-- dump date 20120504_141326 -- class Genbank::misc_feature -- table misc_feature_note -- id note 580047000001 Domain of unknown function (DUF378); Region: DUF378; cl00943 580047000002 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 580047000003 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 580047000004 Amidase; Region: Amidase; cl11426 580047000005 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 580047000006 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 580047000007 GatB domain; Region: GatB_Yqey; cl11497 580047000008 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 580047000009 ribonuclease HIII; Region: rnhC; TIGR00716 580047000010 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 580047000011 RNA/DNA hybrid binding site [nucleotide binding]; other site 580047000012 active site 580047000013 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 580047000014 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 580047000015 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK05906 580047000016 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 580047000017 putative acyl-acceptor binding pocket; other site 580047000018 Uncharacterized conserved protein [Function unknown]; Region: COG1624 580047000019 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 580047000020 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 580047000021 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 580047000022 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 580047000023 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 580047000024 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 580047000025 putative active site [active] 580047000026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000027 Bacterial SH3 domain; Region: SH3_3; cl02551 580047000028 Bacterial SH3 domain; Region: SH3_3; cl02551 580047000029 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 580047000030 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 580047000031 HIGH motif; other site 580047000032 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 580047000033 active site 580047000034 KMSKS motif; other site 580047000035 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 580047000036 tRNA binding surface [nucleotide binding]; other site 580047000037 anticodon binding site; other site 580047000038 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 580047000039 Catalytic site [active] 580047000040 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 580047000041 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 580047000042 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 580047000043 peptide chain release factor 1; Validated; Region: prfA; PRK00591 580047000044 RF-1 domain; Region: RF-1; cl02875 580047000045 RF-1 domain; Region: RF-1; cl02875 580047000046 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 580047000047 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 580047000048 S-adenosylmethionine binding site [chemical binding]; other site 580047000049 signal recognition particle protein; Provisional; Region: PRK10867 580047000050 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 580047000051 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 580047000052 P loop; other site 580047000053 GTP binding site [chemical binding]; other site 580047000054 Signal peptide binding domain; Region: SRP_SPB; pfam02978 580047000055 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 580047000056 tRNA (guanine-N(1)-)-methyltransferase/unknown domain fusion protein; Reviewed; Region: trmD; PRK01037 580047000057 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 580047000058 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 580047000059 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 580047000060 RNA/DNA hybrid binding site [nucleotide binding]; other site 580047000061 active site 580047000062 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 580047000063 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 580047000064 catalytic site [active] 580047000065 G-X2-G-X-G-K; other site 580047000066 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 580047000067 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 580047000068 active site 580047000069 HIGH motif; other site 580047000070 KMSKS motif; other site 580047000071 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 580047000072 tRNA binding surface [nucleotide binding]; other site 580047000073 anticodon binding site; other site 580047000074 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 580047000075 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000076 Family description; Region: UvrD_C_2; cl15862 580047000077 EamA-like transporter family; Region: EamA; cl01037 580047000078 Uncharacterized conserved protein [Function unknown]; Region: COG4285 580047000079 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 580047000080 conserved cys residue [active] 580047000081 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 580047000082 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 580047000083 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 580047000084 trimer interface [polypeptide binding]; other site 580047000085 active site 580047000086 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 580047000087 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 580047000088 Walker A motif; other site 580047000089 ATP binding site [chemical binding]; other site 580047000090 Walker B motif; other site 580047000091 arginine finger; other site 580047000092 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 580047000093 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 580047000094 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 580047000095 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 580047000096 active site 580047000097 catalytic site [active] 580047000098 Tir chaperone protein (CesT) family; Region: CesT; cl08444 580047000099 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 580047000100 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 580047000101 dimer interface [polypeptide binding]; other site 580047000102 ssDNA binding site [nucleotide binding]; other site 580047000103 tetramer (dimer of dimers) interface [polypeptide binding]; other site 580047000104 multifunctional aminopeptidase A; Provisional; Region: PRK00913 580047000105 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 580047000106 interface (dimer of trimers) [polypeptide binding]; other site 580047000107 Substrate-binding/catalytic site; other site 580047000108 Zn-binding sites [ion binding]; other site 580047000109 hypothetical protein; Provisional; Region: PRK05907 580047000110 Predicted methyltransferases [General function prediction only]; Region: COG0313 580047000111 coproporphyrinogen III oxidase; Provisional; Region: PRK06294 580047000112 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 580047000113 FeS/SAM binding site; other site 580047000114 HemN C-terminal domain; Region: HemN_C; pfam06969 580047000115 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 580047000116 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 580047000117 TPP-binding site [chemical binding]; other site 580047000118 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 580047000119 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 580047000120 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 580047000121 E3 interaction surface; other site 580047000122 lipoyl attachment site [posttranslational modification]; other site 580047000123 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 580047000124 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 580047000125 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 580047000126 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 580047000128 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 580047000129 catalytic loop [active] 580047000130 iron binding site [ion binding]; other site 580047000131 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 580047000132 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 580047000133 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 580047000134 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 580047000135 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 580047000136 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 580047000137 DNA binding residues [nucleotide binding] 580047000138 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 580047000139 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 580047000140 active site 580047000141 HIGH motif; other site 580047000142 dimer interface [polypeptide binding]; other site 580047000143 KMSKS motif; other site 580047000144 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 580047000145 RNA binding surface [nucleotide binding]; other site 580047000146 6-phosphogluconate dehydrogenase (decarboxylating); Region: gnd; TIGR00873 580047000147 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047000148 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 580047000149 GTP-binding protein LepA; Provisional; Region: PRK05433 580047000150 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 580047000151 G1 box; other site 580047000152 putative GEF interaction site [polypeptide binding]; other site 580047000153 GTP/Mg2+ binding site [chemical binding]; other site 580047000154 Switch I region; other site 580047000155 G2 box; other site 580047000156 G3 box; other site 580047000157 Switch II region; other site 580047000158 G4 box; other site 580047000159 G5 box; other site 580047000160 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 580047000161 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 580047000162 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 580047000163 TLC ATP/ADP transporter; Region: TLC; pfam03219 580047000164 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 580047000165 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 580047000166 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 580047000167 intersubunit interface [polypeptide binding]; other site 580047000168 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 580047000169 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 580047000170 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 580047000171 ABC-ATPase subunit interface; other site 580047000172 dimer interface [polypeptide binding]; other site 580047000173 putative PBP binding regions; other site 580047000174 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 580047000175 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 580047000176 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 580047000177 ABC-ATPase subunit interface; other site 580047000178 dimer interface [polypeptide binding]; other site 580047000179 putative PBP binding regions; other site 580047000180 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 580047000181 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 580047000182 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 580047000183 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 580047000184 RIP metalloprotease RseP; Region: TIGR00054 580047000185 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 580047000186 active site 580047000187 RIP metalloprotease RseP; Region: TIGR00054 580047000188 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 580047000189 putative substrate binding region [chemical binding]; other site 580047000190 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 580047000191 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 580047000192 recF protein; Region: recf; TIGR00611 580047000193 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000194 Walker A/P-loop; other site 580047000195 ATP binding site [chemical binding]; other site 580047000196 Q-loop/lid; other site 580047000197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000198 ABC transporter signature motif; other site 580047000199 Walker B; other site 580047000200 DNA polymerase III subunit beta; Validated; Region: PRK05643 580047000201 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 580047000202 putative DNA binding surface [nucleotide binding]; other site 580047000203 dimer interface [polypeptide binding]; other site 580047000204 beta-clamp/clamp loader binding surface; other site 580047000205 beta-clamp/translesion DNA polymerase binding surface; other site 580047000206 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 580047000207 SmpB-tmRNA interface; other site 580047000208 ApbE family; Region: ApbE; cl00643 580047000209 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14181 580047000210 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 580047000211 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 580047000212 homodimer interface [polypeptide binding]; other site 580047000213 NADP binding site [chemical binding]; other site 580047000214 substrate binding site [chemical binding]; other site 580047000215 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000216 PLD-like domain; Region: PLDc_2; pfam13091 580047000217 putative active site [active] 580047000218 catalytic site [active] 580047000219 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 580047000220 PLD-like domain; Region: PLDc_2; pfam13091 580047000221 putative active site [active] 580047000222 catalytic site [active] 580047000223 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 580047000224 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 580047000225 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 580047000226 Tir chaperone protein (CesT) family; Region: CesT; cl08444 580047000227 HrpJ-like domain; Region: HrpJ; cl15454 580047000228 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 580047000229 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 580047000230 type III secretion system protein; Validated; Region: PRK06298 580047000231 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 580047000232 GTP-binding protein YchF; Reviewed; Region: PRK09601 580047000233 YchF GTPase; Region: YchF; cd01900 580047000234 G1 box; other site 580047000235 GTP/Mg2+ binding site [chemical binding]; other site 580047000236 Switch I region; other site 580047000237 G2 box; other site 580047000238 Switch II region; other site 580047000239 G3 box; other site 580047000240 G4 box; other site 580047000241 G5 box; other site 580047000242 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 580047000243 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 580047000244 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 580047000245 active site 580047000246 Riboflavin kinase; Region: Flavokinase; cl03312 580047000247 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 580047000248 RNA binding site [nucleotide binding]; other site 580047000249 active site 580047000250 Ribosome-binding factor A; Region: RBFA; cl00542 580047000251 translation initiation factor IF-2; Region: IF-2; TIGR00487 580047000252 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 580047000253 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 580047000254 G1 box; other site 580047000255 putative GEF interaction site [polypeptide binding]; other site 580047000256 GTP/Mg2+ binding site [chemical binding]; other site 580047000257 Switch I region; other site 580047000258 G2 box; other site 580047000259 G3 box; other site 580047000260 Switch II region; other site 580047000261 G4 box; other site 580047000262 G5 box; other site 580047000263 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 580047000264 Translation-initiation factor 2; Region: IF-2; pfam11987 580047000265 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 580047000266 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 580047000267 NusA N-terminal domain; Region: NusA_N; pfam08529 580047000268 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 580047000269 RNA binding site [nucleotide binding]; other site 580047000270 homodimer interface [polypeptide binding]; other site 580047000271 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 580047000272 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 580047000273 G-X-X-G motif; other site 580047000274 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 580047000275 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 580047000276 RNA binding site [nucleotide binding]; other site 580047000277 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 580047000278 RNA binding site [nucleotide binding]; other site 580047000279 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 580047000280 RNA binding site [nucleotide binding]; other site 580047000281 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 580047000282 RNA binding site [nucleotide binding]; other site 580047000283 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 580047000284 RNA binding site [nucleotide binding]; other site 580047000285 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 580047000286 RNA binding site [nucleotide binding]; other site 580047000287 domain interface; other site 580047000288 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 580047000289 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 580047000290 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 580047000291 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 580047000292 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 580047000293 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 580047000294 active site 580047000295 motif I; other site 580047000296 motif II; other site 580047000297 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 580047000298 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 580047000299 NAD binding site [chemical binding]; other site 580047000300 homotetramer interface [polypeptide binding]; other site 580047000301 homodimer interface [polypeptide binding]; other site 580047000302 substrate binding site [chemical binding]; other site 580047000303 active site 580047000305 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 580047000306 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 580047000307 RNA binding surface [nucleotide binding]; other site 580047000308 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 580047000309 active site 580047000310 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 580047000311 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 580047000312 minor groove reading motif; other site 580047000313 helix-hairpin-helix signature motif; other site 580047000314 substrate binding pocket [chemical binding]; other site 580047000315 active site 580047000316 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 580047000317 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 580047000318 DNA binding and oxoG recognition site [nucleotide binding] 580047000319 Uncharacterized conserved protein [Function unknown]; Region: COG0327 580047000320 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 580047000321 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 580047000322 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 580047000323 ring oligomerisation interface [polypeptide binding]; other site 580047000324 ATP/Mg binding site [chemical binding]; other site 580047000325 stacking interactions; other site 580047000326 hinge regions; other site 580047000327 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 580047000328 oligomerisation interface [polypeptide binding]; other site 580047000329 mobile loop; other site 580047000330 roof hairpin; other site 580047000331 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 580047000332 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 580047000333 active site 580047000334 Zn binding site [ion binding]; other site 580047000335 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 580047000336 Clp amino terminal domain; Region: Clp_N; pfam02861 580047000337 Clp amino terminal domain; Region: Clp_N; pfam02861 580047000338 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 580047000339 Walker A motif; other site 580047000340 ATP binding site [chemical binding]; other site 580047000341 Walker B motif; other site 580047000342 arginine finger; other site 580047000343 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 580047000344 Walker A motif; other site 580047000345 ATP binding site [chemical binding]; other site 580047000346 Walker B motif; other site 580047000347 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 580047000348 Uncharacterized conserved protein [Function unknown]; Region: COG2912 580047000349 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 580047000350 IncA protein; Region: IncA; pfam04156 580047000352 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 580047000353 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 580047000354 substrate binding site [chemical binding]; other site 580047000355 hexamer interface [polypeptide binding]; other site 580047000356 metal binding site [ion binding]; metal-binding site 580047000357 elongation factor P; Provisional; Region: PRK12426 580047000358 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 580047000359 RNA binding site [nucleotide binding]; other site 580047000360 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 580047000361 RNA binding site [nucleotide binding]; other site 580047000362 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 580047000363 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 580047000364 carboxyltransferase (CT) interaction site; other site 580047000365 biotinylation site [posttranslational modification]; other site 580047000366 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 580047000367 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 580047000368 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 580047000369 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 580047000370 23S rRNA interface [nucleotide binding]; other site 580047000371 L3 interface [polypeptide binding]; other site 580047000372 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 580047000373 NlpC/P60 family; Region: NLPC_P60; cl11438 580047000374 adenylate kinase; Reviewed; Region: adk; PRK00279 580047000375 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 580047000376 AMP-binding site [chemical binding]; other site 580047000377 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 580047000378 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 580047000379 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 580047000380 dimer interface [polypeptide binding]; other site 580047000381 conserved gate region; other site 580047000382 putative PBP binding loops; other site 580047000383 ABC-ATPase subunit interface; other site 580047000384 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 580047000385 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000386 Walker A/P-loop; other site 580047000387 ATP binding site [chemical binding]; other site 580047000388 Q-loop/lid; other site 580047000389 ABC transporter signature motif; other site 580047000390 Walker B; other site 580047000391 D-loop; other site 580047000392 H-loop/switch region; other site 580047000393 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 580047000394 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047000396 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 580047000397 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 580047000398 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 580047000399 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 580047000400 active site 580047000401 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 580047000402 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 580047000403 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 580047000404 Predicted metal-binding protein related to the C-terminal domain of SecA [General function prediction only]; Region: COG3318 580047000405 SEC-C motif; Region: SEC-C; pfam02810 580047000406 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 580047000407 Catalytic domain of Protein Kinases; Region: PKc; cd00180 580047000408 active site 580047000409 ATP binding site [chemical binding]; other site 580047000410 substrate binding site [chemical binding]; other site 580047000411 activation loop (A-loop); other site 580047000412 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 580047000413 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 580047000414 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 580047000415 nucleotide binding pocket [chemical binding]; other site 580047000416 K-X-D-G motif; other site 580047000417 catalytic site [active] 580047000418 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 580047000419 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 580047000420 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 580047000421 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 580047000422 Dimer interface [polypeptide binding]; other site 580047000423 BRCT sequence motif; other site 580047000424 hypothetical protein; Provisional; Region: PRK06184 580047000425 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 580047000426 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 580047000427 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 580047000428 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 580047000429 FtsX-like permease family; Region: FtsX; cl15850 580047000430 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 580047000431 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 580047000432 Walker A/P-loop; other site 580047000433 ATP binding site [chemical binding]; other site 580047000434 Q-loop/lid; other site 580047000435 ABC transporter signature motif; other site 580047000436 Walker B; other site 580047000437 D-loop; other site 580047000438 H-loop/switch region; other site 580047000439 MAC/Perforin domain; Region: MACPF; cl02616 580047000440 Domain in ryanodine and inositol trisphosphate receptors and protein O-mannosyltransferases; Region: MIR; smart00472 580047000441 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000442 PLD-like domain; Region: PLDc_2; pfam13091 580047000443 putative active site [active] 580047000444 catalytic site [active] 580047000445 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 580047000446 PLD-like domain; Region: PLDc_2; pfam13091 580047000447 putative active site [active] 580047000448 catalytic site [active] 580047000449 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000450 PLD-like domain; Region: PLDc_2; pfam13091 580047000451 putative active site [active] 580047000452 catalytic site [active] 580047000453 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000454 putative active site [active] 580047000455 catalytic site [active] 580047000458 TcdA/TcdB catalytic glycosyltransferase domain; Region: TcdA_TcdB; pfam12919 580047000459 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 580047000460 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 580047000461 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 580047000462 Protein of unknown function (DUF3491); Region: DUF3491; pfam11996 580047000463 Helix-turn-helix domains; Region: HTH; cl00088 580047000464 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 580047000465 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 580047000466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 580047000467 catalytic residue [active] 580047000470 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 580047000471 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 580047000472 peptide binding site [polypeptide binding]; other site 580047000473 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 580047000474 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 580047000475 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 580047000476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000477 Walker A/P-loop; other site 580047000478 ATP binding site [chemical binding]; other site 580047000479 Q-loop/lid; other site 580047000480 ABC transporter signature motif; other site 580047000481 Walker B; other site 580047000482 D-loop; other site 580047000483 H-loop/switch region; other site 580047000484 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 580047000485 Ligand binding site; other site 580047000486 oligomer interface; other site 580047000487 CTP synthetase; Validated; Region: pyrG; PRK05380 580047000488 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 580047000489 Catalytic site [active] 580047000490 active site 580047000491 UTP binding site [chemical binding]; other site 580047000492 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 580047000493 active site 580047000494 putative oxyanion hole; other site 580047000495 catalytic triad [active] 580047000496 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 580047000497 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 580047000498 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 580047000499 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 580047000500 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 580047000501 putative active site [active] 580047000502 DNA polymerase III subunit delta'; Validated; Region: PRK05917 580047000503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000504 thymidylate kinase; Validated; Region: tmk; PRK00698 580047000505 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 580047000506 TMP-binding site; other site 580047000507 ATP-binding site [chemical binding]; other site 580047000508 DNA gyrase, A subunit; Region: gyrA; TIGR01063 580047000509 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 580047000510 CAP-like domain; other site 580047000511 active site 580047000512 primary dimer interface [polypeptide binding]; other site 580047000513 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000514 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000517 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000518 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 580047000519 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 580047000520 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 580047000521 ATP binding site [chemical binding]; other site 580047000522 Mg2+ binding site [ion binding]; other site 580047000523 G-X-G motif; other site 580047000524 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 580047000525 anchoring element; other site 580047000526 dimer interface [polypeptide binding]; other site 580047000527 ATP binding site [chemical binding]; other site 580047000528 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 580047000529 active site 580047000530 putative metal-binding site [ion binding]; other site 580047000531 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 580047000532 Protein of unknown function (DUF721); Region: DUF721; cl02324 580047000533 carries characteristic twin membrane spanning domains 580047000534 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 580047000535 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 580047000536 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 580047000537 MgtE intracellular N domain; Region: MgtE_N; cl15244 580047000538 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 580047000539 Divalent cation transporter; Region: MgtE; cl00786 580047000540 UGMP family protein; Validated; Region: PRK09604 580047000541 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 580047000542 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 580047000543 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 580047000544 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 580047000545 peptide binding site [polypeptide binding]; other site 580047000546 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 580047000547 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 580047000548 dimer interface [polypeptide binding]; other site 580047000549 conserved gate region; other site 580047000550 putative PBP binding loops; other site 580047000551 ABC-ATPase subunit interface; other site 580047000552 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 580047000553 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 580047000554 dimer interface [polypeptide binding]; other site 580047000555 conserved gate region; other site 580047000556 putative PBP binding loops; other site 580047000557 ABC-ATPase subunit interface; other site 580047000558 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 580047000559 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 580047000560 Walker A/P-loop; other site 580047000561 ATP binding site [chemical binding]; other site 580047000562 Q-loop/lid; other site 580047000563 ABC transporter signature motif; other site 580047000564 Walker B; other site 580047000565 D-loop; other site 580047000566 H-loop/switch region; other site 580047000567 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 580047000568 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 580047000569 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 580047000570 Walker A/P-loop; other site 580047000571 ATP binding site [chemical binding]; other site 580047000572 Q-loop/lid; other site 580047000573 ABC transporter signature motif; other site 580047000574 Walker B; other site 580047000575 D-loop; other site 580047000576 H-loop/switch region; other site 580047000577 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 580047000578 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 580047000579 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 580047000580 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 580047000581 transmembrane helices; other site 580047000582 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 580047000583 active site 580047000584 ADP/pyrophosphate binding site [chemical binding]; other site 580047000585 dimerization interface [polypeptide binding]; other site 580047000586 allosteric effector site; other site 580047000587 fructose-1,6-bisphosphate binding site; other site 580047000588 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 580047000589 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 580047000590 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 580047000591 active site 580047000592 ADP/pyrophosphate binding site [chemical binding]; other site 580047000593 dimerization interface [polypeptide binding]; other site 580047000594 allosteric effector site; other site 580047000595 fructose-1,6-bisphosphate binding site; other site 580047000596 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 580047000597 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 580047000598 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 580047000599 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 580047000600 HIGH motif; other site 580047000601 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 580047000602 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 580047000603 active site 580047000604 KMSKS motif; other site 580047000605 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 580047000606 tRNA binding surface [nucleotide binding]; other site 580047000607 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00615 580047000608 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 580047000609 inhibitor-cofactor binding pocket; inhibition site 580047000610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 580047000611 catalytic residue [active] 580047000612 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 580047000613 Bifunctional nuclease; Region: DNase-RNase; cl00553 580047000614 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 580047000615 tetramer (dimer of dimers) interface [polypeptide binding]; other site 580047000616 active site 580047000617 dimer interface [polypeptide binding]; other site 580047000618 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 580047000619 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 580047000620 putative active site; other site 580047000621 catalytic residue [active] 580047000622 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 580047000623 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 580047000624 Ligand Binding Site [chemical binding]; other site 580047000625 Survival protein SurE; Region: SurE; cl00448 580047000626 UbiA prenyltransferase family; Region: UbiA; cl00337 580047000627 aromatic acid decarboxylase; Validated; Region: PRK05920 580047000628 Flavoprotein; Region: Flavoprotein; cl08021 580047000629 Uncharacterized conserved protein [Function unknown]; Region: COG1284 580047000630 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 580047000631 IncA protein; Region: IncA; pfam04156 580047000632 IncA protein; Region: IncA; pfam04156 580047000633 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 580047000634 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 580047000635 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 580047000636 Na2 binding site [ion binding]; other site 580047000637 putative substrate binding site 1 [chemical binding]; other site 580047000638 Na binding site 1 [ion binding]; other site 580047000639 putative substrate binding site 2 [chemical binding]; other site 580047000640 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 580047000641 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 580047000642 ligand binding site [chemical binding]; other site 580047000643 flexible hinge region; other site 580047000644 Phosphopantetheine attachment site; Region: PP-binding; cl09936 580047000645 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 580047000646 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 580047000647 NAD(P) binding site [chemical binding]; other site 580047000648 homotetramer interface [polypeptide binding]; other site 580047000649 homodimer interface [polypeptide binding]; other site 580047000650 active site 580047000651 Acyl transferase domain; Region: Acyl_transf_1; cl08282 580047000652 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 580047000653 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 580047000654 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 580047000655 dimer interface [polypeptide binding]; other site 580047000656 active site 580047000657 CoA binding pocket [chemical binding]; other site 580047000658 recombination protein RecR; Region: recR; TIGR00615 580047000659 RecR protein; Region: RecR; pfam02132 580047000660 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 580047000661 putative active site [active] 580047000662 putative metal-binding site [ion binding]; other site 580047000663 tetramer interface [polypeptide binding]; other site 580047000664 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 580047000665 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 580047000666 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 580047000667 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 580047000668 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 580047000669 Surface antigen; Region: Bac_surface_Ag; cl03097 580047000670 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 580047000671 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 580047000672 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 580047000673 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 580047000674 trimer interface [polypeptide binding]; other site 580047000675 active site 580047000676 UDP-GlcNAc binding site [chemical binding]; other site 580047000677 lipid binding site [chemical binding]; lipid-binding site 580047000678 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 580047000679 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 580047000680 tetramer interface [polypeptide binding]; other site 580047000681 TPP-binding site [chemical binding]; other site 580047000682 heterodimer interface [polypeptide binding]; other site 580047000683 phosphorylation loop region [posttranslational modification] 580047000684 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 580047000685 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 580047000686 alpha subunit interface [polypeptide binding]; other site 580047000687 TPP binding site [chemical binding]; other site 580047000688 heterodimer interface [polypeptide binding]; other site 580047000689 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 580047000690 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 580047000691 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 580047000692 E3 interaction surface; other site 580047000693 lipoyl attachment site [posttranslational modification]; other site 580047000694 e3 binding domain; Region: E3_binding; pfam02817 580047000695 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 580047000696 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 580047000697 homodimer interface [polypeptide binding]; other site 580047000698 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 580047000699 active site pocket [active] 580047000700 chromosomal replication initiation protein; Provisional; Region: PRK12422 580047000701 DnaA N-terminal domain; Region: DnaA_N; pfam11638 580047000702 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 580047000703 Walker A motif; other site 580047000704 ATP binding site [chemical binding]; other site 580047000705 Walker B motif; other site 580047000706 arginine finger; other site 580047000707 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 580047000708 DnaA box-binding interface [nucleotide binding]; other site 580047000709 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01001 580047000710 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 580047000711 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 580047000712 CAAX protease self-immunity; Region: Abi; cl00558 580047000713 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 580047000714 homodimer interface [polypeptide binding]; other site 580047000715 metal binding site [ion binding]; metal-binding site 580047000716 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 580047000717 Domain of unknown function DUF21; Region: DUF21; pfam01595 580047000718 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 580047000719 Transporter associated domain; Region: CorC_HlyC; cl08393 580047000720 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 580047000721 Domain of unknown function DUF21; Region: DUF21; pfam01595 580047000722 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 580047000723 Transporter associated domain; Region: CorC_HlyC; cl08393 580047000724 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 580047000725 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 580047000726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 580047000727 catalytic residue [active] 580047000728 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 580047000729 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 580047000730 active site 580047000731 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 580047000732 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 580047000733 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 580047000734 active site 580047000735 catalytic site [active] 580047000736 substrate binding site [chemical binding]; other site 580047000737 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 580047000738 NMT1-like family; Region: NMT1_2; cl15260 580047000739 nucleosidase; Provisional; Region: PRK05634 580047000740 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 580047000741 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 580047000742 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000743 Walker A/P-loop; other site 580047000744 ATP binding site [chemical binding]; other site 580047000745 Q-loop/lid; other site 580047000746 ABC transporter signature motif; other site 580047000747 Walker B; other site 580047000748 D-loop; other site 580047000749 H-loop/switch region; other site 580047000750 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 580047000751 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 580047000752 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 580047000753 IHF - DNA interface [nucleotide binding]; other site 580047000754 IHF dimer interface [polypeptide binding]; other site 580047000755 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 580047000756 active site 580047000757 metal binding site [ion binding]; metal-binding site 580047000758 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 580047000759 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 580047000760 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 580047000761 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 580047000762 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 580047000763 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 580047000764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 580047000765 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 580047000766 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047000767 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 580047000768 TPR motif; other site 580047000769 binding surface 580047000770 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 580047000771 DnaA N-terminal domain; Region: DnaA_N; pfam11638 580047000772 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 580047000773 Walker A motif; other site 580047000774 ATP binding site [chemical binding]; other site 580047000775 Walker B motif; other site 580047000776 arginine finger; other site 580047000777 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 580047000778 DnaA box-binding interface [nucleotide binding]; other site 580047000779 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 580047000780 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 580047000781 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 580047000782 FMN-binding domain; Region: FMN_bind; cl01081 580047000783 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 580047000784 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 580047000785 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 580047000786 lipoyl attachment site [posttranslational modification]; other site 580047000787 Chlamydial GcvH-like protein upstream region protein; Region: near_not_gcvH; TIGR03076 580047000788 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 580047000789 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000790 putative active site [active] 580047000791 catalytic site [active] 580047000792 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 580047000793 putative active site [active] 580047000794 catalytic site [active] 580047000795 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 580047000796 Clp protease ATP binding subunit; Region: clpC; CHL00095 580047000797 Clp amino terminal domain; Region: Clp_N; pfam02861 580047000798 Clp amino terminal domain; Region: Clp_N; pfam02861 580047000799 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 580047000800 Walker A motif; other site 580047000801 ATP binding site [chemical binding]; other site 580047000802 Walker B motif; other site 580047000803 arginine finger; other site 580047000804 UvrB/uvrC motif; Region: UVR; pfam02151 580047000805 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 580047000806 Walker A motif; other site 580047000807 ATP binding site [chemical binding]; other site 580047000808 Walker B motif; other site 580047000809 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 580047000810 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 580047000811 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 580047000812 Ligand Binding Site [chemical binding]; other site 580047000813 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 580047000814 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 580047000815 active site 580047000816 phosphorylation site [posttranslational modification] 580047000817 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 580047000818 active site 580047000819 phosphorylation site [posttranslational modification] 580047000820 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 580047000821 trimer interface [polypeptide binding]; other site 580047000822 active site 580047000823 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 580047000824 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 580047000825 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 580047000826 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 580047000827 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 580047000828 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 580047000829 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 580047000830 active site 580047000831 substrate binding site [chemical binding]; other site 580047000832 metal binding site [ion binding]; metal-binding site 580047000833 ribonuclease III; Reviewed; Region: rnc; PRK00102 580047000834 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 580047000835 dimerization interface [polypeptide binding]; other site 580047000836 active site 580047000837 metal binding site [ion binding]; metal-binding site 580047000838 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 580047000839 dsRNA binding site [nucleotide binding]; other site 580047000840 DNA repair protein RadA; Provisional; Region: PRK11823 580047000841 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 580047000842 Walker A motif/ATP binding site; other site 580047000843 ATP binding site [chemical binding]; other site 580047000844 Walker B motif; other site 580047000845 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 580047000846 porphobilinogen deaminase; Provisional; Region: PRK01066 580047000847 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 580047000848 domain interfaces; other site 580047000849 active site 580047000850 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 580047000851 Catalytic domain of Protein Kinases; Region: PKc; cd00180 580047000852 active site 580047000853 ATP binding site [chemical binding]; other site 580047000854 substrate binding site [chemical binding]; other site 580047000855 activation loop (A-loop); other site 580047000856 valyl-tRNA synthetase; Region: valS; TIGR00422 580047000857 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 580047000858 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 580047000859 V-type ATP synthase subunit K; Provisional; Region: PRK09621 580047000860 ATP synthase subunit C; Region: ATP-synt_C; cl00466 580047000861 V-type ATP synthase subunit I; Validated; Region: PRK05771 580047000862 Protein of unknown function (DUF1319); Region: DUF1319; pfam07028 580047000863 ATP synthase subunit D; Region: ATP-synt_D; cl00613 580047000864 V-type ATP synthase subunit B; Provisional; Region: PRK02118 580047000865 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 580047000866 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 580047000867 Walker A motif homologous position; other site 580047000868 Walker B motif; other site 580047000869 V-type ATP synthase subunit A; Provisional; Region: PRK04192 580047000870 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 580047000871 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 580047000872 Walker A motif/ATP binding site; other site 580047000873 Walker B motif; other site 580047000874 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 580047000875 Protein of unknown function (DUF2764); Region: DUF2764; pfam10962 580047000876 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 580047000877 transaldolase-like protein; Provisional; Region: PTZ00411 580047000878 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 580047000879 active site 580047000880 dimer interface [polypeptide binding]; other site 580047000881 catalytic residue [active] 580047000882 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 580047000883 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 580047000884 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 580047000885 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 580047000886 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 580047000887 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 580047000888 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 580047000889 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 580047000890 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 580047000891 DNA binding site [nucleotide binding] 580047000892 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 580047000893 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 580047000894 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 580047000895 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 580047000896 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 580047000897 RPB12 interaction site [polypeptide binding]; other site 580047000898 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 580047000899 RPB11 interaction site [polypeptide binding]; other site 580047000900 RPB12 interaction site [polypeptide binding]; other site 580047000901 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 580047000902 RPB3 interaction site [polypeptide binding]; other site 580047000903 RPB1 interaction site [polypeptide binding]; other site 580047000904 RPB11 interaction site [polypeptide binding]; other site 580047000905 RPB10 interaction site [polypeptide binding]; other site 580047000906 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 580047000907 L11 interface [polypeptide binding]; other site 580047000908 putative EF-Tu interaction site [polypeptide binding]; other site 580047000909 putative EF-G interaction site [polypeptide binding]; other site 580047000910 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 580047000911 23S rRNA interface [nucleotide binding]; other site 580047000912 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 580047000913 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 580047000914 mRNA/rRNA interface [nucleotide binding]; other site 580047000915 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 580047000916 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 580047000917 putative thiostrepton binding site; other site 580047000918 23S rRNA interface [nucleotide binding]; other site 580047000919 L7/L12 interface [polypeptide binding]; other site 580047000920 L25 interface [polypeptide binding]; other site 580047000921 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 580047000922 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 580047000923 putative homodimer interface [polypeptide binding]; other site 580047000924 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 580047000925 elongation factor Tu; Reviewed; Region: PRK12735 580047000926 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 580047000927 G1 box; other site 580047000928 GEF interaction site [polypeptide binding]; other site 580047000929 GTP/Mg2+ binding site [chemical binding]; other site 580047000930 Switch I region; other site 580047000931 G2 box; other site 580047000932 G3 box; other site 580047000933 Switch II region; other site 580047000934 G4 box; other site 580047000935 G5 box; other site 580047000936 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 580047000937 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 580047000938 Antibiotic Binding Site [chemical binding]; other site 580047000939 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 580047000940 rRNA binding site [nucleotide binding]; other site 580047000941 predicted 30S ribosome binding site; other site 580047000942 Fe-S metabolism associated domain; Region: SufE; cl00951 580047000944 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 580047000945 active site 580047000946 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 580047000947 substrate binding site [chemical binding]; other site 580047000948 dimer interface [polypeptide binding]; other site 580047000949 catalytic triad [active] 580047000950 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 580047000951 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 580047000952 generic binding surface II; other site 580047000953 generic binding surface I; other site 580047000954 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 580047000955 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 580047000956 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 580047000957 TPP-binding site; other site 580047000958 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 580047000959 PYR/PP interface [polypeptide binding]; other site 580047000960 dimer interface [polypeptide binding]; other site 580047000961 TPP binding site [chemical binding]; other site 580047000962 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 580047000963 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 580047000964 pyruvate kinase; Region: pyruv_kin; TIGR01064 580047000965 domain interfaces; other site 580047000966 active site 580047000967 excinuclease ABC subunit A; Provisional; Region: PRK00635 580047000968 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 580047000969 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 580047000970 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 580047000971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000972 Walker A/P-loop; other site 580047000973 ATP binding site [chemical binding]; other site 580047000974 Q-loop/lid; other site 580047000975 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000976 ABC transporter signature motif; other site 580047000977 Walker B; other site 580047000978 D-loop; other site 580047000979 H-loop/switch region; other site 580047000980 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000981 Walker A/P-loop; other site 580047000982 ATP binding site [chemical binding]; other site 580047000983 Q-loop/lid; other site 580047000984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047000985 Q-loop/lid; other site 580047000986 ABC transporter signature motif; other site 580047000987 Walker B; other site 580047000988 D-loop; other site 580047000989 H-loop/switch region; other site 580047000990 DNA polymerase III subunits gamma and tau; Validated; Region: PRK06305 580047000991 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 580047000992 Walker A motif; other site 580047000993 ATP binding site [chemical binding]; other site 580047000994 Walker B motif; other site 580047000995 arginine finger; other site 580047000996 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 580047000997 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 580047000998 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 580047000999 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 580047001000 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 580047001001 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 580047001002 dimerization domain swap beta strand [polypeptide binding]; other site 580047001003 regulatory protein interface [polypeptide binding]; other site 580047001004 active site 580047001005 regulatory phosphorylation site [posttranslational modification]; other site 580047001006 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 580047001007 Competence protein; Region: Competence; cl00471 580047001008 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 580047001009 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 580047001010 tetramer interface [polypeptide binding]; other site 580047001011 TPP-binding site [chemical binding]; other site 580047001012 heterodimer interface [polypeptide binding]; other site 580047001013 phosphorylation loop region [posttranslational modification] 580047001014 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 580047001015 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 580047001016 alpha subunit interface [polypeptide binding]; other site 580047001017 TPP binding site [chemical binding]; other site 580047001018 heterodimer interface [polypeptide binding]; other site 580047001019 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 580047001020 chaperone protein DnaJ; Provisional; Region: PRK14284 580047001021 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 580047001022 HSP70 interaction site [polypeptide binding]; other site 580047001023 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 580047001024 Zn binding sites [ion binding]; other site 580047001025 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 580047001026 dimer interface [polypeptide binding]; other site 580047001027 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 580047001028 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 580047001029 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 580047001030 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 580047001031 Walker A motif; other site 580047001032 ATP binding site [chemical binding]; other site 580047001033 Walker B motif; other site 580047001034 arginine finger; other site 580047001035 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 580047001036 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 580047001037 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 580047001038 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 580047001039 active site 580047001040 Int/Topo IB signature motif; other site 580047001041 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 580047001042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047001043 Walker A/P-loop; other site 580047001044 ATP binding site [chemical binding]; other site 580047001045 Q-loop/lid; other site 580047001046 ABC transporter signature motif; other site 580047001047 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 580047001048 ABC transporter; Region: ABC_tran_2; pfam12848 580047001049 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 580047001050 Maf-like protein; Region: Maf; pfam02545 580047001051 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 580047001052 active site 580047001053 dimer interface [polypeptide binding]; other site 580047001054 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 580047001055 Preprotein translocase SecG subunit; Region: SecG; cl09123 580047001056 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 580047001057 active site 580047001058 catalytic residues [active] 580047001059 metal binding site [ion binding]; metal-binding site 580047001060 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047001061 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 580047001062 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 580047001063 catalytic residues [active] 580047001064 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 580047001065 dihydrodipicolinate synthase; Region: dapA; TIGR00674 580047001066 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 580047001067 inhibitor site; inhibition site 580047001068 active site 580047001069 dimer interface [polypeptide binding]; other site 580047001070 catalytic residue [active] 580047001071 aspartate kinase; Provisional; Region: PRK05925 580047001072 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 580047001073 putative catalytic residues [active] 580047001074 nucleotide binding site [chemical binding]; other site 580047001075 aspartate binding site [chemical binding]; other site 580047001076 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK08664 580047001077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001078 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 580047001079 dihydrodipicolinate reductase; Provisional; Region: PRK00048 580047001080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001081 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 580047001082 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 580047001083 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 580047001084 hinge; other site 580047001085 active site 580047001086 shikimate kinase; Provisional; Region: PRK00625 580047001087 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 580047001088 ADP binding site [chemical binding]; other site 580047001089 magnesium binding site [ion binding]; other site 580047001090 putative shikimate binding site; other site 580047001091 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 580047001092 Tetramer interface [polypeptide binding]; other site 580047001093 active site 580047001094 FMN-binding site [chemical binding]; other site 580047001095 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 580047001096 active site 580047001097 dimer interface [polypeptide binding]; other site 580047001098 metal binding site [ion binding]; metal-binding site 580047001099 bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase protein; Reviewed; Region: aroDE; PRK09310 580047001100 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 580047001101 active site 580047001102 catalytic residue [active] 580047001103 dimer interface [polypeptide binding]; other site 580047001104 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 580047001105 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 580047001106 shikimate binding site; other site 580047001107 NAD(P) binding site [chemical binding]; other site 580047001108 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 580047001109 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 580047001110 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 580047001111 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 580047001113 FAD dependent oxidoreductase; Region: DAO; pfam01266 580047001114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001115 malate dehydrogenase; Provisional; Region: PRK05442 580047001116 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 580047001117 NAD(P) binding site [chemical binding]; other site 580047001118 dimer interface [polypeptide binding]; other site 580047001119 malate binding site [chemical binding]; other site 580047001120 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14095 580047001121 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 580047001122 active site 580047001123 dimer interface [polypeptide binding]; other site 580047001124 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 580047001125 dimer interface [polypeptide binding]; other site 580047001126 active site 580047001127 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 580047001128 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 580047001129 HflX GTPase family; Region: HflX; cd01878 580047001130 G1 box; other site 580047001131 GTP/Mg2+ binding site [chemical binding]; other site 580047001132 Switch I region; other site 580047001133 G2 box; other site 580047001134 G3 box; other site 580047001135 Switch II region; other site 580047001136 G4 box; other site 580047001137 G5 box; other site 580047001138 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 580047001139 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 580047001140 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 580047001141 substrate binding pocket [chemical binding]; other site 580047001142 membrane-bound complex binding site; other site 580047001143 hinge residues; other site 580047001144 NeuB family; Region: NeuB; cl00496 580047001145 HEAT repeats; Region: HEAT_2; pfam13646 580047001146 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 580047001147 nucleotide binding site/active site [active] 580047001148 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 580047001149 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 580047001150 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 580047001151 Protein of unknown function (DUF1207); Region: DUF1207; pfam06727 580047001152 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 580047001153 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 580047001154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 580047001155 homodimer interface [polypeptide binding]; other site 580047001156 catalytic residue [active] 580047001157 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 580047001158 prolyl-tRNA synthetase; Provisional; Region: PRK09194 580047001159 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 580047001160 dimer interface [polypeptide binding]; other site 580047001161 motif 1; other site 580047001162 active site 580047001163 motif 2; other site 580047001164 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 580047001165 putative deacylase active site [active] 580047001166 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 580047001167 active site 580047001168 motif 3; other site 580047001169 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 580047001170 anticodon binding site; other site 580047001171 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 580047001172 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 580047001173 dimer interface [polypeptide binding]; other site 580047001174 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 580047001175 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 580047001176 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 580047001177 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 580047001178 Exoribonuclease R [Transcription]; Region: VacB; COG0557 580047001179 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 580047001180 RNB domain; Region: RNB; pfam00773 580047001181 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 580047001182 Putative zinc ribbon domain; Region: DUF164; pfam02591 580047001183 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 580047001184 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 580047001185 putative active site [active] 580047001186 FOG: CBS domain [General function prediction only]; Region: COG0517 580047001187 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 580047001188 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 580047001189 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 580047001190 E3 interaction surface; other site 580047001191 lipoyl attachment site [posttranslational modification]; other site 580047001192 e3 binding domain; Region: E3_binding; pfam02817 580047001193 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 580047001194 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 580047001195 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 580047001196 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 580047001197 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 580047001198 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 580047001199 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 580047001200 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 580047001201 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 580047001202 S-adenosylmethionine binding site [chemical binding]; other site 580047001203 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 580047001204 Lumazine binding domain; Region: Lum_binding; pfam00677 580047001205 Lumazine binding domain; Region: Lum_binding; pfam00677 580047001206 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 580047001207 ATP cone domain; Region: ATP-cone; pfam03477 580047001208 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 580047001209 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 580047001210 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 580047001211 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 580047001212 poly(A) polymerase; Region: pcnB; TIGR01942 580047001213 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 580047001214 active site 580047001215 NTP binding site [chemical binding]; other site 580047001216 metal binding triad [ion binding]; metal-binding site 580047001217 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 580047001218 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK01021 580047001219 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 580047001220 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 580047001221 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 580047001222 adhesin; Provisional; Region: PRK09752 580047001223 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047001224 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047001225 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047001226 adhesin; Provisional; Region: PRK09752 580047001227 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047001228 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047001229 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047001230 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047001231 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047001232 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 580047001233 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 580047001234 intersubunit interface [polypeptide binding]; other site 580047001235 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 580047001236 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 580047001237 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 580047001238 ABC-ATPase subunit interface; other site 580047001239 dimer interface [polypeptide binding]; other site 580047001240 putative PBP binding regions; other site 580047001241 GTPase CgtA; Reviewed; Region: obgE; PRK12299 580047001242 GTP1/OBG; Region: GTP1_OBG; pfam01018 580047001243 Obg GTPase; Region: Obg; cd01898 580047001244 G1 box; other site 580047001245 GTP/Mg2+ binding site [chemical binding]; other site 580047001246 Switch I region; other site 580047001247 G2 box; other site 580047001248 G3 box; other site 580047001249 Switch II region; other site 580047001250 G4 box; other site 580047001251 G5 box; other site 580047001252 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 580047001253 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 580047001254 Protein of unknown function (DUF502); Region: DUF502; cl01107 580047001255 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 580047001256 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 580047001257 FOG: CBS domain [General function prediction only]; Region: COG0517 580047001258 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 580047001259 Transporter associated domain; Region: CorC_HlyC; cl08393 580047001260 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 580047001261 anti sigma factor interaction site; other site 580047001262 regulatory phosphorylation site [posttranslational modification]; other site 580047001263 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 580047001264 hypothetical protein; Provisional; Region: PRK05926 580047001265 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 580047001266 FeS/SAM binding site; other site 580047001267 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 580047001268 NMT1-like family; Region: NMT1_2; cl15260 580047001269 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 580047001270 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 580047001271 S-adenosylmethionine binding site [chemical binding]; other site 580047001272 Uncharacterized protein family (UPF0158); Region: UPF0158; pfam03682 580047001273 diaminopimelate epimerase; Region: DapF; TIGR00652 580047001274 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 580047001275 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 580047001276 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 580047001277 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 580047001278 oligomer interface [polypeptide binding]; other site 580047001279 active site residues [active] 580047001280 serine hydroxymethyltransferase; Provisional; Region: PRK13580 580047001281 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 580047001282 dimer interface [polypeptide binding]; other site 580047001283 active site 580047001284 glycine-pyridoxal phosphate binding site [chemical binding]; other site 580047001285 folate binding site [chemical binding]; other site 580047001286 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 580047001287 active site 580047001288 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 580047001289 homotrimer interaction site [polypeptide binding]; other site 580047001290 zinc binding site [ion binding]; other site 580047001291 CDP-binding sites; other site 580047001292 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 580047001293 FAD binding pocket [chemical binding]; other site 580047001294 conserved FAD binding motif [chemical binding]; other site 580047001295 phosphate binding motif [ion binding]; other site 580047001296 beta-alpha-beta structure motif; other site 580047001297 NAD binding pocket [chemical binding]; other site 580047001298 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 580047001299 elongation factor G; Reviewed; Region: PRK12739 580047001300 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 580047001301 G1 box; other site 580047001302 putative GEF interaction site [polypeptide binding]; other site 580047001303 GTP/Mg2+ binding site [chemical binding]; other site 580047001304 Switch I region; other site 580047001305 G2 box; other site 580047001306 G3 box; other site 580047001307 Switch II region; other site 580047001308 G4 box; other site 580047001309 G5 box; other site 580047001310 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 580047001311 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 580047001312 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 580047001313 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 580047001314 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 580047001315 S17 interaction site [polypeptide binding]; other site 580047001316 S8 interaction site; other site 580047001317 16S rRNA interaction site [nucleotide binding]; other site 580047001318 streptomycin interaction site [chemical binding]; other site 580047001319 23S rRNA interaction site [nucleotide binding]; other site 580047001320 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 580047001321 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 580047001322 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 580047001323 protein binding site [polypeptide binding]; other site 580047001324 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 580047001325 Catalytic dyad [active] 580047001326 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 580047001327 Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); Region: CRPA; pfam05745 580047001328 Chlamydia cysteine-rich outer membrane protein 6; Region: Chlam_OMP6; pfam03504 580047001329 Fibronectin type III-like domain; Region: Fn3-like; cl15273 580047001330 Fibronectin type III-like domain; Region: Fn3-like; cl15273 580047001331 Chlamydia cysteine-rich outer membrane protein 3; Region: Chlam_OMP3; pfam03503 580047001332 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 580047001333 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 580047001334 HIGH motif; other site 580047001335 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 580047001336 active site 580047001337 KMSKS motif; other site 580047001338 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 580047001339 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 580047001340 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 580047001341 DHH family; Region: DHH; pfam01368 580047001342 DHHA1 domain; Region: DHHA1; pfam02272 580047001343 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK12911 580047001344 Protein export membrane protein; Region: SecD_SecF; cl14618 580047001345 Protein export membrane protein; Region: SecD_SecF; cl14618 580047001346 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 580047001347 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 580047001348 catalytic residue [active] 580047001349 putative FPP diphosphate binding site; other site 580047001350 putative FPP binding hydrophobic cleft; other site 580047001351 dimer interface [polypeptide binding]; other site 580047001352 putative IPP diphosphate binding site; other site 580047001353 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 580047001354 cytidylate kinase; Provisional; Region: cmk; PRK00023 580047001355 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 580047001356 CMP-binding site; other site 580047001357 The sites determining sugar specificity; other site 580047001358 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 580047001359 putative acyl-acceptor binding pocket; other site 580047001360 arginine-tRNA ligase; Region: PLN02286 580047001361 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 580047001362 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 580047001363 active site 580047001364 HIGH motif; other site 580047001365 KMSK motif region; other site 580047001366 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 580047001367 tRNA binding surface [nucleotide binding]; other site 580047001368 anticodon binding site; other site 580047001369 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 580047001370 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 580047001371 hinge; other site 580047001372 active site 580047001373 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 580047001374 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 580047001375 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 580047001376 Domain of Unknown Function (DUF1547); Region: DUF1547; pfam07577 580047001377 Transcriptional regulator; Region: Transcrip_reg; cl00361 580047001378 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 580047001379 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 580047001380 peptide chain release factor 2; Validated; Region: prfB; PRK00578 580047001381 RF-1 domain; Region: RF-1; cl02875 580047001382 RF-1 domain; Region: RF-1; cl02875 580047001383 SWIB/MDM2 domain; Region: SWIB; cl02489 580047001384 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 580047001385 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 580047001386 putative active site [active] 580047001387 putative metal binding site [ion binding]; other site 580047001388 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 580047001389 substrate binding site; other site 580047001390 dimer interface; other site 580047001391 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 580047001392 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 580047001393 dimerization interface 3.5A [polypeptide binding]; other site 580047001394 active site 580047001395 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 580047001396 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 580047001397 active site 580047001398 motif I; other site 580047001399 motif II; other site 580047001400 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 580047001401 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 580047001402 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 580047001403 dimer interface [polypeptide binding]; other site 580047001404 phosphorylation site [posttranslational modification] 580047001405 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 580047001406 ATP binding site [chemical binding]; other site 580047001407 Mg2+ binding site [ion binding]; other site 580047001408 G-X-G motif; other site 580047001409 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 580047001410 active site 580047001411 phosphorylation site [posttranslational modification] 580047001412 intermolecular recognition site; other site 580047001413 dimerization interface [polypeptide binding]; other site 580047001414 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 580047001415 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 580047001416 Walker A motif; other site 580047001417 ATP binding site [chemical binding]; other site 580047001418 Walker B motif; other site 580047001419 arginine finger; other site 580047001420 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 580047001421 Recombination protein O N terminal; Region: RecO_N; cl15812 580047001422 Recombination protein O C terminal; Region: RecO_C; pfam02565 580047001423 Uncharacterized ACR, YagE family COG1723; Region: DUF155; cl00751 580047001424 Haemolytic domain; Region: Haemolytic; cl00506 580047001425 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 580047001426 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 580047001427 putative tRNA-binding site [nucleotide binding]; other site 580047001428 B3/4 domain; Region: B3_4; cl11458 580047001429 tRNA synthetase B5 domain; Region: B5; cl08394 580047001430 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 580047001431 dimer interface [polypeptide binding]; other site 580047001432 motif 1; other site 580047001433 motif 3; other site 580047001434 motif 2; other site 580047001435 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 580047001436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 580047001437 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 580047001438 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 580047001439 DNA binding site [nucleotide binding] 580047001440 active site 580047001441 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 580047001442 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 580047001443 dimer interface [polypeptide binding]; other site 580047001444 conserved gate region; other site 580047001445 putative PBP binding loops; other site 580047001446 ABC-ATPase subunit interface; other site 580047001447 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 580047001448 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 580047001449 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 580047001450 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 580047001451 putative active site [active] 580047001452 putative metal binding site [ion binding]; other site 580047001453 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 580047001454 TPR motif; other site 580047001455 binding surface 580047001456 ferrochelatase; Reviewed; Region: hemH; PRK00035 580047001457 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 580047001458 C-terminal domain interface [polypeptide binding]; other site 580047001459 active site 580047001460 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 580047001461 active site 580047001462 N-terminal domain interface [polypeptide binding]; other site 580047001463 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 580047001464 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 580047001465 substrate binding pocket [chemical binding]; other site 580047001466 membrane-bound complex binding site; other site 580047001467 hinge residues; other site 580047001468 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 580047001469 S-adenosylmethionine binding site [chemical binding]; other site 580047001470 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 580047001471 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 580047001472 active site 580047001473 metal binding site [ion binding]; metal-binding site 580047001474 glucose-1-phosphate adenylyltransferase; Region: glgC; TIGR02091 580047001475 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 580047001476 ligand binding site; other site 580047001477 oligomer interface; other site 580047001478 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 580047001479 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 580047001480 N-terminal domain interface [polypeptide binding]; other site 580047001481 sulfate 1 binding site; other site 580047001482 transcription termination factor Rho; Region: rho; TIGR00767 580047001483 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 580047001484 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 580047001485 RNA binding site [nucleotide binding]; other site 580047001486 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 580047001487 multimer interface [polypeptide binding]; other site 580047001488 Walker A motif; other site 580047001489 ATP binding site [chemical binding]; other site 580047001490 Walker B motif; other site 580047001491 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 580047001492 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 580047001493 CoA-binding site [chemical binding]; other site 580047001494 ATP-binding [chemical binding]; other site 580047001495 DNA polymerase I; Provisional; Region: PRK05755 580047001496 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 580047001497 active site 580047001498 metal binding site 1 [ion binding]; metal-binding site 580047001499 putative 5' ssDNA interaction site; other site 580047001500 metal binding site 3; metal-binding site 580047001501 metal binding site 2 [ion binding]; metal-binding site 580047001502 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 580047001503 putative DNA binding site [nucleotide binding]; other site 580047001504 putative metal binding site [ion binding]; other site 580047001505 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 580047001506 active site 580047001507 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 580047001508 active site 580047001509 DNA binding site [nucleotide binding] 580047001510 catalytic site [active] 580047001511 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 580047001512 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 580047001513 tandem repeat interface [polypeptide binding]; other site 580047001514 oligomer interface [polypeptide binding]; other site 580047001515 active site residues [active] 580047001516 TLC ATP/ADP transporter; Region: TLC; pfam03219 580047001517 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 580047001518 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 580047001519 replicative DNA helicase; Provisional; Region: PRK06321 580047001520 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 580047001521 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 580047001522 Walker A motif; other site 580047001523 ATP binding site [chemical binding]; other site 580047001524 Walker B motif; other site 580047001525 DNA binding loops [nucleotide binding] 580047001526 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 580047001527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001529 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 580047001530 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 580047001531 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 580047001532 active site 580047001533 multimer interface [polypeptide binding]; other site 580047001534 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 580047001535 RuvA N terminal domain; Region: RuvA_N; pfam01330 580047001536 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 580047001537 active site 580047001538 putative DNA-binding cleft [nucleotide binding]; other site 580047001539 dimer interface [polypeptide binding]; other site 580047001540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001541 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 580047001542 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 580047001543 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 580047001544 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 580047001545 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 580047001546 alphaNTD - beta interaction site [polypeptide binding]; other site 580047001547 alphaNTD homodimer interface [polypeptide binding]; other site 580047001548 alphaNTD - beta' interaction site [polypeptide binding]; other site 580047001549 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 580047001550 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 580047001551 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 580047001552 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 580047001553 SecY translocase; Region: SecY; pfam00344 580047001554 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 580047001555 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 580047001556 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 580047001557 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 580047001558 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 580047001559 5S rRNA interface [nucleotide binding]; other site 580047001560 23S rRNA interface [nucleotide binding]; other site 580047001561 L5 interface [polypeptide binding]; other site 580047001562 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 580047001563 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 580047001564 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 580047001565 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 580047001566 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 580047001567 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 580047001568 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 580047001569 Ribosomal protein L24 [Translation, ribosomal structure and biogenesis]; Region: RplX; COG0198 580047001570 KOW motif; Region: KOW; cl00354 580047001571 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 580047001572 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 580047001573 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 580047001574 23S rRNA interface [nucleotide binding]; other site 580047001575 putative translocon interaction site; other site 580047001576 signal recognition particle (SRP54) interaction site; other site 580047001577 L23 interface [polypeptide binding]; other site 580047001578 trigger factor interaction site; other site 580047001579 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 580047001580 23S rRNA interface [nucleotide binding]; other site 580047001581 5S rRNA interface [nucleotide binding]; other site 580047001582 putative antibiotic binding site [chemical binding]; other site 580047001583 L25 interface [polypeptide binding]; other site 580047001584 L27 interface [polypeptide binding]; other site 580047001585 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 580047001586 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 580047001587 G-X-X-G motif; other site 580047001588 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 580047001589 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 580047001590 putative translocon binding site; other site 580047001591 protein-rRNA interface [nucleotide binding]; other site 580047001592 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 580047001593 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 580047001594 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 580047001595 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 580047001596 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 580047001597 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 580047001598 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 580047001599 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 580047001600 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 580047001601 putative active site [active] 580047001602 substrate binding site [chemical binding]; other site 580047001603 putative cosubstrate binding site; other site 580047001604 catalytic site [active] 580047001605 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 580047001606 substrate binding site [chemical binding]; other site 580047001607 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 580047001608 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 580047001609 active site 580047001610 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 580047001611 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 580047001612 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 580047001613 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 580047001614 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 580047001615 putative active site [active] 580047001616 catalytic triad [active] 580047001617 putative dimer interface [polypeptide binding]; other site 580047001618 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 580047001619 DNA polymerase III subunit epsilon; Validated; Region: PRK06310 580047001620 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 580047001621 active site 580047001622 catalytic site [active] 580047001623 substrate binding site [chemical binding]; other site 580047001624 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 580047001625 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 580047001626 Protein of unknown function (DUF2709); Region: DUF2709; pfam10915 580047001627 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 580047001628 catalytic residues [active] 580047001629 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 580047001630 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 580047001631 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 580047001632 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 580047001633 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 580047001634 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 580047001635 dimer interface [polypeptide binding]; other site 580047001636 anticodon binding site; other site 580047001637 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 580047001638 homodimer interface [polypeptide binding]; other site 580047001639 motif 1; other site 580047001640 active site 580047001641 motif 2; other site 580047001642 GAD domain; Region: GAD; pfam02938 580047001643 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 580047001644 active site 580047001645 motif 3; other site 580047001646 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 580047001647 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 580047001648 dimer interface [polypeptide binding]; other site 580047001649 motif 1; other site 580047001650 active site 580047001651 motif 2; other site 580047001652 motif 3; other site 580047001653 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 580047001654 anticodon binding site; other site 580047001655 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 580047001656 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 580047001657 putative substrate translocation pore; other site 580047001658 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 580047001659 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 580047001660 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 580047001661 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 580047001662 generic binding surface I; other site 580047001663 generic binding surface II; other site 580047001664 TPR repeat; Region: TPR_11; pfam13414 580047001665 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 580047001666 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 580047001667 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 580047001668 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 580047001669 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 580047001670 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 580047001671 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047001672 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 580047001673 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 580047001674 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 580047001675 ATP binding site [chemical binding]; other site 580047001676 putative Mg++ binding site [ion binding]; other site 580047001677 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 580047001678 nucleotide binding region [chemical binding]; other site 580047001679 ATP-binding site [chemical binding]; other site 580047001680 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 580047001681 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 580047001682 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 580047001683 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 580047001684 lipoate synthase; Region: lipA; TIGR00510 580047001685 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 580047001686 FeS/SAM binding site; other site 580047001687 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 580047001688 type III secretion system protein; Validated; Region: PRK06328 580047001689 Flagellar assembly protein FliH; Region: FliH; pfam02108 580047001690 FliP family; Region: FliP; cl00593 580047001691 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 580047001692 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 580047001693 Protein of unknown function (DUF1494); Region: DUF1494; pfam07379 580047001694 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 580047001695 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 580047001696 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 580047001697 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 580047001698 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 580047001699 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 580047001700 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 580047001701 Walker A motif; other site 580047001702 ATP binding site [chemical binding]; other site 580047001703 Walker B motif; other site 580047001704 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 580047001705 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 580047001706 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 580047001707 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 580047001708 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 580047001709 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 580047001710 active site 580047001711 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 580047001712 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 580047001713 ATP binding site [chemical binding]; other site 580047001714 Mg2+ binding site [ion binding]; other site 580047001715 G-X-G motif; other site 580047001716 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 580047001717 ATP binding site [chemical binding]; other site 580047001718 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 580047001719 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 580047001720 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 580047001721 binding surface 580047001722 TPR motif; other site 580047001723 EamA-like transporter family; Region: EamA; cl01037 580047001724 EamA-like transporter family; Region: EamA; cl01037 580047001725 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 580047001726 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 580047001727 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 580047001728 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 580047001729 active site 580047001730 dimer interface [polypeptide binding]; other site 580047001731 motif 1; other site 580047001732 motif 2; other site 580047001733 motif 3; other site 580047001734 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 580047001735 anticodon binding site; other site 580047001736 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 580047001737 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047001738 Uncharacterized protein family (UPF0137); Region: UPF0137; pfam03677 580047001739 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 580047001740 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 580047001741 active site 580047001742 HIGH motif; other site 580047001743 dimer interface [polypeptide binding]; other site 580047001744 KMSKS motif; other site 580047001745 excinuclease ABC subunit B; Provisional; Region: PRK05298 580047001746 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 580047001747 ATP binding site [chemical binding]; other site 580047001748 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 580047001749 nucleotide binding region [chemical binding]; other site 580047001750 ATP-binding site [chemical binding]; other site 580047001751 Ultra-violet resistance protein B; Region: UvrB; pfam12344 580047001752 enolase; Provisional; Region: eno; PRK00077 580047001753 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 580047001754 dimer interface [polypeptide binding]; other site 580047001755 metal binding site [ion binding]; metal-binding site 580047001756 substrate binding pocket [chemical binding]; other site 580047001757 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 580047001758 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 580047001759 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 580047001760 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 580047001761 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 580047001762 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 580047001764 this CDS carries multiple frameshift mutations. The sequence has been checked and is believed to be correct. 580047001765 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 580047001766 active site 580047001767 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 580047001768 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 580047001769 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 580047001770 DsbD alpha interface [polypeptide binding]; other site 580047001771 catalytic residues [active] 580047001772 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 580047001773 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 580047001774 translocation protein TolB; Provisional; Region: tolB; PRK01029 580047001775 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 580047001776 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 580047001777 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 580047001778 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 580047001779 ligand binding site [chemical binding]; other site 580047001780 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 580047001781 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 580047001782 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 580047001783 dimer interface [polypeptide binding]; other site 580047001784 decamer (pentamer of dimers) interface [polypeptide binding]; other site 580047001785 catalytic triad [active] 580047001786 peroxidatic and resolving cysteines [active] 580047001787 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 580047001788 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 580047001789 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 580047001790 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 580047001791 active site 580047001792 dimerization interface [polypeptide binding]; other site 580047001793 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 580047001794 ligand binding site [chemical binding]; other site 580047001795 active site 580047001796 UGI interface [polypeptide binding]; other site 580047001797 catalytic site [active] 580047001798 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 580047001799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047001800 Family description; Region: UvrD_C_2; cl15862 580047001801 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 580047001802 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 580047001803 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 580047001804 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 580047001805 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 580047001806 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 580047001807 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 580047001808 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 580047001809 folate binding site [chemical binding]; other site 580047001810 NADP+ binding site [chemical binding]; other site 580047001811 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 580047001812 catalytic center binding site [active] 580047001813 ATP binding site [chemical binding]; other site 580047001814 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 580047001815 dihydropteroate synthase; Region: DHPS; TIGR01496 580047001816 substrate binding pocket [chemical binding]; other site 580047001817 dimer interface [polypeptide binding]; other site 580047001818 inhibitor binding site; inhibition site 580047001819 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 580047001820 homooctamer interface [polypeptide binding]; other site 580047001821 active site 580047001822 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 580047001823 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 580047001824 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 580047001825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 580047001826 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 580047001827 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 580047001828 DNA binding residues [nucleotide binding] 580047001829 Uncharacterized protein family (UPF0242); Region: UPF0242; pfam06785 580047001830 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 580047001831 Effector from type III secretion system; Region: Effector_1; pfam04518 580047001832 Effector from type III secretion system; Region: Effector_1; pfam04518 580047001833 Sporulation Regulator WhiA C terminal domain; Region: HTH_WhiA; pfam02650 580047001834 Effector from type III secretion system; Region: Effector_1; pfam04518 580047001835 rod shape-determining protein MreC; Provisional; Region: PRK13922 580047001836 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 580047001837 MviN-like protein; Region: MVIN; pfam03023 580047001838 endonuclease IV; Provisional; Region: PRK01060 580047001839 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 580047001840 AP (apurinic/apyrimidinic) site pocket; other site 580047001841 DNA interaction; other site 580047001842 Metal-binding active site; metal-binding site 580047001843 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 580047001844 ribosomal protein S4, bacterial/organelle type; Region: rpsD_bact; TIGR01017 580047001845 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 580047001846 RNA binding surface [nucleotide binding]; other site 580047001847 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 580047001848 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 580047001849 active site residue [active] 580047001850 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 580047001851 substrate binding pocket [chemical binding]; other site 580047001852 chain length determination region; other site 580047001853 substrate-Mg2+ binding site; other site 580047001854 catalytic residues [active] 580047001855 aspartate-rich region 1; other site 580047001856 active site lid residues [active] 580047001857 aspartate-rich region 2; other site 580047001858 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 580047001859 putative trimer interface [polypeptide binding]; other site 580047001860 putative CoA binding site [chemical binding]; other site 580047001861 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 580047001862 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 580047001863 DNA binding site [nucleotide binding] 580047001864 Thymidylate synthase complementing protein; Region: Thy1; cl03630 580047001865 Thymidylate synthase complementing protein; Region: Thy1; cl03630 580047001866 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 580047001867 dimer interface [polypeptide binding]; other site 580047001868 active site 580047001869 aspartate-rich active site metal binding site; other site 580047001870 allosteric magnesium binding site [ion binding]; other site 580047001871 Schiff base residues; other site 580047001872 NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit; Region: nqrA; TIGR01936 580047001873 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 580047001874 transcript cleavage factor/unknown domain fusion protein; Validated; Region: PRK06330 580047001875 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 580047001876 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 580047001877 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 580047001878 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 580047001879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 580047001880 homodimer interface [polypeptide binding]; other site 580047001881 catalytic residue [active] 580047001882 rod shape-determining protein MreC; Provisional; Region: PRK14872 580047001883 rod shape-determining protein MreC; Region: MreC; pfam04085 580047001884 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 580047001885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047001886 Family description; Region: UvrD_C_2; cl15862 580047001887 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 580047001888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 580047001889 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 580047001890 putative substrate translocation pore; other site 580047001891 DNA topoisomerase I/SWI domain fusion protein; Validated; Region: PRK06319 580047001892 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 580047001893 active site 580047001894 interdomain interaction site; other site 580047001895 putative metal-binding site [ion binding]; other site 580047001896 nucleotide binding site [chemical binding]; other site 580047001897 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 580047001898 domain I; other site 580047001899 DNA binding groove [nucleotide binding] 580047001900 phosphate binding site [ion binding]; other site 580047001901 domain II; other site 580047001902 domain III; other site 580047001903 nucleotide binding site [chemical binding]; other site 580047001904 catalytic site [active] 580047001905 domain IV; other site 580047001906 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 580047001907 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 580047001908 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 580047001909 SWIB/MDM2 domain; Region: SWIB; cl02489 580047001910 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 580047001911 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 580047001912 FMN binding site [chemical binding]; other site 580047001913 active site 580047001914 catalytic residues [active] 580047001915 substrate binding site [chemical binding]; other site 580047001916 YGGT family; Region: YGGT; cl00508 580047001917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 580047001918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 580047001919 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 580047001920 recombinase A; Provisional; Region: recA; PRK09354 580047001921 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 580047001922 hexamer interface [polypeptide binding]; other site 580047001923 Walker A motif; other site 580047001924 ATP binding site [chemical binding]; other site 580047001925 Walker B motif; other site 580047001926 Protein of unknown function (DUF1347); Region: DUF1347; pfam07079 580047001927 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 580047001928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047001929 Family description; Region: UvrD_C_2; cl15862 580047001930 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 580047001931 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 580047001932 Walker A/P-loop; other site 580047001933 ATP binding site [chemical binding]; other site 580047001934 Q-loop/lid; other site 580047001935 ABC transporter signature motif; other site 580047001936 Walker B; other site 580047001937 D-loop; other site 580047001938 H-loop/switch region; other site 580047001939 Protein of unknown function (DUF1137); Region: DUF1137; pfam06587 580047001940 NeuB family; Region: NeuB; cl00496 580047001941 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 580047001942 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 580047001943 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 580047001944 RNA binding surface [nucleotide binding]; other site 580047001945 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 580047001946 active site 580047001947 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 580047001948 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 580047001949 DNA Topoisomerase IV; Region: TOP4c; smart00434 580047001950 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 580047001951 CAP-like domain; other site 580047001952 active site 580047001953 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 580047001954 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 580047001955 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 580047001956 anchoring element; other site 580047001957 dimer interface [polypeptide binding]; other site 580047001958 ATP binding site [chemical binding]; other site 580047001959 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 580047001960 active site 580047001961 putative metal-binding site [ion binding]; other site 580047001962 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 580047001963 glutamyl-tRNA reductase; Validated; Region: hemA; PRK00676 580047001964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047001965 NAD(P) binding pocket [chemical binding]; other site 580047001966 Tir chaperone protein (CesT) family; Region: CesT; cl08444 580047001967 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 580047001968 phosphopeptide binding site; other site 580047001969 MARCKS family; Region: MARCKS; pfam02063 580047001970 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 580047001971 phosphopeptide binding site; other site 580047001972 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 580047001973 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; pfam09613 580047001974 Tetratricopeptide repeat; Region: TPR_16; pfam13432 580047001975 type III secretion system ATPase; Provisional; Region: PRK06315 580047001976 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 580047001977 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 580047001978 Walker A motif/ATP binding site; other site 580047001979 Walker B motif; other site 580047001980 type III secretion system protein; Validated; Region: PRK05933 580047001981 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 580047001982 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 580047001983 Catalytic domain of Protein Kinases; Region: PKc; cd00180 580047001984 active site 580047001985 ATP binding site [chemical binding]; other site 580047001986 substrate binding site [chemical binding]; other site 580047001987 activation loop (A-loop); other site 580047001988 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 580047001989 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 580047001990 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 580047001991 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 580047001992 Arginine kinase [Amino acid transport and metabolism]; Region: COG3869 580047001993 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 580047001994 ADP binding site [chemical binding]; other site 580047001995 phosphagen binding site; other site 580047001996 substrate specificity loop; other site 580047001997 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 580047001998 UvrB/uvrC motif; Region: UVR; pfam02151 580047001999 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 580047002000 hinge region; other site 580047002001 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 580047002002 putative nucleotide binding site [chemical binding]; other site 580047002003 uridine monophosphate binding site [chemical binding]; other site 580047002004 homohexameric interface [polypeptide binding]; other site 580047002005 elongation factor Ts; Provisional; Region: tsf; PRK09377 580047002006 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 580047002007 Elongation factor TS; Region: EF_TS; pfam00889 580047002008 Elongation factor TS; Region: EF_TS; pfam00889 580047002009 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 580047002010 rRNA interaction site [nucleotide binding]; other site 580047002011 S8 interaction site; other site 580047002012 putative laminin-1 binding site; other site 580047002013 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 580047002014 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 580047002015 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 580047002016 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 580047002017 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 580047002018 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 580047002019 TPR motif; other site 580047002020 Tetratricopeptide repeat; Region: TPR_16; pfam13432 580047002021 binding surface 580047002022 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 580047002023 binding surface 580047002024 TPR motif; other site 580047002025 TPR repeat; Region: TPR_11; pfam13414 580047002026 TPR repeat; Region: TPR_11; pfam13414 580047002027 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 580047002028 binding surface 580047002029 TPR motif; other site 580047002030 TPR repeat; Region: TPR_11; pfam13414 580047002031 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 580047002032 putative ABC transporter; Region: ycf24; CHL00085 580047002033 FeS assembly ATPase SufC; Region: sufC; TIGR01978 580047002034 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 580047002035 Walker A/P-loop; other site 580047002036 ATP binding site [chemical binding]; other site 580047002037 Q-loop/lid; other site 580047002038 ABC transporter signature motif; other site 580047002039 Walker B; other site 580047002040 D-loop; other site 580047002041 H-loop/switch region; other site 580047002042 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 580047002043 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 580047002044 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 580047002045 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 580047002046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 580047002047 catalytic residue [active] 580047002048 ParB-like partition proteins; Region: parB_part; TIGR00180 580047002049 ParB-like nuclease domain; Region: ParBc; cl02129 580047002050 KorB domain; Region: KorB; pfam08535 580047002051 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 580047002052 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 580047002053 Walker A/P-loop; other site 580047002054 ATP binding site [chemical binding]; other site 580047002055 Q-loop/lid; other site 580047002056 ABC transporter signature motif; other site 580047002057 Walker B; other site 580047002058 D-loop; other site 580047002059 H-loop/switch region; other site 580047002060 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 580047002061 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 580047002062 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 580047002063 Walker A/P-loop; other site 580047002064 ATP binding site [chemical binding]; other site 580047002065 Q-loop/lid; other site 580047002066 ABC transporter signature motif; other site 580047002067 Walker B; other site 580047002068 D-loop; other site 580047002069 H-loop/switch region; other site 580047002070 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 580047002071 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 580047002072 Phosphate transporter family; Region: PHO4; cl00396 580047002073 Phosphate transporter family; Region: PHO4; cl00396 580047002074 Phosphoglycerate kinase; Region: PGK; pfam00162 580047002075 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 580047002076 substrate binding site [chemical binding]; other site 580047002077 hinge regions; other site 580047002078 ADP binding site [chemical binding]; other site 580047002079 catalytic site [active] 580047002080 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 580047002081 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 580047002082 minor groove reading motif; other site 580047002083 helix-hairpin-helix signature motif; other site 580047002084 substrate binding pocket [chemical binding]; other site 580047002085 active site 580047002086 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 580047002087 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 580047002088 trmE is a tRNA modification GTPase; Region: trmE; cd04164 580047002089 G1 box; other site 580047002090 GTP/Mg2+ binding site [chemical binding]; other site 580047002091 Switch I region; other site 580047002092 G2 box; other site 580047002093 Switch II region; other site 580047002094 G3 box; other site 580047002095 G4 box; other site 580047002096 G5 box; other site 580047002097 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 580047002098 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 580047002099 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 580047002100 binding surface 580047002101 TPR motif; other site 580047002102 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 580047002103 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12899 580047002104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002105 ATP binding site [chemical binding]; other site 580047002106 putative Mg++ binding site [ion binding]; other site 580047002107 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 580047002108 GTP-binding protein Der; Reviewed; Region: PRK00093 580047002109 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 580047002110 G1 box; other site 580047002111 GTP/Mg2+ binding site [chemical binding]; other site 580047002112 Switch I region; other site 580047002113 G2 box; other site 580047002114 Switch II region; other site 580047002115 G3 box; other site 580047002116 G4 box; other site 580047002117 G5 box; other site 580047002118 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 580047002119 G1 box; other site 580047002120 GTP/Mg2+ binding site [chemical binding]; other site 580047002121 Switch I region; other site 580047002122 G2 box; other site 580047002123 G3 box; other site 580047002124 Switch II region; other site 580047002125 G4 box; other site 580047002126 G5 box; other site 580047002127 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 580047002128 active site 580047002129 NTP binding site [chemical binding]; other site 580047002130 metal binding triad [ion binding]; metal-binding site 580047002131 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 580047002132 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 580047002133 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 580047002134 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 580047002135 Walker A motif; other site 580047002136 ATP binding site [chemical binding]; other site 580047002137 Walker B motif; other site 580047002138 arginine finger; other site 580047002139 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 580047002140 Clp protease; Region: CLP_protease; pfam00574 580047002141 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 580047002142 oligomer interface [polypeptide binding]; other site 580047002143 active site residues [active] 580047002144 trigger factor; Provisional; Region: tig; PRK01490 580047002145 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 580047002146 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 580047002147 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 580047002148 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 580047002149 ATP binding site [chemical binding]; other site 580047002150 putative Mg++ binding site [ion binding]; other site 580047002151 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 580047002152 nucleotide binding region [chemical binding]; other site 580047002153 ATP-binding site [chemical binding]; other site 580047002154 rod shape-determining protein MreB; Provisional; Region: PRK13927 580047002155 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 580047002156 ATP binding site [chemical binding]; other site 580047002157 profilin binding site; other site 580047002158 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 580047002159 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 580047002160 active site 580047002161 substrate-binding site [chemical binding]; other site 580047002162 metal-binding site [ion binding] 580047002163 GTP binding site [chemical binding]; other site 580047002164 Effector from type III secretion system; Region: Effector_1; pfam04518 580047002165 Effector from type III secretion system; Region: Effector_1; pfam04518 580047002166 Chlamydia major outer membrane protein; Region: Chlam_OMP; pfam01308 580047002167 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 580047002168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047002169 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 580047002170 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 580047002171 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 580047002172 active site 580047002173 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 580047002174 type III secretion system ATPase; Validated; Region: PRK05922 580047002175 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 580047002176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002177 Walker A motif; other site 580047002178 ATP binding site [chemical binding]; other site 580047002179 Walker B motif; other site 580047002180 type III secretion system protein; Validated; Region: PRK05934 580047002181 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 580047002182 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 580047002183 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 580047002184 NifU-like domain; Region: NifU; cl00484 580047002185 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 580047002186 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 580047002187 catalytic core [active] 580047002188 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 580047002189 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 580047002190 RNA binding surface [nucleotide binding]; other site 580047002191 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 580047002192 active site 580047002193 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 580047002194 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 580047002195 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 580047002196 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 580047002197 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 580047002198 CCC1-related protein family; Region: CCC1_like_1; cd02437 580047002199 seryl-tRNA synthetase; Provisional; Region: PRK05431 580047002200 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 580047002201 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 580047002202 dimer interface [polypeptide binding]; other site 580047002203 active site 580047002204 motif 1; other site 580047002205 motif 2; other site 580047002206 motif 3; other site 580047002207 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 580047002208 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 580047002209 catalytic motif [active] 580047002210 Zn binding site [ion binding]; other site 580047002211 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 580047002212 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 580047002213 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 580047002214 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 580047002215 dimerization interface [polypeptide binding]; other site 580047002216 active site 580047002217 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 580047002218 homopentamer interface [polypeptide binding]; other site 580047002219 active site 580047002220 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 580047002221 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 580047002222 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 580047002223 substrate binding site [chemical binding]; other site 580047002224 SET domain; Region: SET; cl02566 580047002225 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 580047002226 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 580047002227 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002228 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 580047002229 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 580047002230 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 580047002231 catalytic loop [active] 580047002232 iron binding site [ion binding]; other site 580047002233 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 580047002234 FAD binding pocket [chemical binding]; other site 580047002235 FAD binding motif [chemical binding]; other site 580047002236 phosphate binding motif [ion binding]; other site 580047002237 beta-alpha-beta structure motif; other site 580047002238 NAD binding pocket [chemical binding]; other site 580047002239 Preprotein translocase subunit; Region: YajC; cl00806 580047002240 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 580047002241 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 580047002242 S-adenosylmethionine binding site [chemical binding]; other site 580047002243 Histone H1-like protein Hc1; Region: Hc1; pfam07432 580047002244 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 580047002245 binding surface 580047002246 TPR motif; other site 580047002247 Tetratricopeptide repeat; Region: TPR_12; pfam13424 580047002248 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 580047002249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047002250 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 580047002251 HemN C-terminal domain; Region: HemN_C; pfam06969 580047002252 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 580047002253 substrate binding site [chemical binding]; other site 580047002254 active site 580047002255 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 580047002256 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 580047002257 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 580047002258 ATP binding site [chemical binding]; other site 580047002259 putative Mg++ binding site [ion binding]; other site 580047002260 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 580047002261 nucleotide binding region [chemical binding]; other site 580047002262 ATP-binding site [chemical binding]; other site 580047002263 TRCF domain; Region: TRCF; cl04088 580047002264 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 580047002265 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 580047002266 motif 1; other site 580047002267 active site 580047002268 motif 2; other site 580047002269 motif 3; other site 580047002270 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 580047002271 DHHA1 domain; Region: DHHA1; pfam02272 580047002272 transketolase; Reviewed; Region: PRK05899 580047002273 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 580047002274 TPP-binding site [chemical binding]; other site 580047002275 dimer interface [polypeptide binding]; other site 580047002276 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 580047002277 PYR/PP interface [polypeptide binding]; other site 580047002278 dimer interface [polypeptide binding]; other site 580047002279 TPP binding site [chemical binding]; other site 580047002280 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 580047002281 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 580047002282 elongation factor P; Validated; Region: PRK00529 580047002283 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 580047002284 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 580047002285 RNA binding site [nucleotide binding]; other site 580047002286 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 580047002287 RNA binding site [nucleotide binding]; other site 580047002288 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 580047002289 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 580047002290 putative active site [active] 580047002291 putative metal binding site [ion binding]; other site 580047002292 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 580047002293 active site 580047002294 metal binding site [ion binding]; metal-binding site 580047002295 TCP-1/cpn60 chaperonin family; Region: Cpn60_TCP1; pfam00118 580047002296 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 580047002297 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 580047002298 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 580047002299 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 580047002300 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 580047002301 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 580047002302 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 580047002303 Mg++ binding site [ion binding]; other site 580047002304 putative catalytic motif [active] 580047002305 putative substrate binding site [chemical binding]; other site 580047002306 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00683 580047002307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047002308 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 580047002309 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 580047002310 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 580047002311 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 580047002312 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 580047002313 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 580047002314 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 580047002315 active site 580047002316 homodimer interface [polypeptide binding]; other site 580047002317 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: PRK14573 580047002318 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 580047002319 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 580047002320 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 580047002321 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 580047002322 ATP-grasp domain; Region: ATP-grasp_4; cl03087 580047002323 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 580047002324 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 580047002325 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 580047002326 anti sigma factor interaction site; other site 580047002327 regulatory phosphorylation site [posttranslational modification]; other site 580047002328 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002329 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 580047002330 hypothetical protein; Provisional; Region: PRK05927 580047002331 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; cl15377 580047002332 FeS/SAM binding site; other site 580047002333 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 580047002334 Oligomerisation domain; Region: Oligomerisation; cl00519 580047002335 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 580047002336 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 580047002337 dimer interface [polypeptide binding]; other site 580047002338 active site 580047002339 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 580047002340 active site 580047002341 Ap4A binding cleft/pocket [chemical binding]; other site 580047002342 P4 phosphate binding site; other site 580047002343 nudix motif; other site 580047002344 putative P2/P3 phosphate binding site [ion binding]; other site 580047002345 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 580047002346 dimer interface [polypeptide binding]; other site 580047002347 substrate binding site [chemical binding]; other site 580047002348 metal binding sites [ion binding]; metal-binding site 580047002349 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 580047002350 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 580047002351 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 580047002352 NAD binding site [chemical binding]; other site 580047002353 Phe binding site; other site 580047002354 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 580047002355 active site 580047002356 putative lithium-binding site [ion binding]; other site 580047002357 substrate binding site [chemical binding]; other site 580047002358 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 580047002359 putative acyl-acceptor binding pocket; other site 580047002360 long chain fatty acid--[acyl-carrier-protein] ligase; Validated; Region: PRK06334 580047002361 AMP-binding enzyme; Region: AMP-binding; cl15778 580047002362 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 580047002363 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 580047002364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 580047002365 catalytic residue [active] 580047002366 primosome assembly protein PriA; Validated; Region: PRK05580 580047002367 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 580047002368 ATP binding site [chemical binding]; other site 580047002369 putative Mg++ binding site [ion binding]; other site 580047002370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002371 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 580047002372 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 580047002373 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 580047002374 dimer interface [polypeptide binding]; other site 580047002375 putative anticodon binding site; other site 580047002376 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 580047002377 motif 1; other site 580047002378 active site 580047002379 motif 2; other site 580047002380 motif 3; other site 580047002381 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 580047002382 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 580047002383 active site 580047002384 HIGH motif; other site 580047002385 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 580047002386 KMSKS motif; other site 580047002387 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 580047002388 tRNA binding surface [nucleotide binding]; other site 580047002389 anticodon binding site; other site 580047002390 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 580047002391 Ribonuclease P; Region: Ribonuclease_P; cl00457 580047002392 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 580047002393 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 580047002394 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 580047002395 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 580047002396 Asp23 family; Region: Asp23; cl00574 580047002397 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 580047002398 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 580047002399 active site 580047002400 catalytic site [active] 580047002401 putative DNA binding site [nucleotide binding]; other site 580047002402 GIY-YIG motif/motif A; other site 580047002403 metal binding site [ion binding]; metal-binding site 580047002404 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 580047002405 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 580047002406 MutS domain I; Region: MutS_I; pfam01624 580047002407 MutS domain II; Region: MutS_II; pfam05188 580047002408 MutS family domain IV; Region: MutS_IV; pfam05190 580047002409 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 580047002410 Walker A/P-loop; other site 580047002411 ATP binding site [chemical binding]; other site 580047002412 Q-loop/lid; other site 580047002413 ABC transporter signature motif; other site 580047002414 Walker B; other site 580047002415 D-loop; other site 580047002416 H-loop/switch region; other site 580047002417 DNA primase; Validated; Region: dnaG; PRK05667 580047002418 CHC2 zinc finger; Region: zf-CHC2; cl15369 580047002419 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 580047002420 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 580047002421 active site 580047002422 metal binding site [ion binding]; metal-binding site 580047002423 interdomain interaction site; other site 580047002424 glycyl-tRNA synthetase; Provisional; Region: PRK14908 580047002425 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 580047002426 dimer interface [polypeptide binding]; other site 580047002427 motif 1; other site 580047002428 active site 580047002429 motif 2; other site 580047002430 motif 3; other site 580047002431 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 580047002432 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 580047002433 glycogen synthase; Provisional; Region: glgA; PRK00654 580047002434 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 580047002435 ADP-binding pocket [chemical binding]; other site 580047002436 homodimer interface [polypeptide binding]; other site 580047002437 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 580047002438 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 580047002439 5S rRNA interface [nucleotide binding]; other site 580047002440 CTC domain interface [polypeptide binding]; other site 580047002441 L16 interface [polypeptide binding]; other site 580047002442 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 580047002443 putative active site [active] 580047002444 catalytic residue [active] 580047002445 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 580047002446 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 580047002447 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 580047002448 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 580047002449 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 580047002450 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK00650 580047002451 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 580047002452 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 580047002453 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 580047002454 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 580047002455 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 580047002456 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 580047002457 putative acyl-acceptor binding pocket; other site 580047002458 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 580047002459 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 580047002460 homodimer interface [polypeptide binding]; other site 580047002461 oligonucleotide binding site [chemical binding]; other site 580047002463 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 580047002464 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 580047002465 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002466 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047002467 IncA protein; Region: IncA; pfam04156 580047002468 YtxH-like protein; Region: YtxH; cl02079 580047002469 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 580047002470 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 580047002471 active site 580047002472 substrate binding site [chemical binding]; other site 580047002473 metal binding site [ion binding]; metal-binding site 580047002474 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 580047002475 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 580047002476 glutaminase active site [active] 580047002477 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 580047002478 dimer interface [polypeptide binding]; other site 580047002479 active site 580047002480 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 580047002481 dimer interface [polypeptide binding]; other site 580047002482 active site 580047002483 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 580047002484 aromatic amino acid transport protein; Region: araaP; TIGR00837 580047002485 Transmembrane amino acid transporter protein; Region: Aa_trans; cl15776 580047002486 aromatic amino acid transport protein; Region: araaP; TIGR00837 580047002487 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 580047002488 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 580047002489 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 580047002490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 580047002491 succinyl-CoA synthetase, beta subunit; Region: sucCoAbeta; TIGR01016 580047002492 ATP-grasp domain; Region: ATP-grasp_4; cl03087 580047002493 CoA-ligase; Region: Ligase_CoA; cl02894 580047002494 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 580047002495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 580047002496 CoA-ligase; Region: Ligase_CoA; cl02894 580047002497 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 580047002498 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 580047002499 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 580047002500 protein binding site [polypeptide binding]; other site 580047002501 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 580047002502 protein binding site [polypeptide binding]; other site 580047002503 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 580047002504 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 580047002505 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 580047002506 Peptidase M16C associated; Region: M16C_assoc; pfam08367 580047002507 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 580047002508 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 580047002509 RmuC family; Region: RmuC; pfam02646 580047002510 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 580047002511 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 580047002512 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12365 580047002513 ATP cone domain; Region: ATP-cone; pfam03477 580047002514 ATP cone domain; Region: ATP-cone; pfam03477 580047002515 Class I ribonucleotide reductase; Region: RNR_I; cd01679 580047002516 active site 580047002517 dimer interface [polypeptide binding]; other site 580047002518 catalytic residues [active] 580047002519 effector binding site; other site 580047002520 R2 peptide binding site; other site 580047002521 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 580047002522 dimer interface [polypeptide binding]; other site 580047002523 putative radical transfer pathway; other site 580047002524 diiron center [ion binding]; other site 580047002525 tyrosyl radical; other site 580047002526 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047002527 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047002528 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl16911 580047002529 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 580047002530 FAD binding domain; Region: FAD_binding_4; pfam01565 580047002531 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 580047002532 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 580047002533 putative RNA binding site [nucleotide binding]; other site 580047002534 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 580047002535 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 580047002536 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 580047002537 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 580047002538 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 580047002539 23S rRNA binding site [nucleotide binding]; other site 580047002540 L21 binding site [polypeptide binding]; other site 580047002541 L13 binding site [polypeptide binding]; other site 580047002542 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 580047002543 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 580047002544 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 580047002545 motif 1; other site 580047002546 dimer interface [polypeptide binding]; other site 580047002547 active site 580047002548 motif 2; other site 580047002549 motif 3; other site 580047002550 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 580047002551 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 580047002552 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 580047002553 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 580047002554 Ligand Binding Site [chemical binding]; other site 580047002555 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 580047002556 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 580047002557 Walker A motif; other site 580047002558 ATP binding site [chemical binding]; other site 580047002559 Walker B motif; other site 580047002560 arginine finger; other site 580047002561 Peptidase family M41; Region: Peptidase_M41; pfam01434 580047002562 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 580047002563 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 580047002564 RNase E interface [polypeptide binding]; other site 580047002565 trimer interface [polypeptide binding]; other site 580047002566 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 580047002567 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 580047002568 RNase E interface [polypeptide binding]; other site 580047002569 trimer interface [polypeptide binding]; other site 580047002570 active site 580047002571 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 580047002572 putative nucleic acid binding region [nucleotide binding]; other site 580047002573 G-X-X-G motif; other site 580047002574 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 580047002575 RNA binding site [nucleotide binding]; other site 580047002576 domain interface; other site 580047002577 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 580047002578 16S/18S rRNA binding site [nucleotide binding]; other site 580047002579 S13e-L30e interaction site [polypeptide binding]; other site 580047002580 25S rRNA binding site [nucleotide binding]; other site 580047002581 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 580047002582 nucleoside/Zn binding site; other site 580047002583 dimer interface [polypeptide binding]; other site 580047002584 catalytic motif [active] 580047002585 Protein of unknown function (DUF720); Region: DUF720; pfam05302 580047002586 Protein of unknown function (DUF720); Region: DUF720; pfam05302 580047002587 Protein of unknown function (DUF720); Region: DUF720; pfam05302 580047002588 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 580047002589 methionine aminopeptidase; Provisional; Region: PRK12318 580047002590 SEC-C motif; Region: SEC-C; pfam02810 580047002591 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 580047002592 active site 580047002593 MarC family integral membrane protein; Region: MarC; cl00919 580047002594 MarC family integral membrane protein; Region: MarC; cl00919 580047002595 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 580047002596 dimer interface [polypeptide binding]; other site 580047002597 conserved gate region; other site 580047002598 putative PBP binding loops; other site 580047002599 ABC-ATPase subunit interface; other site 580047002600 NMT1/THI5 like; Region: NMT1; pfam09084 580047002602 high affinity sulphate transporter 1; Region: sulP; TIGR00815 580047002603 Sulfate transporter family; Region: Sulfate_transp; cl15842 580047002604 Sulfate transporter family; Region: Sulfate_transp; cl15842 580047002605 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 580047002606 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 580047002607 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 580047002608 transmembrane helices; other site 580047002609 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 580047002610 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 580047002611 Interphotoreceptor retinoid-binding protein; serine protease family S41; Region: Peptidase_S41_IRBP; cd07563 580047002612 active site triad [active] 580047002613 LytB protein; Region: LYTB; cl00507 580047002614 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 580047002615 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 580047002616 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 580047002617 Tetratricopeptide repeat; Region: TPR_3; pfam07720 580047002618 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 580047002619 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 580047002620 active site 580047002621 DNA binding site [nucleotide binding] 580047002622 Int/Topo IB signature motif; other site 580047002623 glycogen branching enzyme; Provisional; Region: PRK05402 580047002624 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 580047002625 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 580047002626 active site 580047002627 catalytic site [active] 580047002628 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 580047002629 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 580047002630 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 580047002631 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002632 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047002633 adhesin; Provisional; Region: PRK09752 580047002634 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002635 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002636 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047002637 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002638 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047002639 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002640 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002641 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002642 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 580047002643 adhesin; Provisional; Region: PRK09752 580047002644 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002645 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002646 Chlamydial polymorphic outer membrane protein repeat; Region: POMP_repeat; TIGR01376 580047002647 Chlamydia polymorphic membrane protein middle domain; Region: ChlamPMP_M; pfam07548 580047002648 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155