; other site 272561000681 TPP binding site [chemical binding]; other site 272561000682 heterodimer interface [polypeptide binding]; other site 272561000683 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272561000684 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 272561000685 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 272561000686 E3 interaction surface; other site 272561000687 lipoyl attachment site [posttranslational modification]; other site 272561000688 e3 binding domain; Region: E3_binding; pfam02817 272561000689 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272561000690 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 272561000691 homodimer interface [polypeptide binding]; other site 272561000692 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 272561000693 active site pocket [active] 272561000694 chromosomal replication initiation protein; Provisional; Region: PRK12422 272561000695 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 272561000696 Walker A motif; other site 272561000697 ATP binding site [chemical binding]; other site 272561000698 Walker B motif; other site 272561000699 arginine finger; other site 272561000700 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 272561000701 DnaA box-binding interface [nucleotide binding]; other site 272561000702 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 272561000703 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 272561000704 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 272561000705 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 272561000706 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 272561000707 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272561000708 Domain of unknown function DUF21; Region: DUF21; pfam01595 272561000709 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272561000710 Transporter associated domain; Region: CorC_HlyC; cl08393 272561000711 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 272561000712 Domain of unknown function DUF21; Region: DUF21; pfam01595 272561000713 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272561000714 Transporter associated domain; Region: CorC_HlyC; cl08393 272561000715 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 272561000716 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 272561000717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272561000718 catalytic residue [active] 272561000719 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 272561000720 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 272561000721 active site 272561000722 Family of unknown function (DUF1790); Region: DUF1790; cl02283 272561000723 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 272561000724 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272561000725 active site 272561000726 substrate binding site [chemical binding]; other site 272561000727 catalytic site [active] 272561000728 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 272561000729 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272561000730 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272561000731 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 272561000732 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 272561000733 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000734 Walker A/P-loop; other site 272561000735 ATP binding site [chemical binding]; other site 272561000736 Q-loop/lid; other site 272561000737 ABC transporter signature motif; other site 272561000738 Walker B; other site 272561000739 D-loop; other site 272561000740 H-loop/switch region; other site 272561000741 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 272561000742 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272561000743 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 272561000744 IHF - DNA interface [nucleotide binding]; other site 272561000745 IHF dimer interface [polypeptide binding]; other site 272561000746 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 272561000747 active site 272561000748 metal binding site [ion binding]; metal-binding site 272561000749 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 272561000750 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272561000751 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272561000752 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272561000753 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 272561000754 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272561000755 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272561000756 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 272561000757 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561000758 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 272561000759 TPR motif; other site 272561000760 binding surface 272561000761 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 272561000762 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 272561000763 Walker A motif; other site 272561000764 ATP binding site [chemical binding]; other site 272561000765 Walker B motif; other site 272561000766 arginine finger; other site 272561000767 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 272561000768 DnaA box-binding interface [nucleotide binding]; other site 272561000769 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 272561000770 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 272561000771 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 272561000772 FMN-binding domain; Region: FMN_bind; cl01081 272561000773 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 272561000774 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 272561000775 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 272561000776 lipoyl attachment site [posttranslational modification]; other site 272561000777 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 272561000778 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 272561000779 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000780 putative active site [active] 272561000781 catalytic site [active] 272561000782 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 272561000783 putative active site [active] 272561000784 catalytic site [active] 272561000785 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272561000786 Clp protease ATP binding subunit; Region: clpC; CHL00095 272561000787 Clp amino terminal domain; Region: Clp_N; pfam02861 272561000788 Clp amino terminal domain; Region: Clp_N; pfam02861 272561000789 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 272561000790 Walker A motif; other site 272561000791 ATP binding site [chemical binding]; other site 272561000792 Walker B motif; other site 272561000793 arginine finger; other site 272561000794 UvrB/uvrC motif; Region: UVR; pfam02151 272561000795 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 272561000796 Walker A motif; other site 272561000797 ATP binding site [chemical binding]; other site 272561000798 Walker B motif; other site 272561000799 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272561000800 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 272561000801 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 272561000802 Ligand Binding Site [chemical binding]; other site 272561000803 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272561000804 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272561000805 active site 272561000806 phosphorylation site [posttranslational modification] 272561000807 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 272561000808 active site 272561000809 phosphorylation site [posttranslational modification] 272561000810 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 272561000811 trimer interface [polypeptide binding]; other site 272561000812 active site 272561000813 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 272561000814 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 272561000815 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 272561000816 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 272561000817 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 272561000818 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 272561000819 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 272561000820 active site 272561000821 substrate binding site [chemical binding]; other site 272561000822 metal binding site [ion binding]; metal-binding site 272561000823 ribonuclease III; Reviewed; Region: rnc; PRK00102 272561000824 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 272561000825 dimerization interface [polypeptide binding]; other site 272561000826 active site 272561000827 metal binding site [ion binding]; metal-binding site 272561000828 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 272561000829 dsRNA binding site [nucleotide binding]; other site 272561000830 DNA repair protein RadA; Provisional; Region: PRK11823 272561000831 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 272561000832 Walker A motif/ATP binding site; other site 272561000833 ATP binding site [chemical binding]; other site 272561000834 Walker B motif; other site 272561000835 porphobilinogen deaminase; Provisional; Region: PRK01066 272561000836 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; cl03189 272561000837 domain interfaces; other site 272561000838 active site 272561000839 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 272561000840 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272561000841 active site 272561000842 ATP binding site [chemical binding]; other site 272561000843 substrate binding site [chemical binding]; other site 272561000844 activation loop (A-loop); other site 272561000845 V-type ATP synthase subunit K; Provisional; Region: PRK09621 272561000846 ATP synthase subunit C; Region: ATP-synt_C; cl00466 272561000847 V-type ATP synthase subunit I; Validated; Region: PRK05771 272561000848 Protein of unknown function (DUF1319); Region: DUF1319; pfam07028 272561000849 ATP synthase subunit D; Region: ATP-synt_D; cl00613 272561000850 V-type ATP synthase subunit B; Provisional; Region: PRK02118 272561000851 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272561000852 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 272561000853 Walker A motif homologous position; other site 272561000854 Walker B motif; other site 272561000855 V-type ATP synthase subunit A; Provisional; Region: PRK04192 272561000856 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272561000857 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 272561000858 Walker A motif/ATP binding site; other site 272561000859 Walker B motif; other site 272561000860 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 272561000861 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 272561000862 Plant ATP synthase F0; Region: YMF19; cl07975 272561000863 transaldolase-like protein; Provisional; Region: PTZ00411 272561000864 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 272561000865 active site 272561000866 dimer interface [polypeptide binding]; other site 272561000867 catalytic residue [active] 272561000868 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 272561000869 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 272561000870 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 272561000871 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 272561000872 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 272561000873 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 272561000874 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 272561000875 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 272561000876 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 272561000877 DNA binding site [nucleotide binding] 272561000878 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 272561000879 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 272561000880 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 272561000881 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 272561000882 RPB12 interaction site [polypeptide binding]; other site 272561000883 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 272561000884 RPB11 interaction site [polypeptide binding]; other site 272561000885 RPB12 interaction site [polypeptide binding]; other site 272561000886 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 272561000887 RPB3 interaction site [polypeptide binding]; other site 272561000888 RPB1 interaction site [polypeptide binding]; other site 272561000889 RPB11 interaction site [polypeptide binding]; other site 272561000890 RPB10 interaction site [polypeptide binding]; other site 272561000891 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 272561000892 L11 interface [polypeptide binding]; other site 272561000893 putative EF-Tu interaction site [polypeptide binding]; other site 272561000894 putative EF-G interaction site [polypeptide binding]; other site 272561000895 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 272561000896 23S rRNA interface [nucleotide binding]; other site 272561000897 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 272561000898 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 272561000899 mRNA/rRNA interface [nucleotide binding]; other site 272561000900 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 272561000901 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 272561000902 putative thiostrepton binding site; other site 272561000903 23S rRNA interface [nucleotide binding]; other site 272561000904 L7/L12 interface [polypeptide binding]; other site 272561000905 L25 interface [polypeptide binding]; other site 272561000906 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 272561000907 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 272561000908 putative homodimer interface [polypeptide binding]; other site 272561000909 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 272561000910 elongation factor Tu; Reviewed; Region: PRK12735 272561000911 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 272561000912 G1 box; other site 272561000913 GEF interaction site [polypeptide binding]; other site 272561000914 GTP/Mg2+ binding site [chemical binding]; other site 272561000915 Switch I region; other site 272561000916 G2 box; other site 272561000917 G3 box; other site 272561000918 Switch II region; other site 272561000919 G4 box; other site 272561000920 G5 box; other site 272561000921 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 272561000922 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 272561000923 Antibiotic Binding Site [chemical binding]; other site 272561000924 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 272561000925 rRNA binding site [nucleotide binding]; other site 272561000926 predicted 30S ribosome binding site; other site 272561000927 Fe-S metabolism associated domain; Region: SufE; cl00951 272561000928 Protein of unknown function (DUF687); Region: DUF687; pfam05095 272561000929 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 272561000930 active site 272561000931 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 272561000932 substrate binding site [chemical binding]; other site 272561000933 dimer interface [polypeptide binding]; other site 272561000934 catalytic triad [active] 272561000935 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 272561000936 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 272561000937 generic binding surface II; other site 272561000938 generic binding surface I; other site 272561000939 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 272561000940 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 272561000941 TPP-binding site; other site 272561000942 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 272561000943 PYR/PP interface [polypeptide binding]; other site 272561000944 dimer interface [polypeptide binding]; other site 272561000945 TPP binding site [chemical binding]; other site 272561000946 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272561000947 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 272561000948 pyruvate kinase; Region: pyruv_kin; TIGR01064 272561000949 domain interfaces; other site 272561000950 active site 272561000951 excinuclease ABC subunit A; Provisional; Region: PRK00635 272561000952 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 272561000953 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 272561000954 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 272561000955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000956 Walker A/P-loop; other site 272561000957 ATP binding site [chemical binding]; other site 272561000958 Q-loop/lid; other site 272561000959 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000960 ABC transporter signature motif; other site 272561000961 Walker B; other site 272561000962 D-loop; other site 272561000963 H-loop/switch region; other site 272561000964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000965 Walker A/P-loop; other site 272561000966 ATP binding site [chemical binding]; other site 272561000967 Q-loop/lid; other site 272561000968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561000969 Q-loop/lid; other site 272561000970 ABC transporter signature motif; other site 272561000971 Walker B; other site 272561000972 D-loop; other site 272561000973 H-loop/switch region; other site 272561000974 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 272561000975 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 272561000976 Walker A motif; other site 272561000977 ATP binding site [chemical binding]; other site 272561000978 Walker B motif; other site 272561000979 arginine finger; other site 272561000980 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 272561000981 phosphoenolpyruvate-protein phosphotransferase; Region: PTS_I_fam; TIGR01417 272561000982 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 272561000983 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 272561000984 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 272561000985 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 272561000986 dimerization domain swap beta strand [polypeptide binding]; other site 272561000987 regulatory protein interface [polypeptide binding]; other site 272561000988 active site 272561000989 regulatory phosphorylation site [posttranslational modification]; other site 272561000990 Competence protein; Region: Competence; cl00471 272561000991 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 272561000992 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 272561000993 tetramer interface [polypeptide binding]; other site 272561000994 TPP-binding site [chemical binding]; other site 272561000995 heterodimer interface [polypeptide binding]; other site 272561000996 phosphorylation loop region [posttranslational modification] 272561000997 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 272561000998 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 272561000999 alpha subunit interface [polypeptide binding]; other site 272561001000 TPP binding site [chemical binding]; other site 272561001001 heterodimer interface [polypeptide binding]; other site 272561001002 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272561001003 chaperone protein DnaJ; Provisional; Region: PRK14284 272561001004 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 272561001005 HSP70 interaction site [polypeptide binding]; other site 272561001006 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 272561001007 Zn binding sites [ion binding]; other site 272561001008 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 272561001009 dimer interface [polypeptide binding]; other site 272561001010 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 272561001011 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 272561001012 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 272561001013 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 272561001014 Walker A motif; other site 272561001015 ATP binding site [chemical binding]; other site 272561001016 Walker B motif; other site 272561001017 arginine finger; other site 272561001018 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 272561001019 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272561001020 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 272561001021 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 272561001022 Int/Topo IB signature motif; other site 272561001023 active site 272561001024 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 272561001025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561001026 Walker A/P-loop; other site 272561001027 ATP binding site [chemical binding]; other site 272561001028 Q-loop/lid; other site 272561001029 ABC transporter signature motif; other site 272561001030 Walker B; other site 272561001031 D-loop; other site 272561001032 H-loop/switch region; other site 272561001033 ABC transporter; Region: ABC_tran_2; pfam12848 272561001034 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 272561001035 Maf-like protein; Region: Maf; pfam02545 272561001036 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 272561001037 active site 272561001038 dimer interface [polypeptide binding]; other site 272561001039 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 272561001040 Preprotein translocase SecG subunit; Region: SecG; cl09123 272561001041 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 272561001042 active site 272561001043 catalytic residues [active] 272561001044 metal binding site [ion binding]; metal-binding site 272561001045 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561001046 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 272561001047 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 272561001048 catalytic residues [active] 272561001049 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 272561001050 dihydrodipicolinate synthase; Region: dapA; TIGR00674 272561001051 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 272561001052 inhibitor site; inhibition site 272561001053 active site 272561001054 dimer interface [polypeptide binding]; other site 272561001055 catalytic residue [active] 272561001056 aspartate kinase; Provisional; Region: PRK05925 272561001057 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 272561001058 putative catalytic residues [active] 272561001059 nucleotide binding site [chemical binding]; other site 272561001060 aspartate binding site [chemical binding]; other site 272561001061 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 272561001062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001063 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 272561001064 dihydrodipicolinate reductase; Provisional; Region: PRK00048 272561001065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001066 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 272561001067 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 272561001068 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272561001069 hinge; other site 272561001070 active site 272561001071 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 272561001072 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 272561001073 ADP binding site [chemical binding]; other site 272561001074 magnesium binding site [ion binding]; other site 272561001075 putative shikimate binding site; other site 272561001076 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 272561001077 Tetramer interface [polypeptide binding]; other site 272561001078 active site 272561001079 FMN-binding site [chemical binding]; other site 272561001080 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 272561001081 active site 272561001082 dimer interface [polypeptide binding]; other site 272561001083 metal binding site [ion binding]; metal-binding site 272561001084 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 272561001085 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 272561001086 active site 272561001087 catalytic residue [active] 272561001088 dimer interface [polypeptide binding]; other site 272561001089 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 272561001090 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 272561001091 shikimate binding site; other site 272561001092 NAD(P) binding site [chemical binding]; other site 272561001093 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272561001094 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 272561001095 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 272561001096 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 272561001097 Amino acid permease; Region: AA_permease; cl00524 272561001098 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 272561001099 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 272561001100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001101 malate dehydrogenase; Provisional; Region: PRK05442 272561001102 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 272561001103 NAD(P) binding site [chemical binding]; other site 272561001104 dimer interface [polypeptide binding]; other site 272561001105 malate binding site [chemical binding]; other site 272561001106 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 272561001107 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 272561001108 active site 272561001109 dimer interface [polypeptide binding]; other site 272561001110 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 272561001111 dimer interface [polypeptide binding]; other site 272561001112 active site 272561001113 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 272561001114 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 272561001115 G1 box; other site 272561001116 GTP/Mg2+ binding site [chemical binding]; other site 272561001117 Switch I region; other site 272561001118 G2 box; other site 272561001119 G3 box; other site 272561001120 Switch II region; other site 272561001121 G4 box; other site 272561001122 G5 box; other site 272561001123 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272561001124 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 272561001125 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 272561001126 substrate binding pocket [chemical binding]; other site 272561001127 membrane-bound complex binding site; other site 272561001128 hinge residues; other site 272561001129 NeuB family; Region: NeuB; cl00496 272561001130 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 272561001131 nucleotide binding site/active site [active] 272561001132 Uncharacterised protein family (UPF0160); Region: UPF0160; cl01749 272561001133 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 272561001134 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 272561001135 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 272561001136 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 272561001137 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 272561001138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272561001139 homodimer interface [polypeptide binding]; other site 272561001140 catalytic residue [active] 272561001141 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 272561001142 prolyl-tRNA synthetase; Provisional; Region: PRK09194 272561001143 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 272561001144 dimer interface [polypeptide binding]; other site 272561001145 motif 1; other site 272561001146 active site 272561001147 motif 2; other site 272561001148 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 272561001149 putative deacylase active site [active] 272561001150 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 272561001151 active site 272561001152 motif 3; other site 272561001153 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 272561001154 anticodon binding site; other site 272561001155 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 272561001156 HrcA protein C terminal domain; Region: HrcA; pfam01628 272561001157 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 272561001158 dimer interface [polypeptide binding]; other site 272561001159 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 272561001160 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 272561001161 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 272561001162 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 272561001163 Exoribonuclease R [Transcription]; Region: VacB; COG0557 272561001164 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 272561001165 RNB domain; Region: RNB; pfam00773 272561001166 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 272561001167 Putative zinc ribbon domain; Region: DUF164; pfam02591 272561001168 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 272561001169 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 272561001170 putative active site [active] 272561001171 FOG: CBS domain [General function prediction only]; Region: COG0517 272561001172 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 272561001173 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 272561001174 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 272561001175 E3 interaction surface; other site 272561001176 lipoyl attachment site [posttranslational modification]; other site 272561001177 e3 binding domain; Region: E3_binding; pfam02817 272561001178 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 272561001179 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 272561001180 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 272561001181 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 272561001182 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 272561001183 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 272561001184 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272561001185 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 272561001186 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 272561001187 S-adenosylmethionine binding site [chemical binding]; other site 272561001188 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 272561001189 Lumazine binding domain; Region: Lum_binding; pfam00677 272561001190 Lumazine binding domain; Region: Lum_binding; pfam00677 272561001191 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 272561001192 ATP cone domain; Region: ATP-cone; pfam03477 272561001193 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 272561001194 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 272561001195 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272561001196 poly(A) polymerase; Region: pcnB; TIGR01942 272561001197 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272561001198 active site 272561001199 NTP binding site [chemical binding]; other site 272561001200 metal binding triad [ion binding]; metal-binding site 272561001201 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272561001202 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 272561001203 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 272561001204 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 272561001205 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 272561001206 adhesin; Provisional; Region: PRK09752 272561001207 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561001208 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561001209 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561001210 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561001211 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561001212 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561001213 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561001214 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561001215 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561001216 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561001217 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 272561001218 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 272561001219 intersubunit interface [polypeptide binding]; other site 272561001220 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 272561001221 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 272561001222 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 272561001223 ABC-ATPase subunit interface; other site 272561001224 dimer interface [polypeptide binding]; other site 272561001225 putative PBP binding regions; other site 272561001226 GTPase CgtA; Reviewed; Region: obgE; PRK12299 272561001227 GTP1/OBG; Region: GTP1_OBG; pfam01018 272561001228 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 272561001229 G1 box; other site 272561001230 GTP/Mg2+ binding site [chemical binding]; other site 272561001231 Switch I region; other site 272561001232 G2 box; other site 272561001233 G3 box; other site 272561001234 Switch II region; other site 272561001235 G4 box; other site 272561001236 G5 box; other site 272561001237 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 272561001238 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 272561001239 Protein of unknown function (DUF502); Region: DUF502; cl01107 272561001240 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 272561001241 FOG: CBS domain [General function prediction only]; Region: COG0517 272561001242 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 272561001243 Transporter associated domain; Region: CorC_HlyC; cl08393 272561001244 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 272561001245 anti sigma factor interaction site; other site 272561001246 regulatory phosphorylation site [posttranslational modification]; other site 272561001247 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 272561001248 hypothetical protein; Provisional; Region: PRK05926 272561001249 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 272561001250 FeS/SAM binding site; other site 272561001251 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 272561001252 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 272561001253 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 272561001254 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 272561001255 S-adenosylmethionine binding site [chemical binding]; other site 272561001256 Uncharacterised protein family (UPF0158); Region: UPF0158; pfam03682 272561001257 diaminopimelate epimerase; Region: DapF; TIGR00652 272561001258 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272561001259 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 272561001260 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272561001261 oligomer interface [polypeptide binding]; other site 272561001262 active site residues [active] 272561001263 serine hydroxymethyltransferase; Provisional; Region: PRK13580 272561001264 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 272561001265 dimer interface [polypeptide binding]; other site 272561001266 glycine-pyridoxal phosphate binding site [chemical binding]; other site 272561001267 active site 272561001268 folate binding site [chemical binding]; other site 272561001269 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 272561001270 active site 272561001271 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 272561001272 homotrimer interaction site [polypeptide binding]; other site 272561001273 zinc binding site [ion binding]; other site 272561001274 CDP-binding sites; other site 272561001275 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 272561001276 FAD binding pocket [chemical binding]; other site 272561001277 conserved FAD binding motif [chemical binding]; other site 272561001278 phosphate binding motif [ion binding]; other site 272561001279 beta-alpha-beta structure motif; other site 272561001280 NAD binding pocket [chemical binding]; other site 272561001281 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 272561001282 elongation factor G; Reviewed; Region: PRK12739 272561001283 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 272561001284 G1 box; other site 272561001285 putative GEF interaction site [polypeptide binding]; other site 272561001286 GTP/Mg2+ binding site [chemical binding]; other site 272561001287 Switch I region; other site 272561001288 G2 box; other site 272561001289 G3 box; other site 272561001290 Switch II region; other site 272561001291 G4 box; other site 272561001292 G5 box; other site 272561001293 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 272561001294 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 272561001295 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 272561001296 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 272561001297 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 272561001298 S17 interaction site [polypeptide binding]; other site 272561001299 S8 interaction site; other site 272561001300 16S rRNA interaction site [nucleotide binding]; other site 272561001301 streptomycin interaction site [chemical binding]; other site 272561001302 23S rRNA interaction site [nucleotide binding]; other site 272561001303 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 272561001304 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 272561001305 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 272561001306 protein binding site [polypeptide binding]; other site 272561001307 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 272561001308 Catalytic dyad [active] 272561001309 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 272561001310 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 272561001311 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 272561001312 Domain of unknown function DUF11; Region: DUF11; cl15273 272561001313 Domain of unknown function DUF11; Region: DUF11; cl15273 272561001314 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 272561001315 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 272561001316 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272561001317 HIGH motif; other site 272561001318 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 272561001319 active site 272561001320 KMSKS motif; other site 272561001321 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272561001322 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 272561001323 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 272561001324 DHH family; Region: DHH; pfam01368 272561001325 DHHA1 domain; Region: DHHA1; pfam02272 272561001326 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 272561001327 Protein export membrane protein; Region: SecD_SecF; cl14618 272561001328 Protein export membrane protein; Region: SecD_SecF; cl14618 272561001329 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 272561001330 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 272561001331 catalytic residue [active] 272561001332 putative FPP diphosphate binding site; other site 272561001333 putative FPP binding hydrophobic cleft; other site 272561001334 dimer interface [polypeptide binding]; other site 272561001335 putative IPP diphosphate binding site; other site 272561001336 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 272561001337 cytidylate kinase; Provisional; Region: cmk; PRK00023 272561001338 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 272561001339 CMP-binding site; other site 272561001340 The sites determining sugar specificity; other site 272561001341 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272561001342 putative acyl-acceptor binding pocket; other site 272561001343 arginine-tRNA ligase; Region: PLN02286 272561001344 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 272561001345 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 272561001346 active site 272561001347 HIGH motif; other site 272561001348 KMSK motif region; other site 272561001349 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272561001350 tRNA binding surface [nucleotide binding]; other site 272561001351 anticodon binding site; other site 272561001352 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 272561001353 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 272561001354 hinge; other site 272561001355 active site 272561001356 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 272561001357 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 272561001358 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 272561001359 Domain of unknown function DUF28; Region: DUF28; cl00361 272561001360 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 272561001361 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272561001362 peptide chain release factor 2; Validated; Region: prfB; PRK00578 272561001363 RF-1 domain; Region: RF-1; cl02875 272561001364 RF-1 domain; Region: RF-1; cl02875 272561001365 SWIB/MDM2 domain; Region: SWIB; cl02489 272561001366 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 272561001367 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272561001368 putative active site [active] 272561001369 putative metal binding site [ion binding]; other site 272561001370 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 272561001371 substrate binding site; other site 272561001372 dimer interface; other site 272561001373 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 272561001374 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 272561001375 dimerization interface 3.5A [polypeptide binding]; other site 272561001376 active site 272561001377 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 272561001378 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272561001379 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 272561001380 active site 272561001381 motif I; other site 272561001382 motif II; other site 272561001383 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 272561001384 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 272561001385 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 272561001386 dimer interface [polypeptide binding]; other site 272561001387 phosphorylation site [posttranslational modification] 272561001388 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 272561001389 ATP binding site [chemical binding]; other site 272561001390 Mg2+ binding site [ion binding]; other site 272561001391 G-X-G motif; other site 272561001392 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 272561001393 active site 272561001394 phosphorylation site [posttranslational modification] 272561001395 intermolecular recognition site; other site 272561001396 dimerization interface [polypeptide binding]; other site 272561001397 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 272561001398 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 272561001399 Walker A motif; other site 272561001400 ATP binding site [chemical binding]; other site 272561001401 Walker B motif; other site 272561001402 arginine finger; other site 272561001403 Recombination protein O N terminal; Region: RecO_N; pfam11967 272561001404 Recombination protein O C terminal; Region: RecO_C; pfam02565 272561001405 Uncharacterised ACR, YagE family COG1723; Region: DUF155; cl00751 272561001406 Domain of unknown function DUF37; Region: DUF37; cl00506 272561001407 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 272561001408 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 272561001409 putative tRNA-binding site [nucleotide binding]; other site 272561001410 B3/4 domain; Region: B3_4; cl11458 272561001411 tRNA synthetase B5 domain; Region: B5; cl08394 272561001412 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 272561001413 dimer interface [polypeptide binding]; other site 272561001414 motif 1; other site 272561001415 motif 3; other site 272561001416 motif 2; other site 272561001417 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 272561001418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 272561001419 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 272561001420 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 272561001421 DNA binding site [nucleotide binding] 272561001422 active site 272561001423 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 272561001424 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 272561001425 dimer interface [polypeptide binding]; other site 272561001426 conserved gate region; other site 272561001427 putative PBP binding loops; other site 272561001428 ABC-ATPase subunit interface; other site 272561001429 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 272561001430 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 272561001431 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 272561001432 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 272561001433 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 272561001434 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 272561001435 TPR motif; other site 272561001436 binding surface 272561001437 ferrochelatase; Reviewed; Region: hemH; PRK00035 272561001438 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 272561001439 C-terminal domain interface [polypeptide binding]; other site 272561001440 active site 272561001441 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 272561001442 active site 272561001443 N-terminal domain interface [polypeptide binding]; other site 272561001444 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 272561001445 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 272561001446 substrate binding pocket [chemical binding]; other site 272561001447 membrane-bound complex binding site; other site 272561001448 hinge residues; other site 272561001449 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 272561001450 S-adenosylmethionine binding site [chemical binding]; other site 272561001451 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272561001452 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272561001453 active site 272561001454 metal binding site [ion binding]; metal-binding site 272561001455 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 272561001456 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 272561001457 ligand binding site; other site 272561001458 oligomer interface; other site 272561001459 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 272561001460 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 272561001461 N-terminal domain interface [polypeptide binding]; other site 272561001462 sulfate 1 binding site; other site 272561001463 transcription termination factor Rho; Region: rho; TIGR00767 272561001464 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 272561001465 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 272561001466 RNA binding site [nucleotide binding]; other site 272561001467 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 272561001468 multimer interface [polypeptide binding]; other site 272561001469 Walker A motif; other site 272561001470 ATP binding site [chemical binding]; other site 272561001471 Walker B motif; other site 272561001472 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 272561001473 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 272561001474 CoA-binding site [chemical binding]; other site 272561001475 ATP-binding [chemical binding]; other site 272561001476 DNA polymerase I; Provisional; Region: PRK05755 272561001477 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 272561001478 active site 272561001479 metal binding site 1 [ion binding]; metal-binding site 272561001480 putative 5' ssDNA interaction site; other site 272561001481 metal binding site 3; metal-binding site 272561001482 metal binding site 2 [ion binding]; metal-binding site 272561001483 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 272561001484 putative DNA binding site [nucleotide binding]; other site 272561001485 putative metal binding site [ion binding]; other site 272561001486 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the...; Region: 35EXOc; cd00007 272561001487 active site 272561001488 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 272561001489 active site 272561001490 DNA binding site [nucleotide binding] 272561001491 catalytic site [active] 272561001492 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 272561001493 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 272561001494 tandem repeat interface [polypeptide binding]; other site 272561001495 oligomer interface [polypeptide binding]; other site 272561001496 active site residues [active] 272561001497 TLC ATP/ADP transporter; Region: TLC; cl03940 272561001498 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272561001499 replicative DNA helicase; Provisional; Region: PRK06321 272561001500 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 272561001501 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 272561001502 Walker A motif; other site 272561001503 ATP binding site [chemical binding]; other site 272561001504 Walker B motif; other site 272561001505 DNA binding loops [nucleotide binding] 272561001506 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 272561001507 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 272561001508 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 272561001509 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272561001510 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 272561001511 active site 272561001512 multimer interface [polypeptide binding]; other site 272561001513 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 272561001514 RuvA N terminal domain; Region: RuvA_N; pfam01330 272561001515 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 272561001516 active site 272561001517 putative DNA-binding cleft [nucleotide binding]; other site 272561001518 dimer interface [polypeptide binding]; other site 272561001519 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 272561001520 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 272561001521 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 272561001522 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 272561001523 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 272561001524 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 272561001525 alphaNTD - beta interaction site [polypeptide binding]; other site 272561001526 alphaNTD homodimer interface [polypeptide binding]; other site 272561001527 alphaNTD - beta' interaction site [polypeptide binding]; other site 272561001528 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 272561001529 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 272561001530 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 272561001531 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 272561001532 SecY translocase; Region: SecY; pfam00344 272561001533 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 272561001534 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 272561001535 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 272561001536 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 272561001537 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 272561001538 5S rRNA interface [nucleotide binding]; other site 272561001539 23S rRNA interface [nucleotide binding]; other site 272561001540 L5 interface [polypeptide binding]; other site 272561001541 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 272561001542 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272561001543 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 272561001544 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 272561001545 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 272561001546 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 272561001547 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 272561001548 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 272561001549 KOW motif; Region: KOW; cl00354 272561001550 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 272561001551 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 272561001552 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 272561001553 23S rRNA interface [nucleotide binding]; other site 272561001554 putative translocon interaction site; other site 272561001555 signal recognition particle (SRP54) interaction site; other site 272561001556 L23 interface [polypeptide binding]; other site 272561001557 trigger factor interaction site; other site 272561001558 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 272561001559 23S rRNA interface [nucleotide binding]; other site 272561001560 5S rRNA interface [nucleotide binding]; other site 272561001561 putative antibiotic binding site [chemical binding]; other site 272561001562 L25 interface [polypeptide binding]; other site 272561001563 L27 interface [polypeptide binding]; other site 272561001564 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 272561001565 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 272561001566 G-X-X-G motif; other site 272561001567 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 272561001568 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 272561001569 putative translocon binding site; other site 272561001570 protein-rRNA interface [nucleotide binding]; other site 272561001571 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 272561001572 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 272561001573 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 272561001574 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 272561001575 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 272561001576 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 272561001577 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 272561001578 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 272561001579 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 272561001580 putative active site [active] 272561001581 substrate binding site [chemical binding]; other site 272561001582 putative cosubstrate binding site; other site 272561001583 catalytic site [active] 272561001584 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 272561001585 substrate binding site [chemical binding]; other site 272561001586 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 272561001587 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 272561001588 active site 272561001589 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 272561001590 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 272561001591 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 272561001592 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 272561001593 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 272561001594 putative active site [active] 272561001595 catalytic triad [active] 272561001596 putative dimer interface [polypeptide binding]; other site 272561001597 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 272561001598 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 272561001599 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 272561001600 active site 272561001601 substrate binding site [chemical binding]; other site 272561001602 catalytic site [active] 272561001603 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 272561001604 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 272561001605 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 272561001606 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 272561001607 catalytic residues [active] 272561001608 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 272561001609 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 272561001610 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 272561001611 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 272561001612 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 272561001613 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 272561001614 dimer interface [polypeptide binding]; other site 272561001615 anticodon binding site; other site 272561001616 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 272561001617 homodimer interface [polypeptide binding]; other site 272561001618 motif 1; other site 272561001619 active site 272561001620 motif 2; other site 272561001621 GAD domain; Region: GAD; pfam02938 272561001622 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 272561001623 active site 272561001624 motif 3; other site 272561001625 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 272561001626 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 272561001627 dimer interface [polypeptide binding]; other site 272561001628 motif 1; other site 272561001629 active site 272561001630 motif 2; other site 272561001631 motif 3; other site 272561001632 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 272561001633 anticodon binding site; other site 272561001634 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 272561001635 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 272561001636 putative substrate translocation pore; other site 272561001637 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 272561001638 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 272561001639 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 272561001640 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 272561001641 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 272561001642 generic binding surface I; other site 272561001643 generic binding surface II; other site 272561001644 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 272561001645 binding surface 272561001646 TPR motif; other site 272561001647 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 272561001648 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 272561001649 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 272561001650 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 272561001651 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561001652 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 272561001653 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272561001654 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 272561001655 ATP binding site [chemical binding]; other site 272561001656 putative Mg++ binding site [ion binding]; other site 272561001657 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 272561001658 nucleotide binding region [chemical binding]; other site 272561001659 ATP-binding site [chemical binding]; other site 272561001660 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 272561001661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001663 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 272561001664 lipoate synthase; Region: lipA; TIGR00510 272561001665 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 272561001666 FeS/SAM binding site; other site 272561001667 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272561001668 type III secretion system protein; Validated; Region: PRK06328 272561001669 Flagellar assembly protein FliH; Region: FliH; pfam02108 272561001670 FliP family; Region: FliP; cl00593 272561001671 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 272561001672 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 272561001673 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 272561001674 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 272561001675 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 272561001676 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272561001677 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 272561001678 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 272561001679 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 272561001680 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 272561001681 Walker A motif; other site 272561001682 ATP binding site [chemical binding]; other site 272561001683 Walker B motif; other site 272561001684 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 272561001685 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272561001686 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272561001687 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 272561001688 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 272561001689 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 272561001690 active site 272561001691 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 272561001692 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 272561001693 ATP binding site [chemical binding]; other site 272561001694 Mg2+ binding site [ion binding]; other site 272561001695 G-X-G motif; other site 272561001696 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 272561001697 ATP binding site [chemical binding]; other site 272561001698 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 272561001699 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 272561001700 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 272561001701 binding surface 272561001702 TPR motif; other site 272561001703 EamA-like transporter family; Region: EamA; cl01037 272561001704 EamA-like transporter family; Region: EamA; cl01037 272561001705 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 272561001706 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cd01616 272561001707 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272561001708 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 272561001709 active site 272561001710 dimer interface [polypeptide binding]; other site 272561001711 motif 1; other site 272561001712 motif 2; other site 272561001713 motif 3; other site 272561001714 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 272561001715 anticodon binding site; other site 272561001716 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 272561001717 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561001718 Uncharacterised protein family (UPF0137); Region: UPF0137; pfam03677 272561001719 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 272561001720 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 272561001721 active site 272561001722 HIGH motif; other site 272561001723 dimer interface [polypeptide binding]; other site 272561001724 KMSKS motif; other site 272561001725 excinuclease ABC subunit B; Provisional; Region: PRK05298 272561001726 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 272561001727 ATP binding site [chemical binding]; other site 272561001728 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 272561001729 nucleotide binding region [chemical binding]; other site 272561001730 ATP-binding site [chemical binding]; other site 272561001731 Ultra-violet resistance protein B; Region: UvrB; pfam12344 272561001732 enolase; Provisional; Region: eno; PRK00077 272561001733 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 272561001734 dimer interface [polypeptide binding]; other site 272561001735 metal binding site [ion binding]; metal-binding site 272561001736 substrate binding pocket [chemical binding]; other site 272561001737 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 272561001738 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 272561001739 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 272561001740 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 272561001741 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 272561001742 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 272561001743 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 272561001744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001745 domain; Region: Succ_DH_flav_C; pfam02910 272561001746 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 272561001747 Iron-sulfur protein interface; other site 272561001748 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 272561001749 proximal heme binding site [chemical binding]; other site 272561001750 Iron-sulfur protein interface; other site 272561001751 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 272561001752 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 272561001753 active site 272561001754 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 272561001755 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 272561001756 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 272561001757 DsbD alpha interface [polypeptide binding]; other site 272561001758 catalytic residues [active] 272561001759 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 272561001760 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 272561001761 translocation protein TolB; Provisional; Region: tolB; PRK01029 272561001762 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272561001763 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272561001764 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 272561001765 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 272561001766 ligand binding site [chemical binding]; other site 272561001767 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272561001768 putative peptidoglycan binding site; other site 272561001769 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 272561001770 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 272561001771 dimer interface [polypeptide binding]; other site 272561001772 decamer (pentamer of dimers) interface [polypeptide binding]; other site 272561001773 catalytic triad [active] 272561001774 peroxidatic and resolving cysteines [active] 272561001775 chaperonin_like superfamily. 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 symmetry of type I...; Region: chaperonin_like; cl02777 272561001776 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 272561001777 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 272561001778 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 272561001779 active site 272561001780 dimerization interface [polypeptide binding]; other site 272561001781 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 272561001782 ligand binding site [chemical binding]; other site 272561001783 active site 272561001784 UGI interface [polypeptide binding]; other site 272561001785 catalytic site [active] 272561001786 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 272561001787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561001788 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 272561001789 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 272561001790 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 272561001791 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 272561001792 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 272561001793 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 272561001794 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 272561001795 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 272561001796 folate binding site [chemical binding]; other site 272561001797 NADP+ binding site [chemical binding]; other site 272561001798 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 272561001799 catalytic center binding site [active] 272561001800 ATP binding site [chemical binding]; other site 272561001801 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 272561001802 dihydropteroate synthase; Region: DHPS; TIGR01496 272561001803 substrate binding pocket [chemical binding]; other site 272561001804 dimer interface [polypeptide binding]; other site 272561001805 inhibitor binding site; inhibition site 272561001806 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 272561001807 homooctamer interface [polypeptide binding]; other site 272561001808 active site 272561001809 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 272561001810 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 272561001811 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 272561001812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 272561001813 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 272561001814 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 272561001815 DNA binding residues [nucleotide binding] 272561001816 Uncharacterised protein family (UPF0242); Region: UPF0242; pfam06785 272561001817 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 272561001818 Protein of unknown function, DUF582; Region: DUF582; pfam04518 272561001819 Protein of unknown function, DUF582; Region: DUF582; pfam04518 272561001820 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 272561001821 Protein of unknown function, DUF582; Region: DUF582; pfam04518 272561001822 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 272561001823 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 272561001824 MviN-like protein; Region: MVIN; pfam03023 272561001825 endonuclease IV; Provisional; Region: PRK01060 272561001826 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 272561001827 AP (apurinic/apyrimidinic) site pocket; other site 272561001828 DNA interaction; other site 272561001829 Metal-binding active site; metal-binding site 272561001830 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 272561001831 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 272561001832 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 272561001833 RNA binding surface [nucleotide binding]; other site 272561001834 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 272561001835 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 272561001836 active site residue [active] 272561001837 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 272561001838 substrate binding pocket [chemical binding]; other site 272561001839 chain length determination region; other site 272561001840 substrate-Mg2+ binding site; other site 272561001841 catalytic residues [active] 272561001842 aspartate-rich region 1; other site 272561001843 active site lid residues [active] 272561001844 aspartate-rich region 2; other site 272561001845 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 272561001846 putative trimer interface [polypeptide binding]; other site 272561001847 putative CoA binding site [chemical binding]; other site 272561001848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 272561001849 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 272561001850 DNA binding site [nucleotide binding] 272561001851 Thymidylate synthase complementing protein; Region: Thy1; cl03630 272561001852 Thymidylate synthase complementing protein; Region: Thy1; cl03630 272561001853 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_aspartate_rich; cd04823 272561001854 dimer interface [polypeptide binding]; other site 272561001855 active site 272561001856 aspartate-rich active site metal binding site; other site 272561001857 allosteric magnesium binding site [ion binding]; other site 272561001858 Schiff base residues; other site 272561001859 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 272561001860 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 272561001861 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 272561001862 domain; Region: GreA_GreB_N; pfam03449 272561001863 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 272561001864 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 272561001865 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 272561001866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 272561001867 homodimer interface [polypeptide binding]; other site 272561001868 catalytic residue [active] 272561001869 rod shape-determining protein MreC; Provisional; Region: PRK14872 272561001870 rod shape-determining protein MreC; Region: MreC; pfam04085 272561001871 rod shape-determining protein MreC; Region: MreC; pfam04085 272561001872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561001873 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 272561001874 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 272561001875 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 272561001876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 272561001877 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 272561001878 putative substrate translocation pore; other site 272561001879 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 272561001880 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 272561001881 active site 272561001882 interdomain interaction site; other site 272561001883 putative metal-binding site [ion binding]; other site 272561001884 nucleotide binding site [chemical binding]; other site 272561001885 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 272561001886 domain I; other site 272561001887 DNA binding groove [nucleotide binding] 272561001888 phosphate binding site [ion binding]; other site 272561001889 domain II; other site 272561001890 domain III; other site 272561001891 nucleotide binding site [chemical binding]; other site 272561001892 catalytic site [active] 272561001893 domain IV; other site 272561001894 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272561001895 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272561001896 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 272561001897 SWIB/MDM2 domain; Region: SWIB; cl02489 272561001898 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 272561001899 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 272561001900 FMN binding site [chemical binding]; other site 272561001901 active site 272561001902 catalytic residues [active] 272561001903 substrate binding site [chemical binding]; other site 272561001904 YGGT family; Region: YGGT; cl00508 272561001905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 272561001906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 272561001907 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 272561001908 recombinase A; Provisional; Region: recA; PRK09354 272561001909 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 272561001910 hexamer interface [polypeptide binding]; other site 272561001911 Walker A motif; other site 272561001912 ATP binding site [chemical binding]; other site 272561001913 Walker B motif; other site 272561001914 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 272561001915 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 272561001916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561001917 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 272561001918 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 272561001919 Walker A/P-loop; other site 272561001920 ATP binding site [chemical binding]; other site 272561001921 Q-loop/lid; other site 272561001922 ABC transporter signature motif; other site 272561001923 Walker B; other site 272561001924 D-loop; other site 272561001925 H-loop/switch region; other site 272561001926 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 272561001927 NeuB family; Region: NeuB; cl00496 272561001928 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 272561001929 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 272561001930 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 272561001931 RNA binding surface [nucleotide binding]; other site 272561001932 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 272561001933 active site 272561001934 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 272561001935 DNA Topoisomerase IV; Region: TOP4c; smart00434 272561001936 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 272561001937 CAP-like domain; other site 272561001938 active site 272561001939 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 272561001940 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 272561001941 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 272561001942 anchoring element; other site 272561001943 dimer interface [polypeptide binding]; other site 272561001944 ATP binding site [chemical binding]; other site 272561001945 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 272561001946 active site 272561001947 putative metal-binding site [ion binding]; other site 272561001948 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 272561001949 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 272561001950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561001951 NAD(P) binding pocket [chemical binding]; other site 272561001952 Tir chaperone protein (CesT); Region: CesT; cl08444 272561001953 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 272561001954 phosphopeptide binding site; other site 272561001955 MARCKS family; Region: MARCKS; pfam02063 272561001956 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 272561001957 phosphopeptide binding site; other site 272561001958 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 272561001959 BON domain; Region: BON; cl02771 272561001960 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; cl09830 272561001961 type III secretion system ATPase; Provisional; Region: PRK06315 272561001962 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272561001963 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 272561001964 Walker A motif/ATP binding site; other site 272561001965 Walker B motif; other site 272561001966 type III secretion system protein; Validated; Region: PRK05933 272561001967 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 272561001968 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 272561001969 Catalytic domain of Protein Kinases; Region: PKc; cd00180 272561001970 active site 272561001971 ATP binding site [chemical binding]; other site 272561001972 substrate binding site [chemical binding]; other site 272561001973 activation loop (A-loop); other site 272561001974 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 272561001975 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272561001976 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272561001977 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 272561001978 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 272561001979 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 272561001980 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 272561001981 ADP binding site [chemical binding]; other site 272561001982 phosphagen binding site; other site 272561001983 substrate specificity loop; other site 272561001984 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 272561001985 UvrB/uvrC motif; Region: UVR; pfam02151 272561001986 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 272561001987 hinge region; other site 272561001988 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 272561001989 putative nucleotide binding site [chemical binding]; other site 272561001990 uridine monophosphate binding site [chemical binding]; other site 272561001991 homohexameric interface [polypeptide binding]; other site 272561001992 elongation factor Ts; Provisional; Region: tsf; PRK09377 272561001993 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 272561001994 Elongation factor TS; Region: EF_TS; pfam00889 272561001995 Elongation factor TS; Region: EF_TS; pfam00889 272561001996 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 272561001997 rRNA interaction site [nucleotide binding]; other site 272561001998 S8 interaction site; other site 272561001999 putative laminin-1 binding site; other site 272561002000 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 272561002001 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 272561002002 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 272561002003 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272561002004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 272561002005 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 272561002006 TPR motif; other site 272561002007 binding surface 272561002008 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 272561002009 binding surface 272561002010 TPR motif; other site 272561002011 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 272561002012 binding surface 272561002013 TPR motif; other site 272561002014 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272561002015 putative ABC transporter; Region: ycf24; CHL00085 272561002016 FeS assembly ATPase SufC; Region: sufC; TIGR01978 272561002017 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 272561002018 Walker A/P-loop; other site 272561002019 ATP binding site [chemical binding]; other site 272561002020 Q-loop/lid; other site 272561002021 ABC transporter signature motif; other site 272561002022 Walker B; other site 272561002023 D-loop; other site 272561002024 H-loop/switch region; other site 272561002025 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 272561002026 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 272561002027 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 272561002028 Aminotransferase class-V; Region: Aminotran_5; pfam00266 272561002029 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272561002030 catalytic residue [active] 272561002031 ParB-like partition proteins; Region: parB_part; TIGR00180 272561002032 ParB-like nuclease domain; Region: ParBc; cl02129 272561002033 KorB domain; Region: KorB; pfam08535 272561002034 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 272561002035 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 272561002036 Walker A/P-loop; other site 272561002037 ATP binding site [chemical binding]; other site 272561002038 Q-loop/lid; other site 272561002039 ABC transporter signature motif; other site 272561002040 Walker B; other site 272561002041 D-loop; other site 272561002042 H-loop/switch region; other site 272561002043 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272561002044 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 272561002045 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 272561002046 Walker A/P-loop; other site 272561002047 ATP binding site [chemical binding]; other site 272561002048 Q-loop/lid; other site 272561002049 ABC transporter signature motif; other site 272561002050 Walker B; other site 272561002051 D-loop; other site 272561002052 H-loop/switch region; other site 272561002053 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 272561002054 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 272561002055 Phosphate transporter family; Region: PHO4; cl00396 272561002056 Phosphate transporter family; Region: PHO4; cl00396 272561002057 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 272561002058 substrate binding site [chemical binding]; other site 272561002059 hinge regions; other site 272561002060 ADP binding site [chemical binding]; other site 272561002061 catalytic site [active] 272561002062 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 272561002063 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 272561002064 minor groove reading motif; other site 272561002065 helix-hairpin-helix signature motif; other site 272561002066 substrate binding pocket [chemical binding]; other site 272561002067 active site 272561002068 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 272561002069 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 272561002070 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 272561002071 G1 box; other site 272561002072 GTP/Mg2+ binding site [chemical binding]; other site 272561002073 Switch I region; other site 272561002074 G2 box; other site 272561002075 Switch II region; other site 272561002076 G3 box; other site 272561002077 G4 box; other site 272561002078 G5 box; other site 272561002079 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 272561002080 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 272561002081 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 272561002082 binding surface 272561002083 TPR motif; other site 272561002084 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 272561002085 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 272561002086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561002087 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 272561002088 GTP-binding protein Der; Reviewed; Region: PRK00093 272561002089 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 272561002090 G1 box; other site 272561002091 GTP/Mg2+ binding site [chemical binding]; other site 272561002092 Switch I region; other site 272561002093 G2 box; other site 272561002094 Switch II region; other site 272561002095 G3 box; other site 272561002096 G4 box; other site 272561002097 G5 box; other site 272561002098 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 272561002099 G1 box; other site 272561002100 GTP/Mg2+ binding site [chemical binding]; other site 272561002101 Switch I region; other site 272561002102 G2 box; other site 272561002103 G3 box; other site 272561002104 Switch II region; other site 272561002105 G4 box; other site 272561002106 G5 box; other site 272561002107 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 272561002108 active site 272561002109 NTP binding site [chemical binding]; other site 272561002110 metal binding triad [ion binding]; metal-binding site 272561002111 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 272561002112 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 272561002113 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 272561002114 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 272561002115 Walker A motif; other site 272561002116 ATP binding site [chemical binding]; other site 272561002117 Walker B motif; other site 272561002118 arginine finger; other site 272561002119 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 272561002120 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 272561002121 oligomer interface [polypeptide binding]; other site 272561002122 active site residues [active] 272561002123 trigger factor; Provisional; Region: tig; PRK01490 272561002124 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 272561002125 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 272561002126 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 272561002127 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 272561002128 ATP binding site [chemical binding]; other site 272561002129 putative Mg++ binding site [ion binding]; other site 272561002130 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 272561002131 nucleotide binding region [chemical binding]; other site 272561002132 ATP-binding site [chemical binding]; other site 272561002133 rod shape-determining protein MreB; Provisional; Region: PRK13927 272561002134 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 272561002135 ATP binding site [chemical binding]; other site 272561002136 profilin binding site; other site 272561002137 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_GTP; cd00819 272561002138 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 272561002139 active site 272561002140 substrate-binding site [chemical binding]; other site 272561002141 metal-binding site [ion binding] 272561002142 GTP binding site [chemical binding]; other site 272561002143 Protein of unknown function, DUF582; Region: DUF582; pfam04518 272561002144 Protein of unknown function, DUF582; Region: DUF582; pfam04518 272561002145 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 272561002146 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 272561002147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561002148 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 272561002149 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 272561002150 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 272561002151 active site 272561002152 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 272561002153 type III secretion system ATPase; Validated; Region: PRK05922 272561002154 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 272561002155 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561002156 Walker A motif; other site 272561002157 ATP binding site [chemical binding]; other site 272561002158 Walker B motif; other site 272561002159 type III secretion system protein; Validated; Region: PRK05934 272561002160 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 272561002161 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 272561002162 NifU-like domain; Region: NifU; cl00484 272561002163 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 272561002164 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 272561002165 catalytic core [active] 272561002166 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 272561002167 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 272561002168 RNA binding surface [nucleotide binding]; other site 272561002169 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 272561002170 active site 272561002171 uracil binding [chemical binding]; other site 272561002172 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 272561002173 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272561002174 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 272561002175 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 272561002176 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 272561002177 CCC1-related protein family; Region: CCC1_like_1; cd02437 272561002178 seryl-tRNA synthetase; Provisional; Region: PRK05431 272561002179 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 272561002180 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 272561002181 dimer interface [polypeptide binding]; other site 272561002182 active site 272561002183 motif 1; other site 272561002184 motif 2; other site 272561002185 motif 3; other site 272561002186 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 272561002187 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 272561002188 catalytic motif [active] 272561002189 Zn binding site [ion binding]; other site 272561002190 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 272561002191 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 272561002192 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 272561002193 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 272561002194 dimerization interface [polypeptide binding]; other site 272561002195 active site 272561002196 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 272561002197 homopentamer interface [polypeptide binding]; other site 272561002198 active site 272561002199 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 272561002200 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 272561002201 substrate binding site [chemical binding]; other site 272561002202 SET domain; Region: SET; cl02566 272561002203 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 272561002204 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 272561002205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561002206 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 272561002207 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 272561002208 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 272561002209 catalytic loop [active] 272561002210 iron binding site [ion binding]; other site 272561002211 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 272561002212 FAD binding pocket [chemical binding]; other site 272561002213 FAD binding motif [chemical binding]; other site 272561002214 phosphate binding motif [ion binding]; other site 272561002215 beta-alpha-beta structure motif; other site 272561002216 NAD binding pocket [chemical binding]; other site 272561002217 Preprotein translocase subunit; Region: YajC; cl00806 272561002218 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 272561002219 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 272561002220 S-adenosylmethionine binding site [chemical binding]; other site 272561002221 Histone H1-like protein Hc1; Region: Hc1; pfam07432 272561002222 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 272561002223 binding surface 272561002224 TPR motif; other site 272561002225 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 272561002226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561002227 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 272561002228 HemN C-terminal region; Region: HemN_C; pfam06969 272561002229 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 272561002230 substrate binding site [chemical binding]; other site 272561002231 active site 272561002232 transcription-repair coupling factor; Region: mfd; TIGR00580 272561002233 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 272561002234 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 272561002235 ATP binding site [chemical binding]; other site 272561002236 putative Mg++ binding site [ion binding]; other site 272561002237 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 272561002238 nucleotide binding region [chemical binding]; other site 272561002239 ATP-binding site [chemical binding]; other site 272561002240 TRCF domain; Region: TRCF; cl04088 272561002241 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 272561002242 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 272561002243 motif 1; other site 272561002244 active site 272561002245 motif 2; other site 272561002246 motif 3; other site 272561002247 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 272561002248 DHHA1 domain; Region: DHHA1; pfam02272 272561002249 transketolase; Reviewed; Region: PRK05899 272561002250 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 272561002251 TPP-binding site [chemical binding]; other site 272561002252 dimer interface [polypeptide binding]; other site 272561002253 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 272561002254 PYR/PP interface [polypeptide binding]; other site 272561002255 dimer interface [polypeptide binding]; other site 272561002256 TPP binding site [chemical binding]; other site 272561002257 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 272561002258 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 272561002259 elongation factor P; Validated; Region: PRK00529 272561002260 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 272561002261 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 272561002262 RNA binding site [nucleotide binding]; other site 272561002263 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 272561002264 RNA binding site [nucleotide binding]; other site 272561002265 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 272561002266 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 272561002267 putative active site [active] 272561002268 putative metal binding site [ion binding]; other site 272561002269 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 272561002270 active site 272561002271 metal binding site [ion binding]; metal-binding site 272561002272 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 272561002273 chaperonin_like superfamily. 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 symmetry of type I...; Region: chaperonin_like; cl02777 272561002274 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272561002275 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 272561002276 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272561002277 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272561002278 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 272561002279 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 272561002280 Mg++ binding site [ion binding]; other site 272561002281 putative catalytic motif [active] 272561002282 putative substrate binding site [chemical binding]; other site 272561002283 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 272561002284 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561002285 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272561002286 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272561002287 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 272561002288 putative peptidoglycan binding site; other site 272561002289 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 272561002290 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 272561002291 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 272561002292 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 272561002293 active site 272561002294 homodimer interface [polypeptide binding]; other site 272561002295 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 272561002296 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 272561002297 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 272561002298 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 272561002299 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 272561002300 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272561002301 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 272561002302 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 272561002303 anti sigma factor interaction site; other site 272561002304 regulatory phosphorylation site [posttranslational modification]; other site 272561002305 IPP transferase; Region: IPPT; cl00403 272561002306 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 272561002307 hypothetical protein; Provisional; Region: PRK05927 272561002308 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15367 272561002309 FeS/SAM binding site; other site 272561002310 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 272561002311 Domain of unknown function DUF143; Region: DUF143; cl00519 272561002312 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 272561002313 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 272561002314 dimer interface [polypeptide binding]; other site 272561002315 active site 272561002316 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Ap4A hydrolases are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_human_like; cd03428 272561002317 active site 272561002318 Ap4A binding cleft/pocket [chemical binding]; other site 272561002319 P4 phosphate binding site; other site 272561002320 nudix motif; other site 272561002321 putative P2/P3 phosphate binding site [ion binding]; other site 272561002322 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 272561002323 dimer interface [polypeptide binding]; other site 272561002324 substrate binding site [chemical binding]; other site 272561002325 metal binding sites [ion binding]; metal-binding site 272561002326 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 272561002327 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 272561002328 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 272561002329 NAD binding site [chemical binding]; other site 272561002330 Phe binding site; other site 272561002331 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 272561002332 active site 272561002333 putative lithium-binding site [ion binding]; other site 272561002334 substrate binding site [chemical binding]; other site 272561002335 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 272561002336 putative acyl-acceptor binding pocket; other site 272561002337 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 272561002338 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 272561002339 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 272561002340 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 272561002341 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 272561002342 catalytic residue [active] 272561002343 primosome assembly protein PriA; Validated; Region: PRK05580 272561002344 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 272561002345 ATP binding site [chemical binding]; other site 272561002346 putative Mg++ binding site [ion binding]; other site 272561002347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561002348 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272561002349 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 272561002350 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 272561002351 dimer interface [polypeptide binding]; other site 272561002352 putative anticodon binding site; other site 272561002353 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 272561002354 motif 1; other site 272561002355 active site 272561002356 motif 2; other site 272561002357 motif 3; other site 272561002358 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 272561002359 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272561002360 active site 272561002361 HIGH motif; other site 272561002362 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 272561002363 KMSKS motif; other site 272561002364 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272561002365 tRNA binding surface [nucleotide binding]; other site 272561002366 anticodon binding site; other site 272561002367 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 272561002368 Ribonuclease P; Region: Ribonuclease_P; cl00457 272561002369 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 272561002370 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 272561002371 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 272561002372 Protein of unknown function (DUF322); Region: DUF322; cl00574 272561002373 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 272561002374 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 272561002375 GIY-YIG motif/motif A; other site 272561002376 active site 272561002377 catalytic site [active] 272561002378 putative DNA binding site [nucleotide binding]; other site 272561002379 metal binding site [ion binding]; metal-binding site 272561002380 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 272561002381 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 272561002382 MutS domain I; Region: MutS_I; pfam01624 272561002383 MutS domain II; Region: MutS_II; pfam05188 272561002384 MutS family domain IV; Region: MutS_IV; pfam05190 272561002385 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 272561002386 Walker A/P-loop; other site 272561002387 ATP binding site [chemical binding]; other site 272561002388 Q-loop/lid; other site 272561002389 ABC transporter signature motif; other site 272561002390 Walker B; other site 272561002391 D-loop; other site 272561002392 H-loop/switch region; other site 272561002393 DNA primase; Validated; Region: dnaG; PRK05667 272561002394 CHC2 zinc finger; Region: zf-CHC2; cl15369 272561002395 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 272561002396 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 272561002397 active site 272561002398 metal binding site [ion binding]; metal-binding site 272561002399 interdomain interaction site; other site 272561002400 glycyl-tRNA synthetase; Provisional; Region: PRK14908 272561002401 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 272561002402 dimer interface [polypeptide binding]; other site 272561002403 motif 1; other site 272561002404 active site 272561002405 motif 2; other site 272561002406 motif 3; other site 272561002407 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 272561002408 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272561002409 glycogen synthase; Provisional; Region: glgA; PRK00654 272561002410 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 272561002411 ADP-binding pocket [chemical binding]; other site 272561002412 homodimer interface [polypeptide binding]; other site 272561002413 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 272561002414 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 272561002415 5S rRNA interface [nucleotide binding]; other site 272561002416 CTC domain interface [polypeptide binding]; other site 272561002417 L16 interface [polypeptide binding]; other site 272561002418 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 272561002419 putative active site [active] 272561002420 catalytic residue [active] 272561002421 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 272561002422 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 272561002423 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 272561002424 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 272561002425 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 272561002426 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 272561002427 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 272561002428 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 272561002429 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272561002430 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272561002431 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272561002432 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 272561002433 putative acyl-acceptor binding pocket; other site 272561002434 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 272561002435 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 272561002436 homodimer interface [polypeptide binding]; other site 272561002437 oligonucleotide binding site [chemical binding]; other site 272561002438 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 272561002439 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 272561002440 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002441 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561002442 IncA protein; Region: IncA; pfam04156 272561002443 YtxH-like protein; Region: YtxH; cl02079 272561002444 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 272561002445 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 272561002446 active site 272561002447 substrate binding site [chemical binding]; other site 272561002448 metal binding site [ion binding]; metal-binding site 272561002449 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 272561002450 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 272561002451 glutaminase active site [active] 272561002452 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 272561002453 dimer interface [polypeptide binding]; other site 272561002454 active site 272561002455 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 272561002456 dimer interface [polypeptide binding]; other site 272561002457 active site 272561002458 Amino acid permease; Region: AA_permease; cl00524 272561002459 Amino acid permease; Region: AA_permease; cl00524 272561002460 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 272561002461 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 272561002462 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 272561002463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 272561002464 succinyl-CoA synthetase, beta subunit; Region: sucCoAbeta; TIGR01016 272561002465 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 272561002466 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 272561002467 CoA-ligase; Region: Ligase_CoA; pfam00549 272561002468 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 272561002469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 272561002470 CoA-ligase; Region: Ligase_CoA; pfam00549 272561002471 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 272561002472 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 272561002473 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 272561002474 protein binding site [polypeptide binding]; other site 272561002475 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 272561002476 protein binding site [polypeptide binding]; other site 272561002477 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 272561002478 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 272561002479 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272561002480 Peptidase M16C associated; Region: M16C_assoc; pfam08367 272561002481 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 272561002482 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 272561002483 RmuC family; Region: RmuC; pfam02646 272561002484 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 272561002485 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 272561002486 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 272561002487 ATP cone domain; Region: ATP-cone; pfam03477 272561002488 ATP cone domain; Region: ATP-cone; pfam03477 272561002489 Class I ribonucleotide reductase; Region: RNR_I; cd01679 272561002490 active site 272561002491 dimer interface [polypeptide binding]; other site 272561002492 catalytic residues [active] 272561002493 effector binding site; other site 272561002494 R2 peptide binding site; other site 272561002495 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 272561002496 dimer interface [polypeptide binding]; other site 272561002497 putative radical transfer pathway; other site 272561002498 diiron center [ion binding]; other site 272561002499 tyrosyl radical; other site 272561002500 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561002501 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561002502 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 272561002503 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 272561002504 FAD binding domain; Region: FAD_binding_4; pfam01565 272561002505 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 272561002506 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 272561002507 putative RNA binding site [nucleotide binding]; other site 272561002508 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 272561002509 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 272561002510 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 272561002511 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 272561002512 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 272561002513 23S rRNA binding site [nucleotide binding]; other site 272561002514 L21 binding site [polypeptide binding]; other site 272561002515 L13 binding site [polypeptide binding]; other site 272561002516 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 272561002517 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 272561002518 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 272561002519 motif 1; other site 272561002520 dimer interface [polypeptide binding]; other site 272561002521 active site 272561002522 motif 2; other site 272561002523 motif 3; other site 272561002524 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272561002525 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 272561002526 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 272561002527 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 272561002528 Ligand Binding Site [chemical binding]; other site 272561002529 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 272561002530 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 272561002531 Walker A motif; other site 272561002532 ATP binding site [chemical binding]; other site 272561002533 Walker B motif; other site 272561002534 arginine finger; other site 272561002535 Peptidase family M41; Region: Peptidase_M41; pfam01434 272561002536 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 272561002537 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272561002538 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272561002539 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 272561002540 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 272561002541 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 272561002542 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 272561002543 putative nucleic acid binding region [nucleotide binding]; other site 272561002544 G-X-X-G motif; other site 272561002545 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 272561002546 RNA binding site [nucleotide binding]; other site 272561002547 domain interface; other site 272561002548 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 272561002549 16S/18S rRNA binding site [nucleotide binding]; other site 272561002550 S13e-L30e interaction site [polypeptide binding]; other site 272561002551 25S rRNA binding site [nucleotide binding]; other site 272561002552 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 272561002553 nucleoside/Zn binding site; other site 272561002554 dimer interface [polypeptide binding]; other site 272561002555 catalytic motif [active] 272561002556 Protein of unknown function (DUF720); Region: DUF720; pfam05302 272561002557 Protein of unknown function (DUF720); Region: DUF720; pfam05302 272561002558 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 272561002559 methionine aminopeptidase; Provisional; Region: PRK12318 272561002560 SEC-C motif; Region: SEC-C; pfam02810 272561002561 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 272561002562 active site 272561002563 MarC family integral membrane protein; Region: MarC; cl00919 272561002564 MarC family integral membrane protein; Region: MarC; cl00919 272561002565 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 272561002566 dimer interface [polypeptide binding]; other site 272561002567 conserved gate region; other site 272561002568 putative PBP binding loops; other site 272561002569 ABC-ATPase subunit interface; other site 272561002570 NMT1/THI5 like; Region: NMT1; pfam09084 272561002571 fumarate hydratase, class II; Region: fumC_II; TIGR00979 272561002572 Class II fumarases; Region: Fumarase_classII; cd01362 272561002573 active site 272561002574 tetramer interface [polypeptide binding]; other site 272561002575 high affinity sulphate transporter 1; Region: sulP; TIGR00815 272561002576 Permease family; Region: Xan_ur_permease; cl00967 272561002577 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 272561002578 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 272561002579 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 272561002580 transmembrane helices; other site 272561002581 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272561002582 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 272561002583 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 272561002584 active site triad [active] 272561002585 LytB protein; Region: LYTB; cl00507 272561002586 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 272561002587 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 272561002588 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 272561002589 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 272561002590 DNA binding site [nucleotide binding] 272561002591 Int/Topo IB signature motif; other site 272561002592 active site 272561002593 glycogen branching enzyme; Provisional; Region: PRK05402 272561002594 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 272561002595 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 272561002596 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 272561002597 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 272561002598 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 272561002599 adhesin; Provisional; Region: PRK09752 272561002600 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002601 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002602 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561002603 adhesin; Provisional; Region: PRK09752 272561002604 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002605 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002606 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002607 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561002608 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002609 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561002610 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002611 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002612 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002613 Autotransporter beta-domain; Region: Autotransporter; cl02365 272561002614 adhesin; Provisional; Region: PRK09752 272561002615 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002616 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002617 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 272561002618 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 272561002619 Autotransporter beta-domain; Region: Autotransporter; cl02365