-- dump date 20140619_112120 -- class Genbank::misc_feature -- table misc_feature_note -- id note 182217000001 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 182217000002 putative RNA binding site [nucleotide binding]; other site 182217000003 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 182217000004 homopentamer interface [polypeptide binding]; other site 182217000005 active site 182217000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 182217000007 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 182217000008 active site clefts [active] 182217000009 zinc binding site [ion binding]; other site 182217000010 dimer interface [polypeptide binding]; other site 182217000011 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 182217000012 active site 182217000013 dimer interface [polypeptide binding]; other site 182217000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 182217000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 182217000016 active site 182217000017 ATP-binding site [chemical binding]; other site 182217000018 pantoate-binding site; other site 182217000019 HXXH motif; other site 182217000020 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 182217000021 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 182217000022 active site 182217000023 FMN binding site [chemical binding]; other site 182217000024 substrate binding site [chemical binding]; other site 182217000025 homotetramer interface [polypeptide binding]; other site 182217000026 catalytic residue [active] 182217000027 LabA_like proteins; Region: LabA_like/DUF88; cl10034 182217000028 putative metal binding site [ion binding]; other site 182217000029 Uncharacterized conserved protein [Function unknown]; Region: COG1432 182217000030 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 182217000031 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 182217000032 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 182217000033 nucleotide binding site [chemical binding]; other site 182217000034 NEF interaction site [polypeptide binding]; other site 182217000035 SBD interface [polypeptide binding]; other site 182217000036 GrpE; Region: GrpE; pfam01025 182217000037 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 182217000038 dimer interface [polypeptide binding]; other site 182217000039 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 182217000040 heat-inducible transcription repressor; Provisional; Region: PRK03911 182217000041 hypothetical protein; Provisional; Region: PRK05834 182217000042 potential frameshift: common BLAST hit: gi|229599854|ref|YP_002860852.1| pXO1-133 182217000043 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 182217000044 EamA-like transporter family; Region: EamA; pfam00892 182217000045 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 182217000046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 182217000047 potential frameshift: common BLAST hit: gi|15612223|ref|NP_223876.1| carbamoyl phosphate synthase small subunit 182217000048 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217000049 Sel1-like repeats; Region: SEL1; smart00671 182217000050 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 182217000051 putative active site [active] 182217000052 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 182217000053 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 182217000054 motif 1; other site 182217000055 active site 182217000056 motif 2; other site 182217000057 motif 3; other site 182217000058 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 182217000059 DHHA1 domain; Region: DHHA1; pfam02272 182217000060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 182217000061 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 182217000062 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 182217000063 NADP binding site [chemical binding]; other site 182217000064 active site 182217000065 putative substrate binding site [chemical binding]; other site 182217000066 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 182217000067 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 182217000068 NADP-binding site; other site 182217000069 homotetramer interface [polypeptide binding]; other site 182217000070 substrate binding site [chemical binding]; other site 182217000071 homodimer interface [polypeptide binding]; other site 182217000072 active site 182217000073 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 182217000074 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 182217000075 Substrate binding site; other site 182217000076 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 182217000077 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 182217000078 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 182217000079 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 182217000080 VirB7 interaction site; other site 182217000081 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 182217000082 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 182217000083 PDZ domain; Region: PDZ_2; pfam13180 182217000084 hypothetical protein; Provisional; Region: PRK03762 182217000085 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 182217000086 tetramerization interface [polypeptide binding]; other site 182217000087 active site 182217000088 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 182217000089 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 182217000090 Walker A motif; other site 182217000091 ATP binding site [chemical binding]; other site 182217000092 Walker B motif; other site 182217000093 arginine finger; other site 182217000094 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 182217000095 Walker A motif; other site 182217000096 ATP binding site [chemical binding]; other site 182217000097 Walker B motif; other site 182217000098 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 182217000099 Uncharacterized conserved protein [Function unknown]; Region: COG2127 182217000100 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 182217000101 Ligand Binding Site [chemical binding]; other site 182217000102 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 182217000103 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 182217000104 isocitrate dehydrogenase; Validated; Region: PRK07362 182217000105 isocitrate dehydrogenase; Reviewed; Region: PRK07006 182217000106 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000107 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 182217000108 dimer interface [polypeptide binding]; other site 182217000109 Citrate synthase; Region: Citrate_synt; pfam00285 182217000110 active site 182217000111 citrylCoA binding site [chemical binding]; other site 182217000112 NADH binding [chemical binding]; other site 182217000113 cationic pore residues; other site 182217000114 oxalacetate/citrate binding site [chemical binding]; other site 182217000115 coenzyme A binding site [chemical binding]; other site 182217000116 catalytic triad [active] 182217000117 potential frameshift: common BLAST hit: gi|109948159|ref|YP_665387.1| lipid A phosphoethanolamine transferase 182217000118 lipid A 1-phosphatase; Reviewed; Region: PRK09597 182217000119 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 182217000120 active site 182217000121 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 182217000122 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 182217000123 dimer interface [polypeptide binding]; other site 182217000124 active site 182217000125 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 182217000126 catalytic residues [active] 182217000127 substrate binding site [chemical binding]; other site 182217000128 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 182217000129 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 182217000130 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 182217000131 active site 182217000132 phosphorylation site [posttranslational modification] 182217000133 intermolecular recognition site; other site 182217000134 dimerization interface [polypeptide binding]; other site 182217000135 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 182217000136 thiamine phosphate binding site [chemical binding]; other site 182217000137 active site 182217000138 pyrophosphate binding site [ion binding]; other site 182217000139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 182217000140 potential frameshift: common BLAST hit: gi|15644650|ref|NP_206819.1| virB4 homolog (virB4) 182217000141 TrbC/VIRB2 family; Region: TrbC; pfam04956 182217000142 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 182217000143 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 182217000144 Ligand Binding Site [chemical binding]; other site 182217000145 DNA primase; Validated; Region: dnaG; PRK05667 182217000146 CHC2 zinc finger; Region: zf-CHC2; pfam01807 182217000147 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 182217000148 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 182217000149 active site 182217000150 metal binding site [ion binding]; metal-binding site 182217000151 interdomain interaction site; other site 182217000152 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 182217000153 oligomerisation interface [polypeptide binding]; other site 182217000154 mobile loop; other site 182217000155 roof hairpin; other site 182217000156 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 182217000157 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 182217000158 ring oligomerisation interface [polypeptide binding]; other site 182217000159 ATP/Mg binding site [chemical binding]; other site 182217000160 stacking interactions; other site 182217000161 hinge regions; other site 182217000162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 182217000163 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217000164 Endonuclease I; Region: Endonuclease_1; pfam04231 182217000165 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000166 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000167 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 182217000168 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 182217000169 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 182217000170 Walker A/P-loop; other site 182217000171 ATP binding site [chemical binding]; other site 182217000172 Q-loop/lid; other site 182217000173 ABC transporter signature motif; other site 182217000174 Walker B; other site 182217000175 D-loop; other site 182217000176 H-loop/switch region; other site 182217000177 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 182217000178 NIL domain; Region: NIL; pfam09383 182217000179 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 182217000180 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 182217000181 Lumazine binding domain; Region: Lum_binding; pfam00677 182217000182 Lumazine binding domain; Region: Lum_binding; pfam00677 182217000183 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 182217000184 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 182217000185 active site 182217000186 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 182217000187 N-acetyl-D-glucosamine binding site [chemical binding]; other site 182217000188 catalytic residue [active] 182217000189 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 182217000190 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 182217000191 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 182217000192 Sporulation related domain; Region: SPOR; pfam05036 182217000193 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 182217000194 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 182217000195 motif II; other site 182217000196 OstA-like protein; Region: OstA; pfam03968 182217000197 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 182217000198 G1 box; other site 182217000199 GTP/Mg2+ binding site [chemical binding]; other site 182217000200 Switch I region; other site 182217000201 G2 box; other site 182217000202 G3 box; other site 182217000203 Switch II region; other site 182217000204 G4 box; other site 182217000205 G5 box; other site 182217000206 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 182217000207 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 182217000208 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 182217000209 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 182217000210 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 182217000211 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 182217000212 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 182217000213 dimer interface [polypeptide binding]; other site 182217000214 decamer (pentamer of dimers) interface [polypeptide binding]; other site 182217000215 catalytic triad [active] 182217000216 peroxidatic and resolving cysteines [active] 182217000217 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 182217000218 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 182217000219 intersubunit interface [polypeptide binding]; other site 182217000220 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 182217000221 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 182217000222 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 182217000223 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 182217000224 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 182217000225 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 182217000226 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 182217000227 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 182217000228 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 182217000229 Protein of unknown function (DUF535); Region: DUF535; cl01128 182217000230 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 182217000231 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 182217000232 PGAP1-like protein; Region: PGAP1; pfam07819 182217000233 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 182217000234 Cytochrome c; Region: Cytochrom_C; pfam00034 182217000235 Cytochrome c; Region: Cytochrom_C; cl11414 182217000236 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 182217000237 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 182217000238 intrachain domain interface; other site 182217000239 interchain domain interface [polypeptide binding]; other site 182217000240 heme bH binding site [chemical binding]; other site 182217000241 Qi binding site; other site 182217000242 heme bL binding site [chemical binding]; other site 182217000243 Qo binding site; other site 182217000244 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 182217000245 interchain domain interface [polypeptide binding]; other site 182217000246 intrachain domain interface; other site 182217000247 Qi binding site; other site 182217000248 Qo binding site; other site 182217000249 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 182217000250 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 182217000251 iron-sulfur cluster [ion binding]; other site 182217000252 [2Fe-2S] cluster binding site [ion binding]; other site 182217000253 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 182217000254 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 182217000255 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 182217000256 ATP binding site [chemical binding]; other site 182217000257 putative Mg++ binding site [ion binding]; other site 182217000258 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 182217000259 nucleotide binding region [chemical binding]; other site 182217000260 ATP-binding site [chemical binding]; other site 182217000261 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 182217000262 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 182217000263 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 182217000264 Peptidase family M23; Region: Peptidase_M23; pfam01551 182217000265 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 182217000266 Peptidase family M23; Region: Peptidase_M23; pfam01551 182217000267 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 182217000268 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 182217000269 Lipopolysaccharide-assembly; Region: LptE; pfam04390 182217000270 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 182217000271 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 182217000272 HIGH motif; other site 182217000273 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 182217000274 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 182217000275 active site 182217000276 KMSKS motif; other site 182217000277 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 182217000278 tRNA binding surface [nucleotide binding]; other site 182217000279 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 182217000280 Protein export membrane protein; Region: SecD_SecF; pfam02355 182217000281 protein-export membrane protein SecD; Region: secD; TIGR01129 182217000282 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 182217000283 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 182217000284 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 182217000285 Part of AAA domain; Region: AAA_19; pfam13245 182217000286 putative recombination protein RecB; Provisional; Region: PRK13909 182217000287 Family description; Region: UvrD_C_2; pfam13538 182217000288 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 182217000289 rRNA interaction site [nucleotide binding]; other site 182217000290 S8 interaction site; other site 182217000291 putative laminin-1 binding site; other site 182217000292 elongation factor Ts; Provisional; Region: tsf; PRK09377 182217000293 UBA/TS-N domain; Region: UBA; pfam00627 182217000294 Elongation factor TS; Region: EF_TS; pfam00889 182217000295 Elongation factor TS; Region: EF_TS; pfam00889 182217000296 TIR domain; Region: TIR_2; cl17458 182217000297 potential frameshift: common BLAST hit: gi|108563789|ref|YP_628105.1| lipoprotein 182217000298 Methyltransferase domain; Region: Methyltransf_12; pfam08242 182217000299 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 182217000300 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 182217000301 EVE domain; Region: EVE; cl00728 182217000302 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 182217000303 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 182217000304 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 182217000305 alphaNTD homodimer interface [polypeptide binding]; other site 182217000306 alphaNTD - beta interaction site [polypeptide binding]; other site 182217000307 alphaNTD - beta' interaction site [polypeptide binding]; other site 182217000308 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 182217000309 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 182217000310 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 182217000311 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 182217000312 RNA binding surface [nucleotide binding]; other site 182217000313 30S ribosomal protein S11; Validated; Region: PRK05309 182217000314 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 182217000315 30S ribosomal protein S13; Region: bact_S13; TIGR03631 182217000316 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 182217000317 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 182217000318 rRNA binding site [nucleotide binding]; other site 182217000319 predicted 30S ribosome binding site; other site 182217000320 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 182217000321 active site 182217000322 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 182217000323 SecY translocase; Region: SecY; pfam00344 182217000324 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 182217000325 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 182217000326 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 182217000327 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 182217000328 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 182217000329 23S rRNA interface [nucleotide binding]; other site 182217000330 5S rRNA interface [nucleotide binding]; other site 182217000331 L27 interface [polypeptide binding]; other site 182217000332 L5 interface [polypeptide binding]; other site 182217000333 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 182217000334 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 182217000335 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 182217000336 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 182217000337 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 182217000338 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 182217000339 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 182217000340 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 182217000341 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 182217000342 RNA binding site [nucleotide binding]; other site 182217000343 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 182217000344 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 182217000345 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 182217000346 putative translocon interaction site; other site 182217000347 23S rRNA interface [nucleotide binding]; other site 182217000348 signal recognition particle (SRP54) interaction site; other site 182217000349 L23 interface [polypeptide binding]; other site 182217000350 trigger factor interaction site; other site 182217000351 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 182217000352 23S rRNA interface [nucleotide binding]; other site 182217000353 5S rRNA interface [nucleotide binding]; other site 182217000354 putative antibiotic binding site [chemical binding]; other site 182217000355 L25 interface [polypeptide binding]; other site 182217000356 L27 interface [polypeptide binding]; other site 182217000357 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 182217000358 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 182217000359 G-X-X-G motif; other site 182217000360 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 182217000361 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 182217000362 putative translocon binding site; other site 182217000363 protein-rRNA interface [nucleotide binding]; other site 182217000364 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 182217000365 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 182217000366 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 182217000367 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 182217000368 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 182217000369 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 182217000370 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 182217000371 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 182217000372 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 182217000373 AAA domain; Region: AAA_14; pfam13173 182217000374 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 182217000375 metal binding site 2 [ion binding]; metal-binding site 182217000376 putative DNA binding helix; other site 182217000377 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 182217000378 RNA/DNA hybrid binding site [nucleotide binding]; other site 182217000379 active site 182217000380 Mac 1; Region: Mac-1; pfam09028 182217000381 PemK-like protein; Region: PemK; pfam02452 182217000382 fumarate hydratase; Reviewed; Region: fumC; PRK00485 182217000383 Class II fumarases; Region: Fumarase_classII; cd01362 182217000384 active site 182217000385 tetramer interface [polypeptide binding]; other site 182217000386 YtkA-like; Region: YtkA; pfam13115 182217000387 Outer membrane efflux protein; Region: OEP; pfam02321 182217000388 HlyD family secretion protein; Region: HlyD_3; pfam13437 182217000389 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 182217000390 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 182217000391 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 182217000392 active site 182217000393 phosphorylation site [posttranslational modification] 182217000394 intermolecular recognition site; other site 182217000395 dimerization interface [polypeptide binding]; other site 182217000396 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 182217000397 DNA binding site [nucleotide binding] 182217000398 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 182217000399 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 182217000400 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 182217000401 ATP binding site [chemical binding]; other site 182217000402 Mg2+ binding site [ion binding]; other site 182217000403 G-X-G motif; other site 182217000404 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 182217000405 AzlC protein; Region: AzlC; cl00570 182217000406 chaperone protein DnaJ; Provisional; Region: PRK14288 182217000407 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 182217000408 HSP70 interaction site [polypeptide binding]; other site 182217000409 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 182217000410 substrate binding site [polypeptide binding]; other site 182217000411 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 182217000412 Zn binding sites [ion binding]; other site 182217000413 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 182217000414 dimer interface [polypeptide binding]; other site 182217000415 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 182217000416 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 182217000417 Ligand Binding Site [chemical binding]; other site 182217000418 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 182217000419 Autotransporter beta-domain; Region: Autotransporter; pfam03797 182217000420 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 182217000421 HSP70 interaction site [polypeptide binding]; other site 182217000422 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 182217000423 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 182217000424 active site 182217000425 (T/H)XGH motif; other site 182217000426 nickel responsive regulator; Provisional; Region: PRK00630 182217000427 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 182217000428 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 182217000429 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 182217000430 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 182217000431 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 182217000432 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 182217000433 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 182217000434 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 182217000435 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 182217000436 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 182217000437 oligomer interface [polypeptide binding]; other site 182217000438 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 182217000439 Phosphoglycerate kinase; Region: PGK; pfam00162 182217000440 substrate binding site [chemical binding]; other site 182217000441 hinge regions; other site 182217000442 ADP binding site [chemical binding]; other site 182217000443 catalytic site [active] 182217000444 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 182217000445 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 182217000446 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 182217000447 dimer interface [polypeptide binding]; other site 182217000448 active site 182217000449 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 182217000450 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 182217000451 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 182217000452 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 182217000453 ligand binding site [chemical binding]; other site 182217000454 active site 182217000455 UGI interface [polypeptide binding]; other site 182217000456 catalytic site [active] 182217000457 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 182217000458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 182217000459 putative acyl-acceptor binding pocket; other site 182217000460 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 182217000461 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 182217000462 putative active site [active] 182217000463 catalytic triad [active] 182217000464 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 182217000465 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 182217000466 C-terminal peptidase (prc); Region: prc; TIGR00225 182217000467 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 182217000468 protein binding site [polypeptide binding]; other site 182217000469 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 182217000470 Catalytic dyad [active] 182217000471 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 182217000472 dimerization interface [polypeptide binding]; other site 182217000473 thiamine monophosphate kinase; Provisional; Region: PRK05731 182217000474 ATP binding site [chemical binding]; other site 182217000475 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 182217000476 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 182217000477 dimerization interface [polypeptide binding]; other site 182217000478 active site 182217000479 quinolinate synthetase; Provisional; Region: PRK09375 182217000480 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 182217000481 prenyltransferase; Reviewed; Region: ubiA; PRK12874 182217000482 UbiA prenyltransferase family; Region: UbiA; pfam01040 182217000483 Protein of unknown function (DUF502); Region: DUF502; cl01107 182217000484 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 182217000485 Competence protein; Region: Competence; pfam03772 182217000486 replicative DNA helicase; Provisional; Region: PRK08506 182217000487 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 182217000488 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 182217000489 Walker A motif; other site 182217000490 ATP binding site [chemical binding]; other site 182217000491 Walker B motif; other site 182217000492 DNA binding loops [nucleotide binding] 182217000493 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 182217000494 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 182217000495 putative substrate binding site [chemical binding]; other site 182217000496 putative ATP binding site [chemical binding]; other site 182217000497 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217000498 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217000499 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 182217000500 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 182217000501 active site 182217000502 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 182217000503 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 182217000504 substrate binding site [chemical binding]; other site 182217000505 hexamer interface [polypeptide binding]; other site 182217000506 metal binding site [ion binding]; metal-binding site 182217000507 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 182217000508 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 182217000509 active site 182217000510 catalytic site [active] 182217000511 substrate binding site [chemical binding]; other site 182217000512 Domain of unknown function (DUF814); Region: DUF814; pfam05670 182217000513 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 182217000514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217000515 Walker A/P-loop; other site 182217000516 ATP binding site [chemical binding]; other site 182217000517 Q-loop/lid; other site 182217000518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217000519 ABC transporter signature motif; other site 182217000520 Walker B; other site 182217000521 D-loop; other site 182217000522 H-loop/switch region; other site 182217000523 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 182217000524 ATP-NAD kinase; Region: NAD_kinase; pfam01513 182217000525 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000526 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000527 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 182217000528 rod shape-determining protein MreC; Region: MreC; pfam04085 182217000529 rod shape-determining protein MreB; Provisional; Region: PRK13927 182217000530 MreB and similar proteins; Region: MreB_like; cd10225 182217000531 nucleotide binding site [chemical binding]; other site 182217000532 Mg binding site [ion binding]; other site 182217000533 putative protofilament interaction site [polypeptide binding]; other site 182217000534 RodZ interaction site [polypeptide binding]; other site 182217000535 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 182217000536 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 182217000537 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 182217000538 Walker A motif; other site 182217000539 ATP binding site [chemical binding]; other site 182217000540 Walker B motif; other site 182217000541 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 182217000542 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 182217000543 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 182217000544 active site 182217000545 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 182217000546 flagellar assembly protein FliW; Provisional; Region: PRK13282 182217000547 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 182217000548 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 182217000549 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 182217000550 Walker A motif; other site 182217000551 ATP binding site [chemical binding]; other site 182217000552 Walker B motif; other site 182217000553 arginine finger; other site 182217000554 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 182217000555 prephenate dehydrogenase; Validated; Region: PRK08507 182217000556 Prephenate dehydrogenase; Region: PDH; pfam02153 182217000557 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 182217000558 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 182217000559 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 182217000560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217000561 Walker A/P-loop; other site 182217000562 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 182217000563 active site residue [active] 182217000564 putative sulfurtransferase DndC; Region: DNA_S_dndC; TIGR03183 182217000565 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 182217000566 Active Sites [active] 182217000567 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 182217000568 Malic enzyme, N-terminal domain; Region: malic; pfam00390 182217000569 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 182217000570 putative NAD(P) binding site [chemical binding]; other site 182217000571 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 182217000572 potential frameshift: common BLAST hit: gi|336452976|ref|YP_004607442.1| group 1 glycosyl transferase 182217000573 RloB-like protein; Region: RloB; pfam13707 182217000574 AAA domain; Region: AAA_21; pfam13304 182217000575 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 182217000576 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217000577 Tetratricopeptide repeat; Region: TPR_12; pfam13424 182217000578 Uncharacterized conserved protein [Function unknown]; Region: COG1479 182217000579 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217000580 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217000581 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 182217000582 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 182217000583 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 182217000584 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 182217000585 putative NAD(P) binding site [chemical binding]; other site 182217000586 putative substrate binding site [chemical binding]; other site 182217000587 catalytic Zn binding site [ion binding]; other site 182217000588 structural Zn binding site [ion binding]; other site 182217000589 dimer interface [polypeptide binding]; other site 182217000590 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 182217000591 Prephenate dehydratase; Region: PDT; pfam00800 182217000592 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 182217000593 putative L-Phe binding site [chemical binding]; other site 182217000594 DpnII restriction endonuclease; Region: DpnII; pfam04556 182217000595 DpnII restriction endonuclease; Region: DpnII; pfam04556 182217000596 potential frameshift: common BLAST hit: gi|296274508|ref|YP_003657139.1| type II site-specific deoxyribonuclease 182217000597 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 182217000598 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 182217000599 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 182217000600 homodimer interface [polypeptide binding]; other site 182217000601 substrate-cofactor binding pocket; other site 182217000602 catalytic residue [active] 182217000603 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000604 DNA polymerase I; Region: pola; TIGR00593 182217000605 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 182217000606 active site 182217000607 metal binding site 1 [ion binding]; metal-binding site 182217000608 putative 5' ssDNA interaction site; other site 182217000609 metal binding site 3; metal-binding site 182217000610 metal binding site 2 [ion binding]; metal-binding site 182217000611 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 182217000612 putative DNA binding site [nucleotide binding]; other site 182217000613 putative metal binding site [ion binding]; other site 182217000614 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 182217000615 active site 182217000616 substrate binding site [chemical binding]; other site 182217000617 catalytic site [active] 182217000618 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 182217000619 active site 182217000620 DNA binding site [nucleotide binding] 182217000621 catalytic site [active] 182217000622 Predicted helicase [General function prediction only]; Region: COG4889 182217000623 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 182217000624 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 182217000625 ATP binding site [chemical binding]; other site 182217000626 putative Mg++ binding site [ion binding]; other site 182217000627 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 182217000628 ATP-binding site [chemical binding]; other site 182217000629 Predicted helicase [General function prediction only]; Region: COG4889 182217000630 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 182217000631 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 182217000632 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 182217000633 glutaminase active site [active] 182217000634 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 182217000635 dimer interface [polypeptide binding]; other site 182217000636 active site 182217000637 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 182217000638 dimer interface [polypeptide binding]; other site 182217000639 active site 182217000640 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 182217000641 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 182217000642 DnaA N-terminal domain; Region: DnaA_N; pfam11638 182217000643 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 182217000644 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 182217000645 Walker A motif; other site 182217000646 ATP binding site [chemical binding]; other site 182217000647 Walker B motif; other site 182217000648 arginine finger; other site 182217000649 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 182217000650 DnaA box-binding interface [nucleotide binding]; other site 182217000651 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 182217000652 active site 182217000653 putative catalytic site [active] 182217000654 DNA binding site [nucleotide binding] 182217000655 putative phosphate binding site [ion binding]; other site 182217000656 metal binding site A [ion binding]; metal-binding site 182217000657 AP binding site [nucleotide binding]; other site 182217000658 metal binding site B [ion binding]; metal-binding site 182217000659 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000660 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 182217000661 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 182217000662 generic binding surface II; other site 182217000663 ssDNA binding site; other site 182217000664 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 182217000665 ATP binding site [chemical binding]; other site 182217000666 putative Mg++ binding site [ion binding]; other site 182217000667 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 182217000668 nucleotide binding region [chemical binding]; other site 182217000669 ATP-binding site [chemical binding]; other site 182217000670 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 182217000671 NusA N-terminal domain; Region: NusA_N; pfam08529 182217000672 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 182217000673 RNA binding site [nucleotide binding]; other site 182217000674 homodimer interface [polypeptide binding]; other site 182217000675 NusA-like KH domain; Region: KH_5; pfam13184 182217000676 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 182217000677 G-X-X-G motif; other site 182217000678 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 182217000679 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 182217000680 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 182217000681 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; cl17244 182217000682 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 182217000683 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 182217000684 active site 182217000685 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 182217000686 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 182217000687 4Fe-4S binding domain; Region: Fer4_5; pfam12801 182217000688 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 182217000689 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 182217000690 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 182217000691 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 182217000692 catalytic motif [active] 182217000693 Zn binding site [ion binding]; other site 182217000694 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 182217000695 RibD C-terminal domain; Region: RibD_C; cl17279 182217000696 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 182217000697 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 182217000698 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 182217000699 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 182217000700 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 182217000701 metal-binding site [ion binding] 182217000702 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 182217000703 Soluble P-type ATPase [General function prediction only]; Region: COG4087 182217000704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 182217000705 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000706 potential frameshift: common BLAST hit: gi|331266348|ref|YP_004325978.1| AlwI restriction endonuclease family protein 182217000707 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 182217000708 potential frameshift: common BLAST hit: gi|331266347|ref|YP_004325977.1| site-specific DNA-methyltransferase (adenine-specific) 182217000709 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 182217000710 Predicted permeases [General function prediction only]; Region: COG0795 182217000711 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 182217000712 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 182217000713 putative active site [active] 182217000714 catalytic residue [active] 182217000715 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 182217000716 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 182217000717 5S rRNA interface [nucleotide binding]; other site 182217000718 CTC domain interface [polypeptide binding]; other site 182217000719 L16 interface [polypeptide binding]; other site 182217000720 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 182217000721 putative active site [active] 182217000722 transaldolase; Provisional; Region: PRK03903 182217000723 catalytic residue [active] 182217000724 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 182217000725 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 182217000726 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 182217000727 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 182217000728 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 182217000729 Phosphate transporter family; Region: PHO4; pfam01384 182217000730 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 182217000731 Domain of unknown function DUF21; Region: DUF21; pfam01595 182217000732 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 182217000733 Transporter associated domain; Region: CorC_HlyC; smart01091 182217000734 Outer membrane efflux protein; Region: OEP; pfam02321 182217000735 Outer membrane efflux protein; Region: OEP; pfam02321 182217000736 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 182217000737 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 182217000738 HlyD family secretion protein; Region: HlyD_3; pfam13437 182217000739 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 182217000740 ABC-2 type transporter; Region: ABC2_membrane; cl17235 182217000741 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 182217000742 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 182217000743 Uncharacterized conserved protein [Function unknown]; Region: COG1739 182217000744 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 182217000745 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 182217000746 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 182217000747 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 182217000748 S-adenosylmethionine binding site [chemical binding]; other site 182217000749 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 182217000750 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 182217000751 Predicted amidohydrolase [General function prediction only]; Region: COG0388 182217000752 active site 182217000753 catalytic triad [active] 182217000754 dimer interface [polypeptide binding]; other site 182217000755 seryl-tRNA synthetase; Provisional; Region: PRK05431 182217000756 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 182217000757 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 182217000758 dimer interface [polypeptide binding]; other site 182217000759 active site 182217000760 motif 1; other site 182217000761 motif 2; other site 182217000762 motif 3; other site 182217000763 TPR repeat; Region: TPR_11; pfam13414 182217000764 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 182217000765 TPR motif; other site 182217000766 binding surface 182217000767 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 182217000768 binding surface 182217000769 TPR motif; other site 182217000770 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 182217000771 Part of AAA domain; Region: AAA_19; pfam13245 182217000772 Family description; Region: UvrD_C_2; pfam13538 182217000773 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 182217000774 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 182217000775 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 182217000776 Flavoprotein; Region: Flavoprotein; pfam02441 182217000777 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 182217000778 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 182217000779 active site 182217000780 (T/H)XGH motif; other site 182217000781 thymidylate kinase; Validated; Region: tmk; PRK00698 182217000782 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 182217000783 TMP-binding site; other site 182217000784 ATP-binding site [chemical binding]; other site 182217000785 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 182217000786 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 182217000787 biotin synthase; Provisional; Region: PRK08508 182217000788 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 182217000789 FeS/SAM binding site; other site 182217000790 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 182217000791 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 182217000792 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000793 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000794 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000795 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 182217000796 conserved hypothetical integral membrane protein; Region: TIGR00056 182217000797 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 182217000798 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 182217000799 Walker A/P-loop; other site 182217000800 ATP binding site [chemical binding]; other site 182217000801 Q-loop/lid; other site 182217000802 ABC transporter signature motif; other site 182217000803 Walker B; other site 182217000804 D-loop; other site 182217000805 H-loop/switch region; other site 182217000806 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 182217000807 mce related protein; Region: MCE; pfam02470 182217000808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217000809 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 182217000810 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217000811 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 182217000812 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 182217000813 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 182217000814 active site 182217000815 PHP Thumb interface [polypeptide binding]; other site 182217000816 metal binding site [ion binding]; metal-binding site 182217000817 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 182217000818 generic binding surface I; other site 182217000819 generic binding surface II; other site 182217000820 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 182217000821 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 182217000822 RNA binding surface [nucleotide binding]; other site 182217000823 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 182217000824 active site 182217000825 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 182217000826 catalytic residues [active] 182217000827 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 182217000828 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 182217000829 trmE is a tRNA modification GTPase; Region: trmE; cd04164 182217000830 G1 box; other site 182217000831 Switch I region; other site 182217000832 G2 box; other site 182217000833 Switch II region; other site 182217000834 G3 box; other site 182217000835 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 182217000836 KH domain; Region: KH_4; pfam13083 182217000837 membrane protein insertase; Provisional; Region: PRK01318 182217000838 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 182217000839 Haemolytic domain; Region: Haemolytic; cl00506 182217000840 Ribonuclease P; Region: Ribonuclease_P; cl00457 182217000841 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 182217000842 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 182217000843 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 182217000844 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 182217000845 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 182217000846 SmpB-tmRNA interface; other site 182217000847 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 182217000848 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 182217000849 carbon storage regulator; Provisional; Region: PRK00568 182217000850 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 182217000851 active site 182217000852 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 182217000853 MFS/sugar transport protein; Region: MFS_2; pfam13347 182217000854 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000855 Fic/DOC family; Region: Fic; pfam02661 182217000856 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000857 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 182217000858 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 182217000859 tandem repeat interface [polypeptide binding]; other site 182217000860 oligomer interface [polypeptide binding]; other site 182217000861 active site residues [active] 182217000862 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 182217000863 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 182217000864 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 182217000865 active site 182217000866 substrate binding site [chemical binding]; other site 182217000867 cosubstrate binding site; other site 182217000868 catalytic site [active] 182217000869 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000870 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 182217000871 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 182217000872 FeS/SAM binding site; other site 182217000873 DNA topoisomerase I; Validated; Region: PRK05582 182217000874 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 182217000875 active site 182217000876 interdomain interaction site; other site 182217000877 putative metal-binding site [ion binding]; other site 182217000878 nucleotide binding site [chemical binding]; other site 182217000879 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 182217000880 domain I; other site 182217000881 DNA binding groove [nucleotide binding] 182217000882 phosphate binding site [ion binding]; other site 182217000883 domain II; other site 182217000884 domain III; other site 182217000885 nucleotide binding site [chemical binding]; other site 182217000886 catalytic site [active] 182217000887 domain IV; other site 182217000888 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 182217000889 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 182217000890 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 182217000891 flagellin B; Provisional; Region: PRK13588 182217000892 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 182217000893 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 182217000894 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 182217000895 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 182217000896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 182217000897 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000898 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 182217000899 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 182217000900 KpsF/GutQ family protein; Region: kpsF; TIGR00393 182217000901 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 182217000902 putative active site [active] 182217000903 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 182217000904 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 182217000905 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 182217000906 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 182217000907 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 182217000908 dimethyladenosine transferase; Region: ksgA; TIGR00755 182217000909 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217000910 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 182217000911 RNA binding surface [nucleotide binding]; other site 182217000912 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 182217000913 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 182217000914 active site 182217000915 HIGH motif; other site 182217000916 nucleotide binding site [chemical binding]; other site 182217000917 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 182217000918 active site 182217000919 KMSKS motif; other site 182217000920 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 182217000921 tRNA binding surface [nucleotide binding]; other site 182217000922 anticodon binding site; other site 182217000923 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 182217000924 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 182217000925 ATP binding site [chemical binding]; other site 182217000926 Walker A motif; other site 182217000927 hexamer interface [polypeptide binding]; other site 182217000928 Walker B motif; other site 182217000929 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 182217000930 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 182217000931 Walker A motif/ATP binding site; other site 182217000932 Walker B motif; other site 182217000933 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 182217000934 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 182217000935 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 182217000936 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 182217000937 Sulfatase; Region: Sulfatase; cl17466 182217000938 Sulfatase; Region: Sulfatase; cl17466 182217000939 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 182217000940 IPP transferase; Region: IPPT; pfam01715 182217000941 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 182217000942 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 182217000943 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 182217000944 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 182217000945 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217000946 Uncharacterized conserved protein [Function unknown]; Region: COG1479 182217000947 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217000948 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 182217000949 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 182217000950 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 182217000951 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 182217000952 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 182217000953 substrate binding site [chemical binding]; other site 182217000954 active site 182217000955 catalytic residues [active] 182217000956 heterodimer interface [polypeptide binding]; other site 182217000957 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 182217000958 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 182217000959 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217000960 catalytic residue [active] 182217000961 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 182217000962 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 182217000963 active site 182217000964 ribulose/triose binding site [chemical binding]; other site 182217000965 phosphate binding site [ion binding]; other site 182217000966 substrate (anthranilate) binding pocket [chemical binding]; other site 182217000967 product (indole) binding pocket [chemical binding]; other site 182217000968 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...; Region: PRAI; cd00405 182217000969 active site 182217000970 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 182217000971 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 182217000972 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 182217000973 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 182217000974 Glutamine amidotransferase class-I; Region: GATase; pfam00117 182217000975 glutamine binding [chemical binding]; other site 182217000976 catalytic triad [active] 182217000977 anthranilate synthase component I; Provisional; Region: PRK13564 182217000978 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 182217000979 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 182217000980 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 182217000981 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 182217000982 active site 182217000983 motif I; other site 182217000984 motif II; other site 182217000985 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 182217000986 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 182217000987 Thiamine pyrophosphokinase; Region: TPK; cd07995 182217000988 active site 182217000989 dimerization interface [polypeptide binding]; other site 182217000990 thiamine binding site [chemical binding]; other site 182217000991 Uncharacterized conserved protein [Function unknown]; Region: COG4278 182217000992 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 182217000993 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 182217000994 active site 182217000995 substrate binding site [chemical binding]; other site 182217000996 metal binding site [ion binding]; metal-binding site 182217000997 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 182217000998 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 182217000999 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 182217001000 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 182217001001 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 182217001002 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 182217001003 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 182217001004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 182217001005 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 182217001006 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 182217001007 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 182217001008 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 182217001009 4Fe-4S binding domain; Region: Fer4; pfam00037 182217001010 4Fe-4S binding domain; Region: Fer4; pfam00037 182217001011 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 182217001012 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 182217001013 NADH dehydrogenase subunit G; Validated; Region: PRK08493 182217001014 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 182217001015 catalytic loop [active] 182217001016 iron binding site [ion binding]; other site 182217001017 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 182217001018 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217001019 molybdopterin cofactor binding site; other site 182217001020 NADH dehydrogenase subunit G; Validated; Region: PRK08493 182217001021 NADH dehydrogenase subunit D; Validated; Region: PRK06075 182217001022 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 182217001023 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 182217001024 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 182217001025 NADH dehydrogenase subunit B; Validated; Region: PRK06411 182217001026 NADH dehydrogenase subunit A; Validated; Region: PRK08489 182217001027 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 182217001028 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 182217001029 NAD+ binding site [chemical binding]; other site 182217001030 substrate binding site [chemical binding]; other site 182217001031 Zn binding site [ion binding]; other site 182217001032 RDD family; Region: RDD; pfam06271 182217001033 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 182217001034 active site 182217001035 ribosome recycling factor; Reviewed; Region: frr; PRK00083 182217001036 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 182217001037 hinge region; other site 182217001038 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 182217001039 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 182217001040 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 182217001041 S-adenosylmethionine binding site [chemical binding]; other site 182217001042 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 182217001043 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 182217001044 active site 182217001045 HIGH motif; other site 182217001046 dimer interface [polypeptide binding]; other site 182217001047 KMSKS motif; other site 182217001048 potential frameshift: common BLAST hit: gi|298735724|ref|YP_003728249.1| peptide/nickel transport system substrate-binding protein 182217001049 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 182217001050 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 182217001051 dimer interface [polypeptide binding]; other site 182217001052 conserved gate region; other site 182217001053 ABC-ATPase subunit interface; other site 182217001054 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 182217001055 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 182217001056 dimerization interface [polypeptide binding]; other site 182217001057 putative ATP binding site [chemical binding]; other site 182217001058 Bacterial SH3 domain; Region: SH3_3; pfam08239 182217001059 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 182217001060 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 182217001061 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 182217001062 shikimate binding site; other site 182217001063 NAD(P) binding site [chemical binding]; other site 182217001064 RNB domain; Region: RNB; pfam00773 182217001065 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 182217001066 DNA polymerase III subunit delta; Validated; Region: PRK08487 182217001067 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 182217001068 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 182217001069 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 182217001070 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 182217001071 dimer interface [polypeptide binding]; other site 182217001072 ssDNA binding site [nucleotide binding]; other site 182217001073 tetramer (dimer of dimers) interface [polypeptide binding]; other site 182217001074 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 182217001075 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001076 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001077 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 182217001078 dimerization interface [polypeptide binding]; other site 182217001079 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 182217001080 ATP binding site [chemical binding]; other site 182217001081 Acylphosphatase; Region: Acylphosphatase; pfam00708 182217001082 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 182217001083 HypF finger; Region: zf-HYPF; pfam07503 182217001084 HypF finger; Region: zf-HYPF; pfam07503 182217001085 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 182217001086 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 182217001087 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 182217001088 UGMP family protein; Validated; Region: PRK09604 182217001089 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 182217001090 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 182217001091 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217001092 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 182217001093 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 182217001094 cofactor binding site; other site 182217001095 DNA binding site [nucleotide binding] 182217001096 substrate interaction site [chemical binding]; other site 182217001097 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 182217001098 potential frameshift: common BLAST hit: gi|210134247|ref|YP_002300686.1| restriction endonuclease 182217001099 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 182217001100 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 182217001101 23S rRNA interface [nucleotide binding]; other site 182217001102 L3 interface [polypeptide binding]; other site 182217001103 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 182217001104 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 182217001105 NAD binding site [chemical binding]; other site 182217001106 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 182217001107 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 182217001108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217001109 catalytic residue [active] 182217001110 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 182217001111 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217001112 dimer interface [polypeptide binding]; other site 182217001113 putative CheW interface [polypeptide binding]; other site 182217001114 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 182217001115 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 182217001116 active site 182217001117 homotetramer interface [polypeptide binding]; other site 182217001118 homodimer interface [polypeptide binding]; other site 182217001119 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 182217001120 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 182217001121 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 182217001122 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 182217001123 Walker A motif; other site 182217001124 ATP binding site [chemical binding]; other site 182217001125 Walker B motif; other site 182217001126 arginine finger; other site 182217001127 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 182217001128 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 182217001129 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 182217001130 Walker A/P-loop; other site 182217001131 ATP binding site [chemical binding]; other site 182217001132 Q-loop/lid; other site 182217001133 ABC transporter signature motif; other site 182217001134 Walker B; other site 182217001135 D-loop; other site 182217001136 H-loop/switch region; other site 182217001137 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 182217001138 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 182217001139 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 182217001140 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 182217001141 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 182217001142 HD domain; Region: HD_3; pfam13023 182217001143 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 182217001144 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 182217001145 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 182217001146 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 182217001147 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 182217001148 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 182217001149 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 182217001150 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 182217001151 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 182217001152 DNA binding residues [nucleotide binding] 182217001153 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 182217001154 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 182217001155 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 182217001156 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 182217001157 NlpC/P60 family; Region: NLPC_P60; cl17555 182217001158 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 182217001159 Predicted dehydrogenase [General function prediction only]; Region: COG0579 182217001160 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 182217001161 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 182217001162 active site 182217001163 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 182217001164 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 182217001165 Mg++ binding site [ion binding]; other site 182217001166 putative catalytic motif [active] 182217001167 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 182217001168 active site 182217001169 hydrophilic channel; other site 182217001170 dimerization interface [polypeptide binding]; other site 182217001171 catalytic residues [active] 182217001172 active site lid [active] 182217001173 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 182217001174 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 182217001175 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 182217001176 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 182217001177 Na binding site [ion binding]; other site 182217001178 Proline dehydrogenase; Region: Pro_dh; pfam01619 182217001179 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 182217001180 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 182217001181 Glutamate binding site [chemical binding]; other site 182217001182 NAD binding site [chemical binding]; other site 182217001183 catalytic residues [active] 182217001184 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 182217001185 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 182217001186 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 182217001187 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 182217001188 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 182217001189 G1 box; other site 182217001190 GTP/Mg2+ binding site [chemical binding]; other site 182217001191 G2 box; other site 182217001192 Switch I region; other site 182217001193 G3 box; other site 182217001194 Switch II region; other site 182217001195 G4 box; other site 182217001196 G5 box; other site 182217001197 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 182217001198 UreF; Region: UreF; pfam01730 182217001199 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 182217001200 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 182217001201 dimer interface [polypeptide binding]; other site 182217001202 catalytic residues [active] 182217001203 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 182217001204 urease subunit beta; Provisional; Region: ureB; PRK13985 182217001205 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 182217001206 subunit interactions [polypeptide binding]; other site 182217001207 active site 182217001208 flap region; other site 182217001209 urease subunit alpha; Provisional; Region: PRK13986 182217001210 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 182217001211 alpha-gamma subunit interface [polypeptide binding]; other site 182217001212 beta-gamma subunit interface [polypeptide binding]; other site 182217001213 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 182217001214 gamma-beta subunit interface [polypeptide binding]; other site 182217001215 alpha-beta subunit interface [polypeptide binding]; other site 182217001216 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 182217001217 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 182217001218 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 182217001219 active site 182217001220 substrate binding site [chemical binding]; other site 182217001221 metal binding site [ion binding]; metal-binding site 182217001222 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 182217001223 peptide chain release factor 1; Validated; Region: prfA; PRK00591 182217001224 This domain is found in peptide chain release factors; Region: PCRF; smart00937 182217001225 RF-1 domain; Region: RF-1; pfam00472 182217001226 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001227 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 182217001228 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 182217001229 dimer interface [polypeptide binding]; other site 182217001230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217001231 catalytic residue [active] 182217001232 serine O-acetyltransferase; Region: cysE; TIGR01172 182217001233 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 182217001234 trimer interface [polypeptide binding]; other site 182217001235 active site 182217001236 substrate binding site [chemical binding]; other site 182217001237 CoA binding site [chemical binding]; other site 182217001238 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001239 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001240 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 182217001241 phosphoenolpyruvate synthase; Validated; Region: PRK06464 182217001242 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 182217001243 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 182217001244 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 182217001245 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 182217001246 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 182217001247 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 182217001248 active site 182217001249 dimer interface [polypeptide binding]; other site 182217001250 motif 1; other site 182217001251 motif 2; other site 182217001252 motif 3; other site 182217001253 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 182217001254 anticodon binding site; other site 182217001255 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 182217001256 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 182217001257 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 182217001258 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 182217001259 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 182217001260 23S rRNA binding site [nucleotide binding]; other site 182217001261 L21 binding site [polypeptide binding]; other site 182217001262 L13 binding site [polypeptide binding]; other site 182217001263 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001264 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 182217001265 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 182217001266 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 182217001267 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 182217001268 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 182217001269 serine transporter; Region: stp; TIGR00814 182217001270 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 182217001271 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 182217001272 dihydropteroate synthase; Region: DHPS; TIGR01496 182217001273 substrate binding pocket [chemical binding]; other site 182217001274 dimer interface [polypeptide binding]; other site 182217001275 inhibitor binding site; inhibition site 182217001276 DNA polymerase III subunit delta'; Validated; Region: PRK08485 182217001277 DNA replication regulator; Region: HobA; pfam12163 182217001278 aspartate kinase; Reviewed; Region: PRK06635 182217001279 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 182217001280 putative nucleotide binding site [chemical binding]; other site 182217001281 putative catalytic residues [active] 182217001282 putative Mg ion binding site [ion binding]; other site 182217001283 putative aspartate binding site [chemical binding]; other site 182217001284 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 182217001285 putative allosteric regulatory site; other site 182217001286 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 182217001287 putative allosteric regulatory residue; other site 182217001288 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 182217001289 putative active site [active] 182217001290 Ap4A binding site [chemical binding]; other site 182217001291 nudix motif; other site 182217001292 putative metal binding site [ion binding]; other site 182217001293 Cytochrome c; Region: Cytochrom_C; cl11414 182217001294 Cytochrome c553 [Energy production and conversion]; Region: COG2863 182217001295 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 182217001296 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 182217001297 FeS/SAM binding site; other site 182217001298 HemN C-terminal domain; Region: HemN_C; pfam06969 182217001299 camphor resistance protein CrcB; Provisional; Region: PRK14204 182217001300 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 182217001301 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 182217001302 active site 182217001303 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 182217001304 active site residue [active] 182217001305 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 182217001306 FAD binding domain; Region: FAD_binding_4; pfam01565 182217001307 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 182217001308 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 182217001309 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 182217001310 catalytic residue [active] 182217001311 putative FPP diphosphate binding site; other site 182217001312 putative FPP binding hydrophobic cleft; other site 182217001313 dimer interface [polypeptide binding]; other site 182217001314 putative IPP diphosphate binding site; other site 182217001315 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 182217001316 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 182217001317 Walker A/P-loop; other site 182217001318 ATP binding site [chemical binding]; other site 182217001319 Q-loop/lid; other site 182217001320 ABC transporter signature motif; other site 182217001321 Walker B; other site 182217001322 D-loop; other site 182217001323 H-loop/switch region; other site 182217001324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 182217001325 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 182217001326 active site 182217001327 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 182217001328 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 182217001329 Int/Topo IB signature motif; other site 182217001330 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 182217001331 Helix-turn-helix domain; Region: HTH_36; pfam13730 182217001332 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 182217001333 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 182217001334 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217001335 Walker A motif; other site 182217001336 ATP binding site [chemical binding]; other site 182217001337 Walker B motif; other site 182217001338 DNA primase, catalytic core; Region: dnaG; TIGR01391 182217001339 CHC2 zinc finger; Region: zf-CHC2; cl17510 182217001340 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 182217001341 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 182217001342 active site 182217001343 interdomain interaction site; other site 182217001344 metal binding site [ion binding]; metal-binding site 182217001345 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 182217001346 Active Sites [active] 182217001347 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 182217001348 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 182217001349 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 182217001350 Fic/DOC family; Region: Fic; cl00960 182217001351 Predicted amidohydrolase [General function prediction only]; Region: COG0388 182217001352 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 182217001353 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 182217001354 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 182217001355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 182217001356 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 182217001357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 182217001358 NAD(P) binding site [chemical binding]; other site 182217001359 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 182217001360 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 182217001361 recombinase A; Provisional; Region: recA; PRK09354 182217001362 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 182217001363 hexamer interface [polypeptide binding]; other site 182217001364 Walker A motif; other site 182217001365 ATP binding site [chemical binding]; other site 182217001366 Walker B motif; other site 182217001367 enolase; Provisional; Region: eno; PRK00077 182217001368 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 182217001369 dimer interface [polypeptide binding]; other site 182217001370 metal binding site [ion binding]; metal-binding site 182217001371 substrate binding pocket [chemical binding]; other site 182217001372 AMIN domain; Region: AMIN; pfam11741 182217001373 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 182217001374 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 182217001375 ADP binding site [chemical binding]; other site 182217001376 magnesium binding site [ion binding]; other site 182217001377 putative shikimate binding site; other site 182217001378 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001379 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 182217001380 PLD-like domain; Region: PLDc_2; pfam13091 182217001381 putative active site [active] 182217001382 catalytic site [active] 182217001383 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 182217001384 PLD-like domain; Region: PLDc_2; pfam13091 182217001385 putative active site [active] 182217001386 catalytic site [active] 182217001387 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 182217001388 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 182217001389 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 182217001390 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 182217001391 L-aspartate oxidase; Provisional; Region: PRK06175 182217001392 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 182217001393 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 182217001394 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 182217001395 Iron-sulfur protein interface; other site 182217001396 proximal heme binding site [chemical binding]; other site 182217001397 distal heme binding site [chemical binding]; other site 182217001398 dimer interface [polypeptide binding]; other site 182217001399 triosephosphate isomerase; Provisional; Region: PRK14567 182217001400 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 182217001401 substrate binding site [chemical binding]; other site 182217001402 dimer interface [polypeptide binding]; other site 182217001403 catalytic triad [active] 182217001404 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 182217001405 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 182217001406 NAD binding site [chemical binding]; other site 182217001407 homotetramer interface [polypeptide binding]; other site 182217001408 homodimer interface [polypeptide binding]; other site 182217001409 substrate binding site [chemical binding]; other site 182217001410 active site 182217001411 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 182217001412 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 182217001413 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 182217001414 trimer interface [polypeptide binding]; other site 182217001415 active site 182217001416 UDP-GlcNAc binding site [chemical binding]; other site 182217001417 lipid binding site [chemical binding]; lipid-binding site 182217001418 S-adenosylmethionine synthetase; Validated; Region: PRK05250 182217001419 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 182217001420 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 182217001421 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 182217001422 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 182217001423 active site 182217001424 multimer interface [polypeptide binding]; other site 182217001425 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 182217001426 putative phosphate acyltransferase; Provisional; Region: PRK05331 182217001427 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 182217001428 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 182217001429 dimer interface [polypeptide binding]; other site 182217001430 active site 182217001431 CoA binding pocket [chemical binding]; other site 182217001432 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001433 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 182217001434 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 182217001435 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 182217001436 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 182217001437 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 182217001438 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 182217001439 flavodoxin FldA; Validated; Region: PRK09267 182217001440 metal-binding heat shock protein; Provisional; Region: PRK00016 182217001441 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 182217001442 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 182217001443 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001444 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001445 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001446 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001447 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 182217001448 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 182217001449 active site 182217001450 homodimer interface [polypeptide binding]; other site 182217001451 flagellar assembly protein FliW; Provisional; Region: PRK13283 182217001452 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 182217001453 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 182217001454 active site 182217001455 HIGH motif; other site 182217001456 nucleotide binding site [chemical binding]; other site 182217001457 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 182217001458 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 182217001459 active site 182217001460 KMSKS motif; other site 182217001461 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 182217001462 anticodon binding site; other site 182217001463 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 182217001464 signal recognition particle protein; Provisional; Region: PRK10867 182217001465 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 182217001466 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 182217001467 P loop; other site 182217001468 GTP binding site [chemical binding]; other site 182217001469 Signal peptide binding domain; Region: SRP_SPB; pfam02978 182217001470 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 182217001471 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 182217001472 KH domain; Region: KH_4; pfam13083 182217001473 RimM N-terminal domain; Region: RimM; pfam01782 182217001474 PRC-barrel domain; Region: PRC; pfam05239 182217001475 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 182217001476 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 182217001477 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001478 EamA-like transporter family; Region: EamA; pfam00892 182217001479 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001480 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001481 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001482 AAA domain; Region: AAA_11; pfam13086 182217001483 Part of AAA domain; Region: AAA_19; pfam13245 182217001484 AAA domain; Region: AAA_30; pfam13604 182217001485 AAA domain; Region: AAA_12; pfam13087 182217001486 PIN domain; Region: PIN_Smg5-Smg6-like; cd09880 182217001487 putative active site [active] 182217001488 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 182217001489 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 182217001490 Walker A motif; other site 182217001491 ATP binding site [chemical binding]; other site 182217001492 Walker B motif; other site 182217001493 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 182217001494 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 182217001495 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 182217001496 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 182217001497 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 182217001498 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 182217001499 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 182217001500 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 182217001501 Organic solvent tolerance protein; Region: OstA_C; pfam04453 182217001502 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 182217001503 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 182217001504 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 182217001505 oligomer interface [polypeptide binding]; other site 182217001506 RNA binding site [nucleotide binding]; other site 182217001507 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 182217001508 oligomer interface [polypeptide binding]; other site 182217001509 RNA binding site [nucleotide binding]; other site 182217001510 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 182217001511 putative nucleic acid binding region [nucleotide binding]; other site 182217001512 G-X-X-G motif; other site 182217001513 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 182217001514 RNA binding site [nucleotide binding]; other site 182217001515 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217001516 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217001517 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 182217001518 Sulfatase; Region: Sulfatase; cl17466 182217001519 carbon starvation protein A; Provisional; Region: PRK15015 182217001520 Carbon starvation protein CstA; Region: CstA; pfam02554 182217001521 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 182217001522 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 182217001523 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 182217001524 putative active site [active] 182217001525 putative metal binding site [ion binding]; other site 182217001526 potential frameshift: common BLAST hit: gi|315453671|ref|YP_004073941.1| putative glycosyltransferase 182217001527 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 182217001528 metal-binding site 182217001529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 182217001530 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 182217001531 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 182217001532 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 182217001533 inhibitor-cofactor binding pocket; inhibition site 182217001534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217001535 catalytic residue [active] 182217001536 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 182217001537 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 182217001538 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 182217001539 G1 box; other site 182217001540 GTP/Mg2+ binding site [chemical binding]; other site 182217001541 G2 box; other site 182217001542 Switch I region; other site 182217001543 G3 box; other site 182217001544 Switch II region; other site 182217001545 G4 box; other site 182217001546 G5 box; other site 182217001547 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 182217001548 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 182217001549 Restriction endonuclease; Region: Mrr_cat; pfam04471 182217001550 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 182217001551 active site 182217001552 Zn binding site [ion binding]; other site 182217001553 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 182217001554 Predicted ATPases [General function prediction only]; Region: COG1106 182217001555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217001556 Walker A/P-loop; other site 182217001557 ATP binding site [chemical binding]; other site 182217001558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217001559 Walker B; other site 182217001560 D-loop; other site 182217001561 H-loop/switch region; other site 182217001562 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 182217001563 Restriction endonuclease; Region: Mrr_cat; pfam04471 182217001564 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 182217001565 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 182217001566 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 182217001567 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217001568 Walker A/P-loop; other site 182217001569 ATP binding site [chemical binding]; other site 182217001570 Q-loop/lid; other site 182217001571 ABC transporter signature motif; other site 182217001572 Walker B; other site 182217001573 D-loop; other site 182217001574 H-loop/switch region; other site 182217001575 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 182217001576 binding surface 182217001577 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217001578 TPR motif; other site 182217001579 Sel1-like repeats; Region: SEL1; smart00671 182217001580 Sel1-like repeats; Region: SEL1; smart00671 182217001581 Sel1-like repeats; Region: SEL1; smart00671 182217001582 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 182217001583 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 182217001584 metal-binding site [ion binding] 182217001585 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 182217001586 metal-binding site [ion binding] 182217001587 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 182217001588 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 182217001589 Soluble P-type ATPase [General function prediction only]; Region: COG4087 182217001590 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 182217001591 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 182217001592 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 182217001593 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 182217001594 Walker A motif; other site 182217001595 ATP binding site [chemical binding]; other site 182217001596 Walker B motif; other site 182217001597 arginine finger; other site 182217001598 Peptidase family M41; Region: Peptidase_M41; pfam01434 182217001599 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 182217001600 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 182217001601 S-adenosylmethionine binding site [chemical binding]; other site 182217001602 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 182217001603 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 182217001604 active site 182217001605 phosphorylation site [posttranslational modification] 182217001606 intermolecular recognition site; other site 182217001607 dimerization interface [polypeptide binding]; other site 182217001608 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001609 Prokaryotic metallothionein; Region: Metallothio_Pro; pfam02069 182217001610 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 182217001611 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 182217001612 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 182217001613 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 182217001614 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 182217001615 sec-independent translocase; Provisional; Region: PRK04098 182217001616 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 182217001617 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 182217001618 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 182217001619 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 182217001620 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 182217001621 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 182217001622 Walker A motif; other site 182217001623 ATP binding site [chemical binding]; other site 182217001624 Walker B motif; other site 182217001625 arginine finger; other site 182217001626 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 182217001627 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 182217001628 oligomerization interface [polypeptide binding]; other site 182217001629 active site 182217001630 metal binding site [ion binding]; metal-binding site 182217001631 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001632 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001633 Peptidase family M23; Region: Peptidase_M23; pfam01551 182217001634 septum formation inhibitor; Reviewed; Region: minC; PRK00556 182217001635 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 182217001636 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 182217001637 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 182217001638 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 182217001639 homoserine kinase; Region: thrB; TIGR00191 182217001640 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 182217001641 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 182217001642 putative RNA binding cleft [nucleotide binding]; other site 182217001643 translation initiation factor IF-2; Region: IF-2; TIGR00487 182217001644 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 182217001645 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 182217001646 G1 box; other site 182217001647 putative GEF interaction site [polypeptide binding]; other site 182217001648 GTP/Mg2+ binding site [chemical binding]; other site 182217001649 Switch I region; other site 182217001650 G2 box; other site 182217001651 G3 box; other site 182217001652 Switch II region; other site 182217001653 G4 box; other site 182217001654 G5 box; other site 182217001655 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 182217001656 Translation-initiation factor 2; Region: IF-2; pfam11987 182217001657 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 182217001658 Ribosome-binding factor A; Region: RBFA; cl00542 182217001659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 182217001660 Sm and related proteins; Region: Sm_like; cl00259 182217001661 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 182217001662 putative oligomer interface [polypeptide binding]; other site 182217001663 putative RNA binding site [nucleotide binding]; other site 182217001664 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 182217001665 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 182217001666 putative active site [active] 182217001667 putative metal binding site [ion binding]; other site 182217001668 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 182217001669 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 182217001670 active site 182217001671 intermolecular recognition site; other site 182217001672 dimerization interface [polypeptide binding]; other site 182217001673 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 182217001674 DNA binding site [nucleotide binding] 182217001675 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 182217001676 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 182217001677 FHIPEP family; Region: FHIPEP; pfam00771 182217001678 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 182217001679 16S/18S rRNA binding site [nucleotide binding]; other site 182217001680 S13e-L30e interaction site [polypeptide binding]; other site 182217001681 25S rRNA binding site [nucleotide binding]; other site 182217001682 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 182217001683 O-Antigen ligase; Region: Wzy_C; pfam04932 182217001684 Dehydroquinase class II; Region: DHquinase_II; pfam01220 182217001685 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 182217001686 trimer interface [polypeptide binding]; other site 182217001687 active site 182217001688 dimer interface [polypeptide binding]; other site 182217001689 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 182217001690 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 182217001691 active site 182217001692 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 182217001693 catalytic center binding site [active] 182217001694 ATP binding site [chemical binding]; other site 182217001695 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 182217001696 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 182217001697 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 182217001698 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 182217001699 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 182217001700 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 182217001701 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 182217001702 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 182217001703 DNA binding residues [nucleotide binding] 182217001704 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 182217001705 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 182217001706 flagellar motor switch protein FliY; Validated; Region: PRK08432 182217001707 flagellar motor switch protein FliN; Region: fliN; TIGR02480 182217001708 Domain of unknown function (DUF386); Region: DUF386; cl01047 182217001709 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 182217001710 ferric uptake regulator; Provisional; Region: fur; PRK09462 182217001711 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 182217001712 metal binding site 2 [ion binding]; metal-binding site 182217001713 putative DNA binding helix; other site 182217001714 metal binding site 1 [ion binding]; metal-binding site 182217001715 dimer interface [polypeptide binding]; other site 182217001716 structural Zn2+ binding site [ion binding]; other site 182217001717 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 182217001718 recombination factor protein RarA; Reviewed; Region: PRK13342 182217001719 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 182217001720 Walker A motif; other site 182217001721 ATP binding site [chemical binding]; other site 182217001722 Walker B motif; other site 182217001723 arginine finger; other site 182217001724 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 182217001725 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 182217001726 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 182217001727 DNA binding residues [nucleotide binding] 182217001728 putative dimer interface [polypeptide binding]; other site 182217001729 chaperone protein DnaJ; Provisional; Region: PRK14299 182217001730 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 182217001731 HSP70 interaction site [polypeptide binding]; other site 182217001732 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 182217001733 substrate binding site [polypeptide binding]; other site 182217001734 dimer interface [polypeptide binding]; other site 182217001735 5'-3' exonuclease; Provisional; Region: PRK14976 182217001736 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 182217001737 DNA binding site [nucleotide binding] 182217001738 metal binding site [ion binding]; metal-binding site 182217001739 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 182217001740 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 182217001741 active site 182217001742 dimerization interface [polypeptide binding]; other site 182217001743 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 182217001744 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 182217001745 substrate binding site; other site 182217001746 dimer interface; other site 182217001747 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 182217001748 homotrimer interaction site [polypeptide binding]; other site 182217001749 zinc binding site [ion binding]; other site 182217001750 CDP-binding sites; other site 182217001751 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 182217001752 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 182217001753 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 182217001754 protein binding site [polypeptide binding]; other site 182217001755 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 182217001756 protein binding site [polypeptide binding]; other site 182217001757 S-methylmethionine transporter; Provisional; Region: PRK11387 182217001758 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 182217001759 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 182217001760 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 182217001761 putative NAD(P) binding site [chemical binding]; other site 182217001762 active site 182217001763 dihydrodipicolinate synthase; Region: dapA; TIGR00674 182217001764 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 182217001765 dimer interface [polypeptide binding]; other site 182217001766 active site 182217001767 catalytic residue [active] 182217001768 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 182217001769 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 182217001770 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 182217001771 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 182217001772 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 182217001773 quinone interaction residues [chemical binding]; other site 182217001774 active site 182217001775 catalytic residues [active] 182217001776 FMN binding site [chemical binding]; other site 182217001777 substrate binding site [chemical binding]; other site 182217001778 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 182217001779 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 182217001780 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 182217001781 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 182217001782 putative domain interface [polypeptide binding]; other site 182217001783 putative active site [active] 182217001784 catalytic site [active] 182217001785 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 182217001786 putative domain interface [polypeptide binding]; other site 182217001787 putative active site [active] 182217001788 catalytic site [active] 182217001789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 182217001790 pseudaminic acid synthase; Region: PseI; TIGR03586 182217001791 NeuB family; Region: NeuB; pfam03102 182217001792 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 182217001793 NeuB binding interface [polypeptide binding]; other site 182217001794 putative substrate binding site [chemical binding]; other site 182217001795 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 182217001796 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 182217001797 Walker A/P-loop; other site 182217001798 ATP binding site [chemical binding]; other site 182217001799 Q-loop/lid; other site 182217001800 ABC transporter signature motif; other site 182217001801 Walker B; other site 182217001802 D-loop; other site 182217001803 H-loop/switch region; other site 182217001804 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 182217001805 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 182217001806 active site 182217001807 catalytic triad [active] 182217001808 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 182217001809 Colicin V production protein; Region: Colicin_V; pfam02674 182217001810 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 182217001811 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 182217001812 dimer interface [polypeptide binding]; other site 182217001813 putative anticodon binding site; other site 182217001814 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 182217001815 motif 1; other site 182217001816 active site 182217001817 motif 2; other site 182217001818 motif 3; other site 182217001819 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 182217001820 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 182217001821 dimer interface [polypeptide binding]; other site 182217001822 active site 182217001823 glycine-pyridoxal phosphate binding site [chemical binding]; other site 182217001824 folate binding site [chemical binding]; other site 182217001825 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 182217001826 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 182217001827 Sporulation related domain; Region: SPOR; pfam05036 182217001828 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001829 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217001830 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001831 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 182217001832 PAS fold; Region: PAS_3; pfam08447 182217001833 putative active site [active] 182217001834 heme pocket [chemical binding]; other site 182217001835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217001836 putative CheW interface [polypeptide binding]; other site 182217001837 heat shock protein 90; Provisional; Region: PRK05218 182217001838 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 182217001839 ATP binding site [chemical binding]; other site 182217001840 Mg2+ binding site [ion binding]; other site 182217001841 G-X-G motif; other site 182217001842 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 182217001843 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001844 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001845 antiporter inner membrane protein; Provisional; Region: PRK11670 182217001846 Domain of unknown function DUF59; Region: DUF59; pfam01883 182217001847 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 182217001848 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 182217001849 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 182217001850 N-terminal plug; other site 182217001851 ligand-binding site [chemical binding]; other site 182217001852 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217001853 Sel1-like repeats; Region: SEL1; smart00671 182217001854 Sel1-like repeats; Region: SEL1; smart00671 182217001855 Sel1-like repeats; Region: SEL1; smart00671 182217001856 Sel1-like repeats; Region: SEL1; smart00671 182217001857 Sel1-like repeats; Region: SEL1; smart00671 182217001858 Sel1-like repeats; Region: SEL1; smart00671 182217001859 Sel1-like repeats; Region: SEL1; smart00671 182217001860 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 182217001861 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 182217001862 Mg2+ binding site [ion binding]; other site 182217001863 G-X-G motif; other site 182217001864 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 182217001865 anchoring element; other site 182217001866 dimer interface [polypeptide binding]; other site 182217001867 ATP binding site [chemical binding]; other site 182217001868 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 182217001869 active site 182217001870 putative metal-binding site [ion binding]; other site 182217001871 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 182217001872 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 182217001873 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 182217001874 putative DNA binding surface [nucleotide binding]; other site 182217001875 dimer interface [polypeptide binding]; other site 182217001876 beta-clamp/translesion DNA polymerase binding surface; other site 182217001877 beta-clamp/clamp loader binding surface; other site 182217001878 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cl00248 182217001879 dimerization interface [polypeptide binding]; other site 182217001880 substrate binding site [chemical binding]; other site 182217001881 active site 182217001882 calcium binding site [ion binding]; other site 182217001883 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 182217001884 Na2 binding site [ion binding]; other site 182217001885 putative substrate binding site 1 [chemical binding]; other site 182217001886 Na binding site 1 [ion binding]; other site 182217001887 putative substrate binding site 2 [chemical binding]; other site 182217001888 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 182217001889 Na2 binding site [ion binding]; other site 182217001890 putative substrate binding site 1 [chemical binding]; other site 182217001891 Na binding site 1 [ion binding]; other site 182217001892 putative substrate binding site 2 [chemical binding]; other site 182217001893 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 182217001894 active site 182217001895 Protein of unknown function (DUF493); Region: DUF493; pfam04359 182217001896 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 182217001897 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 182217001898 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 182217001899 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 182217001900 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 182217001901 Mg++ binding site [ion binding]; other site 182217001902 putative catalytic motif [active] 182217001903 putative substrate binding site [chemical binding]; other site 182217001904 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 182217001905 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 182217001906 Cation transport protein; Region: TrkH; cl17365 182217001907 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 182217001908 TrkA-N domain; Region: TrkA_N; pfam02254 182217001909 TrkA-C domain; Region: TrkA_C; pfam02080 182217001910 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001911 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 182217001912 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 182217001913 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 182217001914 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 182217001915 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001916 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217001917 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 182217001918 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 182217001919 N-terminal plug; other site 182217001920 ligand-binding site [chemical binding]; other site 182217001921 HNH endonuclease; Region: HNH_2; pfam13391 182217001922 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 182217001923 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 182217001924 Ligand Binding Site [chemical binding]; other site 182217001925 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 182217001926 Major Facilitator Superfamily; Region: MFS_1; pfam07690 182217001927 putative substrate translocation pore; other site 182217001928 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 182217001929 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 182217001930 Nucleoside recognition; Region: Gate; pfam07670 182217001931 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 182217001932 phosphopentomutase; Provisional; Region: PRK05362 182217001933 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 182217001934 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 182217001935 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 182217001936 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217001937 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217001938 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 182217001939 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 182217001940 short chain dehydrogenase; Validated; Region: PRK06182 182217001941 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 182217001942 NADP binding site [chemical binding]; other site 182217001943 active site 182217001944 steroid binding site; other site 182217001945 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 182217001946 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 182217001947 ABC-ATPase subunit interface; other site 182217001948 dimer interface [polypeptide binding]; other site 182217001949 putative PBP binding regions; other site 182217001950 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 182217001951 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 182217001952 Walker A/P-loop; other site 182217001953 ATP binding site [chemical binding]; other site 182217001954 Q-loop/lid; other site 182217001955 ABC transporter signature motif; other site 182217001956 Walker B; other site 182217001957 D-loop; other site 182217001958 H-loop/switch region; other site 182217001959 Vacuolating cyotoxin; Region: VacA; pfam02691 182217001960 Autotransporter beta-domain; Region: Autotransporter; pfam03797 182217001961 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 182217001962 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 182217001963 active site 182217001964 HIGH motif; other site 182217001965 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 182217001966 KMSKS motif; other site 182217001967 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 182217001968 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 182217001969 MviN-like protein; Region: MVIN; pfam03023 182217001970 Protein of unknown function (DUF342); Region: DUF342; pfam03961 182217001971 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 182217001972 RuvA N terminal domain; Region: RuvA_N; pfam01330 182217001973 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 182217001974 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...; Region: RuvC_resolvase; cd00529 182217001975 active site 182217001976 putative DNA-binding cleft [nucleotide binding]; other site 182217001977 dimer interface [polypeptide binding]; other site 182217001978 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 182217001979 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 182217001980 tetramer interface [polypeptide binding]; other site 182217001981 heme binding pocket [chemical binding]; other site 182217001982 NADPH binding site [chemical binding]; other site 182217001983 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 182217001984 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 182217001985 PhnA protein; Region: PhnA; pfam03831 182217001986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217001987 AAA domain; Region: AAA_21; pfam13304 182217001988 Walker A/P-loop; other site 182217001989 ATP binding site [chemical binding]; other site 182217001990 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217001991 Walker B; other site 182217001992 D-loop; other site 182217001993 H-loop/switch region; other site 182217001994 potential frameshift: common BLAST hit: gi|254779130|ref|YP_003057235.1| type I restriction/modification specificity protein 182217001995 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 182217001996 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 182217001997 S-adenosylmethionine binding site [chemical binding]; other site 182217001998 potential frameshift: common BLAST hit: gi|298736616|ref|YP_003729142.1| type I restriction enzyme subunit R 182217001999 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 182217002000 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 182217002001 AAA domain; Region: AAA_23; pfam13476 182217002002 AAA domain; Region: AAA_21; pfam13304 182217002003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217002004 Walker B; other site 182217002005 D-loop; other site 182217002006 H-loop/switch region; other site 182217002007 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 182217002008 GTP-binding protein LepA; Provisional; Region: PRK05433 182217002009 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 182217002010 G1 box; other site 182217002011 putative GEF interaction site [polypeptide binding]; other site 182217002012 GTP/Mg2+ binding site [chemical binding]; other site 182217002013 Switch I region; other site 182217002014 G2 box; other site 182217002015 G3 box; other site 182217002016 Switch II region; other site 182217002017 G4 box; other site 182217002018 G5 box; other site 182217002019 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 182217002020 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 182217002021 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 182217002022 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 182217002023 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 182217002024 TPP-binding site; other site 182217002025 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 182217002026 PYR/PP interface [polypeptide binding]; other site 182217002027 dimer interface [polypeptide binding]; other site 182217002028 TPP binding site [chemical binding]; other site 182217002029 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 182217002030 flagellar assembly protein H; Validated; Region: fliH; PRK06669 182217002031 Flagellar assembly protein FliH; Region: FliH; pfam02108 182217002032 flagellar motor switch protein FliG; Region: fliG; TIGR00207 182217002033 FliG C-terminal domain; Region: FliG_C; pfam01706 182217002034 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 182217002035 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 182217002036 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 182217002037 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 182217002038 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 182217002039 active site 182217002040 CTP synthetase; Validated; Region: pyrG; PRK05380 182217002041 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 182217002042 Catalytic site [active] 182217002043 active site 182217002044 UTP binding site [chemical binding]; other site 182217002045 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 182217002046 active site 182217002047 putative oxyanion hole; other site 182217002048 catalytic triad [active] 182217002049 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 182217002050 DHH family; Region: DHH; pfam01368 182217002051 DHHA1 domain; Region: DHHA1; pfam02272 182217002052 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 182217002053 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 182217002054 RNA binding surface [nucleotide binding]; other site 182217002055 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 182217002056 active site 182217002057 TRL-like protein family; Region: TRL; pfam13146 182217002058 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 182217002059 ParA-like protein; Provisional; Region: PHA02518 182217002060 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 182217002061 P-loop; other site 182217002062 Magnesium ion binding site [ion binding]; other site 182217002063 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 182217002064 active site 182217002065 catalytic residues [active] 182217002066 DNA binding site [nucleotide binding] 182217002067 Int/Topo IB signature motif; other site 182217002068 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217002069 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 182217002070 DEAD-like helicases superfamily; Region: DEXDc; smart00487 182217002071 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 182217002072 helicase superfamily c-terminal domain; Region: HELICc; smart00490 182217002073 PemK-like protein; Region: PemK; pfam02452 182217002074 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 182217002075 HipA-like N-terminal domain; Region: HipA_N; pfam07805 182217002076 HipA-like C-terminal domain; Region: HipA_C; pfam07804 182217002077 HipA-like C-terminal domain; Region: HipA_C; pfam07804 182217002078 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217002079 Walker A motif; other site 182217002080 ATP binding site [chemical binding]; other site 182217002081 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 182217002082 Walker B motif; other site 182217002083 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 182217002084 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 182217002085 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 182217002086 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 182217002087 active site 182217002088 interdomain interaction site; other site 182217002089 putative metal-binding site [ion binding]; other site 182217002090 nucleotide binding site [chemical binding]; other site 182217002091 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 182217002092 domain I; other site 182217002093 DNA binding groove [nucleotide binding] 182217002094 phosphate binding site [ion binding]; other site 182217002095 domain II; other site 182217002096 domain III; other site 182217002097 nucleotide binding site [chemical binding]; other site 182217002098 catalytic site [active] 182217002099 domain IV; other site 182217002100 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 182217002101 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217002102 Walker A motif; other site 182217002103 ATP binding site [chemical binding]; other site 182217002104 Walker B motif; other site 182217002105 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 182217002106 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 182217002107 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 182217002108 VirB7 interaction site; other site 182217002109 VirB8 protein; Region: VirB8; cl01500 182217002110 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 182217002111 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 182217002112 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217002113 Walker A motif; other site 182217002114 ATP binding site [chemical binding]; other site 182217002115 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 182217002116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 182217002117 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002118 potential frameshift: common BLAST hit: gi|208434817|ref|YP_002266483.1| outer membrane protein 182217002119 Response regulator receiver domain; Region: Response_reg; pfam00072 182217002120 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 182217002121 active site 182217002122 phosphorylation site [posttranslational modification] 182217002123 intermolecular recognition site; other site 182217002124 dimerization interface [polypeptide binding]; other site 182217002125 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 182217002126 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 182217002127 Walker A motif; other site 182217002128 ATP binding site [chemical binding]; other site 182217002129 Walker B motif; other site 182217002130 arginine finger; other site 182217002131 DNA gyrase subunit A; Validated; Region: PRK05560 182217002132 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 182217002133 CAP-like domain; other site 182217002134 active site 182217002135 primary dimer interface [polypeptide binding]; other site 182217002136 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 182217002137 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 182217002138 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 182217002139 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 182217002140 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 182217002141 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 182217002142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 182217002143 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 182217002144 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 182217002145 dimerization interface [polypeptide binding]; other site 182217002146 ATP binding site [chemical binding]; other site 182217002147 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 182217002148 dimerization interface [polypeptide binding]; other site 182217002149 ATP binding site [chemical binding]; other site 182217002150 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 182217002151 active site 182217002152 catalytic site [active] 182217002153 substrate binding site [chemical binding]; other site 182217002154 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 182217002155 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 182217002156 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 182217002157 G1 box; other site 182217002158 GTP/Mg2+ binding site [chemical binding]; other site 182217002159 Switch I region; other site 182217002160 G2 box; other site 182217002161 G3 box; other site 182217002162 Switch II region; other site 182217002163 G4 box; other site 182217002164 G5 box; other site 182217002165 Nucleoside recognition; Region: Gate; pfam07670 182217002166 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 182217002167 Nucleoside recognition; Region: Gate; pfam07670 182217002168 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 182217002169 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 182217002170 N-terminal plug; other site 182217002171 ligand-binding site [chemical binding]; other site 182217002172 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002173 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002174 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 182217002175 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 182217002176 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; cl17244 182217002177 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 182217002178 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 182217002179 ketol-acid reductoisomerase; Provisional; Region: PRK05479 182217002180 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 182217002181 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 182217002182 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 182217002183 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 182217002184 Switch I; other site 182217002185 Switch II; other site 182217002186 Septum formation topological specificity factor MinE; Region: MinE; cl00538 182217002187 DNA protecting protein DprA; Region: dprA; TIGR00732 182217002188 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 182217002189 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 182217002190 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 182217002191 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217002192 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217002193 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 182217002194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 182217002195 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 182217002196 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 182217002197 ligand binding site [chemical binding]; other site 182217002198 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 182217002199 flagellar motor protein MotA; Validated; Region: PRK08456 182217002200 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 182217002201 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 182217002202 ATP binding site [chemical binding]; other site 182217002203 substrate interface [chemical binding]; other site 182217002204 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 182217002205 Uncharacterized conserved protein [Function unknown]; Region: COG1565 182217002206 Fic family protein [Function unknown]; Region: COG3177 182217002207 Fic/DOC family; Region: Fic; pfam02661 182217002208 Fic family protein [Function unknown]; Region: COG3177 182217002209 Fic/DOC family; Region: Fic; pfam02661 182217002210 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002211 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002212 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002213 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002214 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 182217002215 Peptidase family U32; Region: Peptidase_U32; pfam01136 182217002216 peptide chain release factor 2; Region: prfB; TIGR00020 182217002217 This domain is found in peptide chain release factors; Region: PCRF; smart00937 182217002218 RF-1 domain; Region: RF-1; pfam00472 182217002219 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 182217002220 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 182217002221 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 182217002222 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 182217002223 P loop; other site 182217002224 GTP binding site [chemical binding]; other site 182217002225 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 182217002226 phosphodiesterase; Provisional; Region: PRK12704 182217002227 KH domain; Region: KH_1; pfam00013 182217002228 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 182217002229 Zn2+ binding site [ion binding]; other site 182217002230 Mg2+ binding site [ion binding]; other site 182217002231 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 182217002232 ligand binding site [chemical binding]; other site 182217002233 active site 182217002234 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 182217002235 Aspartase; Region: Aspartase; cd01357 182217002236 active sites [active] 182217002237 tetramer interface [polypeptide binding]; other site 182217002238 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 182217002239 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 182217002240 hinge; other site 182217002241 active site 182217002242 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 182217002243 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 182217002244 active site 182217002245 tetramer interface; other site 182217002246 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 182217002247 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 182217002248 N-acetyl-D-glucosamine binding site [chemical binding]; other site 182217002249 catalytic residue [active] 182217002250 YGGT family; Region: YGGT; pfam02325 182217002251 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 182217002252 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 182217002253 active site 182217002254 HIGH motif; other site 182217002255 nucleotide binding site [chemical binding]; other site 182217002256 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 182217002257 active site 182217002258 KMSKS motif; other site 182217002259 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 182217002260 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 182217002261 Ligand Binding Site [chemical binding]; other site 182217002262 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 182217002263 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 182217002264 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 182217002265 FeS/SAM binding site; other site 182217002266 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 182217002267 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 182217002268 active site 182217002269 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 182217002270 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 182217002271 catalytic residue [active] 182217002272 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 182217002273 tetramer interfaces [polypeptide binding]; other site 182217002274 binuclear metal-binding site [ion binding]; other site 182217002275 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 182217002276 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 182217002277 ATP-grasp domain; Region: ATP-grasp_4; cl17255 182217002278 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 182217002279 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 182217002280 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 182217002281 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 182217002282 nucleotide binding site/active site [active] 182217002283 HIT family signature motif; other site 182217002284 catalytic residue [active] 182217002285 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 182217002286 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 182217002287 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 182217002288 active site 182217002289 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 182217002290 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 182217002291 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 182217002292 RNA binding surface [nucleotide binding]; other site 182217002293 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 182217002294 active site 182217002295 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 182217002296 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 182217002297 Interdomain contacts; other site 182217002298 Cytokine receptor motif; other site 182217002299 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 182217002300 Interdomain contacts; other site 182217002301 Cytokine receptor motif; other site 182217002302 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 182217002303 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 182217002304 S-adenosylmethionine binding site [chemical binding]; other site 182217002305 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 182217002306 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 182217002307 Walker A/P-loop; other site 182217002308 ATP binding site [chemical binding]; other site 182217002309 Q-loop/lid; other site 182217002310 ABC transporter signature motif; other site 182217002311 Walker B; other site 182217002312 D-loop; other site 182217002313 H-loop/switch region; other site 182217002314 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 182217002315 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 182217002316 Peptidase family M23; Region: Peptidase_M23; pfam01551 182217002317 flagellar protein FlaG; Provisional; Region: PRK08452 182217002318 flagellar capping protein; Validated; Region: fliD; PRK08453 182217002319 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 182217002320 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 182217002321 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 182217002322 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 182217002323 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 182217002324 putative ATP binding site [chemical binding]; other site 182217002325 putative substrate interface [chemical binding]; other site 182217002326 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 182217002327 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 182217002328 putative active site; other site 182217002329 catalytic triad [active] 182217002330 putative dimer interface [polypeptide binding]; other site 182217002331 Predicted permease [General function prediction only]; Region: COG2056 182217002332 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 182217002333 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 182217002334 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 182217002335 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 182217002336 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 182217002337 G1 box; other site 182217002338 GTP/Mg2+ binding site [chemical binding]; other site 182217002339 G2 box; other site 182217002340 Switch I region; other site 182217002341 G3 box; other site 182217002342 Switch II region; other site 182217002343 G4 box; other site 182217002344 G5 box; other site 182217002345 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 182217002346 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 182217002347 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 182217002348 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 182217002349 catalytic residues [active] 182217002350 ferrochelatase; Region: hemH; TIGR00109 182217002351 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 182217002352 C-terminal domain interface [polypeptide binding]; other site 182217002353 active site 182217002354 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 182217002355 active site 182217002356 N-terminal domain interface [polypeptide binding]; other site 182217002357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 182217002358 RNA methyltransferase, RsmE family; Region: TIGR00046 182217002359 Protein of unknown function (DUF812); Region: DUF812; pfam05667 182217002360 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 182217002361 trimer interface [polypeptide binding]; other site 182217002362 active site 182217002363 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 182217002364 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 182217002365 carboxyltransferase (CT) interaction site; other site 182217002366 biotinylation site [posttranslational modification]; other site 182217002367 biotin carboxylase; Validated; Region: PRK08462 182217002368 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 182217002369 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 182217002370 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 182217002371 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002372 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 182217002373 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 182217002374 inhibitor-cofactor binding pocket; inhibition site 182217002375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217002376 catalytic residue [active] 182217002377 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 182217002378 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217002379 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 182217002380 Clp amino terminal domain; Region: Clp_N; pfam02861 182217002381 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 182217002382 Walker A motif; other site 182217002383 ATP binding site [chemical binding]; other site 182217002384 Walker B motif; other site 182217002385 arginine finger; other site 182217002386 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 182217002387 Walker A motif; other site 182217002388 ATP binding site [chemical binding]; other site 182217002389 Walker B motif; other site 182217002390 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 182217002391 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 182217002392 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 182217002393 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 182217002394 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 182217002395 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 182217002396 active site 182217002397 chlorohydrolase; Provisional; Region: PRK08418 182217002398 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_D; cd01312 182217002399 active site 182217002400 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 182217002401 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 182217002402 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 182217002403 FeS/SAM binding site; other site 182217002404 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 182217002405 putative acyl-acceptor binding pocket; other site 182217002406 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 182217002407 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 182217002408 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 182217002409 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 182217002410 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 182217002411 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 182217002412 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 182217002413 putative active site [active] 182217002414 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 182217002415 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 182217002416 putative acyl-acceptor binding pocket; other site 182217002417 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 182217002418 Sulfatase; Region: Sulfatase; pfam00884 182217002419 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 182217002420 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 182217002421 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 182217002422 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 182217002423 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 182217002424 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 182217002425 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 182217002426 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 182217002427 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 182217002428 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 182217002429 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 182217002430 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 182217002431 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 182217002432 trimer interface [polypeptide binding]; other site 182217002433 active site 182217002434 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 182217002435 PQQ-like domain; Region: PQQ_2; pfam13360 182217002436 pantothenate kinase; Reviewed; Region: PRK13333 182217002437 Uncharacterized conserved protein [Function unknown]; Region: COG2836 182217002438 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 182217002439 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 182217002440 active site 182217002441 motif I; other site 182217002442 motif II; other site 182217002443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 182217002444 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 182217002445 NAD(P) binding site [chemical binding]; other site 182217002446 active site 182217002447 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 182217002448 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 182217002449 putative ribose interaction site [chemical binding]; other site 182217002450 putative ADP binding site [chemical binding]; other site 182217002451 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 182217002452 active site 182217002453 nucleotide binding site [chemical binding]; other site 182217002454 HIGH motif; other site 182217002455 KMSKS motif; other site 182217002456 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 182217002457 dimer interface [polypeptide binding]; other site 182217002458 active site 182217002459 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217002460 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 182217002461 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 182217002462 AIPR protein; Region: AIPR; pfam10592 182217002463 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 182217002464 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 182217002465 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 182217002466 potential frameshift: common BLAST hit: gi|109947743|ref|YP_664971.1| alginate o-acetyltransferase 182217002467 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 182217002468 MutS domain III; Region: MutS_III; pfam05192 182217002469 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 182217002470 Walker A/P-loop; other site 182217002471 ATP binding site [chemical binding]; other site 182217002472 Q-loop/lid; other site 182217002473 ABC transporter signature motif; other site 182217002474 Walker B; other site 182217002475 D-loop; other site 182217002476 H-loop/switch region; other site 182217002477 Smr domain; Region: Smr; pfam01713 182217002478 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 182217002479 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 182217002480 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 182217002481 hypothetical protein; Provisional; Region: PRK05839 182217002482 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 182217002483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217002484 homodimer interface [polypeptide binding]; other site 182217002485 catalytic residue [active] 182217002486 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 182217002487 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 182217002488 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 182217002489 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 182217002490 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 182217002491 putative trimer interface [polypeptide binding]; other site 182217002492 putative CoA binding site [chemical binding]; other site 182217002493 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217002494 Sel1-like repeats; Region: SEL1; smart00671 182217002495 Sel1-like repeats; Region: SEL1; smart00671 182217002496 Sel1-like repeats; Region: SEL1; smart00671 182217002497 Sel1-like repeats; Region: SEL1; smart00671 182217002498 Sulfatase; Region: Sulfatase; cl17466 182217002499 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 182217002500 ribosomal protein L9; Region: L9; TIGR00158 182217002501 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 182217002502 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 182217002503 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 182217002504 active site 182217002505 HslU subunit interaction site [polypeptide binding]; other site 182217002506 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 182217002507 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 182217002508 Walker A motif; other site 182217002509 ATP binding site [chemical binding]; other site 182217002510 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 182217002511 Walker B motif; other site 182217002512 arginine finger; other site 182217002513 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 182217002514 GTPase Era; Reviewed; Region: era; PRK00089 182217002515 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 182217002516 G1 box; other site 182217002517 GTP/Mg2+ binding site [chemical binding]; other site 182217002518 Switch I region; other site 182217002519 G2 box; other site 182217002520 Switch II region; other site 182217002521 G3 box; other site 182217002522 G4 box; other site 182217002523 G5 box; other site 182217002524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 182217002525 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 182217002526 transcription termination factor Rho; Provisional; Region: rho; PRK09376 182217002527 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 182217002528 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 182217002529 RNA binding site [nucleotide binding]; other site 182217002530 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 182217002531 multimer interface [polypeptide binding]; other site 182217002532 Walker A motif; other site 182217002533 ATP binding site [chemical binding]; other site 182217002534 Walker B motif; other site 182217002535 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 182217002536 Predicted methyltransferases [General function prediction only]; Region: COG0313 182217002537 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 182217002538 putative SAM binding site [chemical binding]; other site 182217002539 putative homodimer interface [polypeptide binding]; other site 182217002540 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 182217002541 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 182217002542 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 182217002543 Uncharacterized conserved protein [Function unknown]; Region: COG4748 182217002544 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 182217002545 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 182217002546 phosphoglyceromutase; Provisional; Region: PRK05434 182217002547 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 182217002548 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 182217002549 Outer membrane efflux protein; Region: OEP; pfam02321 182217002550 Outer membrane efflux protein; Region: OEP; pfam02321 182217002551 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 182217002552 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 182217002553 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 182217002554 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002555 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 182217002556 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 182217002557 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 182217002558 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 182217002559 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 182217002560 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 182217002561 substrate binding pocket [chemical binding]; other site 182217002562 chain length determination region; other site 182217002563 substrate-Mg2+ binding site; other site 182217002564 catalytic residues [active] 182217002565 aspartate-rich region 1; other site 182217002566 active site lid residues [active] 182217002567 aspartate-rich region 2; other site 182217002568 GTP cyclohydrolase I; Region: folE; TIGR00063 182217002569 GTP cyclohydrolase I; Provisional; Region: PLN03044 182217002570 active site 182217002571 heat shock protein HtpX; Provisional; Region: PRK02870 182217002572 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 182217002573 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 182217002574 Permutation of conserved domain; other site 182217002575 active site 182217002576 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 182217002577 recombination protein RecR; Region: recR; TIGR00615 182217002578 RecR protein; Region: RecR; pfam02132 182217002579 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 182217002580 putative active site [active] 182217002581 putative metal-binding site [ion binding]; other site 182217002582 tetramer interface [polypeptide binding]; other site 182217002583 dihydrodipicolinate reductase; Region: dapB; TIGR00036 182217002584 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 182217002585 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 182217002586 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 182217002587 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217002588 DNA methylase; Region: N6_N4_Mtase; cl17433 182217002589 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 182217002590 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 182217002591 ATP binding site [chemical binding]; other site 182217002592 putative Mg++ binding site [ion binding]; other site 182217002593 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 182217002594 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 182217002595 G1 box; other site 182217002596 putative GEF interaction site [polypeptide binding]; other site 182217002597 GTP/Mg2+ binding site [chemical binding]; other site 182217002598 Switch I region; other site 182217002599 G2 box; other site 182217002600 G3 box; other site 182217002601 Switch II region; other site 182217002602 G4 box; other site 182217002603 G5 box; other site 182217002604 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 182217002605 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 182217002606 potential protein location (hypothetical protein HCW_05400 [Helicobacter sp. MIT 00-7128]) that overlaps RNA (tRNA-N) 182217002607 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 182217002608 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 182217002609 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 182217002610 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 182217002611 ATP cone domain; Region: ATP-cone; pfam03477 182217002612 Class I ribonucleotide reductase; Region: RNR_I; cd01679 182217002613 active site 182217002614 dimer interface [polypeptide binding]; other site 182217002615 catalytic residues [active] 182217002616 effector binding site; other site 182217002617 R2 peptide binding site; other site 182217002618 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 182217002619 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 182217002620 Substrate binding site; other site 182217002621 Mg++ binding site; other site 182217002622 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 182217002623 active site 182217002624 substrate binding site [chemical binding]; other site 182217002625 CoA binding site [chemical binding]; other site 182217002626 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 182217002627 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 182217002628 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 182217002629 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 182217002630 FtsX-like permease family; Region: FtsX; pfam02687 182217002631 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 182217002632 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 182217002633 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 182217002634 nucleotide binding region [chemical binding]; other site 182217002635 ATP-binding site [chemical binding]; other site 182217002636 SEC-C motif; Region: SEC-C; pfam02810 182217002637 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 182217002638 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 182217002639 flagellin A; Reviewed; Region: PRK12584 182217002640 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 182217002641 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 182217002642 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 182217002643 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 182217002644 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 182217002645 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 182217002646 minor groove reading motif; other site 182217002647 helix-hairpin-helix signature motif; other site 182217002648 substrate binding pocket [chemical binding]; other site 182217002649 active site 182217002650 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 182217002651 substrate binding site [chemical binding]; other site 182217002652 active site 182217002653 Outer membrane efflux protein; Region: OEP; pfam02321 182217002654 Outer membrane efflux protein; Region: OEP; pfam02321 182217002655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 182217002656 HlyD family secretion protein; Region: HlyD_3; pfam13437 182217002657 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 182217002658 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 182217002659 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002660 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002661 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 182217002662 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217002663 dimer interface [polypeptide binding]; other site 182217002664 putative CheW interface [polypeptide binding]; other site 182217002665 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 182217002666 PAS domain; Region: PAS_9; pfam13426 182217002667 putative active site [active] 182217002668 heme pocket [chemical binding]; other site 182217002669 Sulfatase; Region: Sulfatase; cl17466 182217002670 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 182217002671 Sulfatase; Region: Sulfatase; cl17466 182217002672 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 182217002673 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 182217002674 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 182217002675 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 182217002676 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002677 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 182217002678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217002679 dimer interface [polypeptide binding]; other site 182217002680 putative CheW interface [polypeptide binding]; other site 182217002681 MraW methylase family; Region: Methyltransf_5; cl17771 182217002682 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 182217002683 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 182217002684 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 182217002685 putative substrate translocation pore; other site 182217002686 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 182217002687 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 182217002688 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 182217002689 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 182217002690 dimer interface [polypeptide binding]; other site 182217002691 motif 1; other site 182217002692 active site 182217002693 motif 2; other site 182217002694 motif 3; other site 182217002695 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 182217002696 Uncharacterized conserved protein [Function unknown]; Region: COG0327 182217002697 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 182217002698 Putative zinc ribbon domain; Region: DUF164; pfam02591 182217002699 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 182217002700 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 182217002701 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 182217002702 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 182217002703 active site 182217002704 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 182217002705 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 182217002706 dimer interface [polypeptide binding]; other site 182217002707 FMN binding site [chemical binding]; other site 182217002708 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 182217002709 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 182217002710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 182217002711 TrkA-C domain; Region: TrkA_C; pfam02080 182217002712 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 182217002713 active site 182217002714 dimer interface [polypeptide binding]; other site 182217002715 metal binding site [ion binding]; metal-binding site 182217002716 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 182217002717 Mechanosensitive ion channel; Region: MS_channel; pfam00924 182217002718 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 182217002719 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 182217002720 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 182217002721 FeS/SAM binding site; other site 182217002722 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 182217002723 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 182217002724 Walker B motif; other site 182217002725 arginine finger; other site 182217002726 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 182217002727 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 182217002728 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 182217002729 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 182217002730 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 182217002731 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 182217002732 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 182217002733 Autotransporter beta-domain; Region: Autotransporter; pfam03797 182217002734 diaminopimelate decarboxylase; Region: lysA; TIGR01048 182217002735 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 182217002736 active site 182217002737 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 182217002738 substrate binding site [chemical binding]; other site 182217002739 catalytic residues [active] 182217002740 dimer interface [polypeptide binding]; other site 182217002741 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 182217002742 Uncharacterized conserved protein [Function unknown]; Region: COG4866 182217002743 aminodeoxychorismate synthase; Provisional; Region: PRK07508 182217002744 chorismate binding enzyme; Region: Chorismate_bind; cl10555 182217002745 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 182217002746 substrate-cofactor binding pocket; other site 182217002747 homodimer interface [polypeptide binding]; other site 182217002748 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 182217002749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217002750 catalytic residue [active] 182217002751 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002752 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 182217002753 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 182217002754 active site 182217002755 DNA binding site [nucleotide binding] 182217002756 Int/Topo IB signature motif; other site 182217002757 aspartate aminotransferase; Provisional; Region: PRK05764 182217002758 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 182217002759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217002760 homodimer interface [polypeptide binding]; other site 182217002761 catalytic residue [active] 182217002762 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002763 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 182217002764 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 182217002765 Cysteine-rich domain; Region: CCG; pfam02754 182217002766 Cysteine-rich domain; Region: CCG; pfam02754 182217002767 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 182217002768 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 182217002769 FeS/SAM binding site; other site 182217002770 HemN C-terminal domain; Region: HemN_C; pfam06969 182217002771 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 182217002772 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 182217002773 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 182217002774 Tetramer interface [polypeptide binding]; other site 182217002775 active site 182217002776 FMN-binding site [chemical binding]; other site 182217002777 ribonuclease III; Reviewed; Region: rnc; PRK00102 182217002778 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 182217002779 dimerization interface [polypeptide binding]; other site 182217002780 active site 182217002781 metal binding site [ion binding]; metal-binding site 182217002782 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 182217002783 dsRNA binding site [nucleotide binding]; other site 182217002784 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 182217002785 RNA/DNA hybrid binding site [nucleotide binding]; other site 182217002786 active site 182217002787 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 182217002788 binding surface 182217002789 TPR motif; other site 182217002790 SurA N-terminal domain; Region: SurA_N; pfam09312 182217002791 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 182217002792 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 182217002793 GatB domain; Region: GatB_Yqey; smart00845 182217002794 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 182217002795 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 182217002796 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 182217002797 hypothetical protein; Provisional; Region: PRK08445 182217002798 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 182217002799 FeS/SAM binding site; other site 182217002800 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 182217002801 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 182217002802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 182217002803 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 182217002804 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 182217002805 Surface antigen; Region: Bac_surface_Ag; pfam01103 182217002806 hypothetical protein; Provisional; Region: PRK08444 182217002807 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 182217002808 FeS/SAM binding site; other site 182217002809 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 182217002810 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 182217002811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 182217002812 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 182217002813 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 182217002814 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 182217002815 ATP-grasp domain; Region: ATP-grasp_4; cl17255 182217002816 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 182217002817 IMP binding site; other site 182217002818 dimer interface [polypeptide binding]; other site 182217002819 partial ornithine binding site; other site 182217002820 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 182217002821 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 182217002822 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 182217002823 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 182217002824 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 182217002825 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 182217002826 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 182217002827 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 182217002828 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 182217002829 DNA binding site [nucleotide binding] 182217002830 active site 182217002831 FAD binding domain; Region: FAD_binding_4; pfam01565 182217002832 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 182217002833 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 182217002834 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 182217002835 dimer interface [polypeptide binding]; other site 182217002836 ADP-ribose binding site [chemical binding]; other site 182217002837 active site 182217002838 nudix motif; other site 182217002839 metal binding site [ion binding]; metal-binding site 182217002840 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 182217002841 Peptidase family M23; Region: Peptidase_M23; pfam01551 182217002842 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 182217002843 dimerization interface [polypeptide binding]; other site 182217002844 putative ATP binding site [chemical binding]; other site 182217002845 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 182217002846 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002847 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217002848 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 182217002849 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 182217002850 metal-binding site [ion binding] 182217002851 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 182217002852 Soluble P-type ATPase [General function prediction only]; Region: COG4087 182217002853 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 182217002854 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 182217002855 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 182217002856 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 182217002857 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 182217002858 active site 182217002859 catalytic residues [active] 182217002860 metal binding site [ion binding]; metal-binding site 182217002861 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 182217002862 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 182217002863 oligomer interface [polypeptide binding]; other site 182217002864 active site residues [active] 182217002865 trigger factor; Provisional; Region: tig; PRK01490 182217002866 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 182217002867 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 182217002868 NapD protein; Region: NapD; cl01163 182217002869 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 182217002870 4Fe-4S binding domain; Region: Fer4_5; pfam12801 182217002871 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 182217002872 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 182217002873 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 182217002874 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217002875 molybdopterin cofactor binding site; other site 182217002876 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217002877 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217002878 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 182217002879 molybdopterin cofactor binding site; other site 182217002880 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002881 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 182217002882 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 182217002883 trimer interface [polypeptide binding]; other site 182217002884 dimer interface [polypeptide binding]; other site 182217002885 putative active site [active] 182217002886 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 182217002887 MPT binding site; other site 182217002888 trimer interface [polypeptide binding]; other site 182217002889 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 182217002890 MoaE homodimer interface [polypeptide binding]; other site 182217002891 MoaD interaction [polypeptide binding]; other site 182217002892 active site residues [active] 182217002893 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 182217002894 MoaE interaction surface [polypeptide binding]; other site 182217002895 MoeB interaction surface [polypeptide binding]; other site 182217002896 thiocarboxylated glycine; other site 182217002897 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 182217002898 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 182217002899 dimer interface [polypeptide binding]; other site 182217002900 putative functional site; other site 182217002901 putative MPT binding site; other site 182217002902 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 182217002903 dimerization interface [polypeptide binding]; other site 182217002904 active site 182217002905 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 182217002906 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 182217002907 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 182217002908 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; cl00522 182217002909 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 182217002910 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 182217002911 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 182217002912 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 182217002913 dimer interface [polypeptide binding]; other site 182217002914 conserved gate region; other site 182217002915 putative PBP binding loops; other site 182217002916 ABC-ATPase subunit interface; other site 182217002917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217002918 Walker A/P-loop; other site 182217002919 ATP binding site [chemical binding]; other site 182217002920 Q-loop/lid; other site 182217002921 ABC transporter signature motif; other site 182217002922 Walker B; other site 182217002923 D-loop; other site 182217002924 H-loop/switch region; other site 182217002925 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 182217002926 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 182217002927 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 182217002928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 182217002929 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002930 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002931 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002932 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002933 LabA_like proteins; Region: LabA_like; cd06167 182217002934 putative metal binding site [ion binding]; other site 182217002935 Uncharacterized conserved protein [Function unknown]; Region: COG1432 182217002936 elongation factor P; Validated; Region: PRK00529 182217002937 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 182217002938 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 182217002939 RNA binding site [nucleotide binding]; other site 182217002940 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 182217002941 RNA binding site [nucleotide binding]; other site 182217002942 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 182217002943 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 182217002944 intersubunit interface [polypeptide binding]; other site 182217002945 active site 182217002946 zinc binding site [ion binding]; other site 182217002947 Na+ binding site [ion binding]; other site 182217002948 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 182217002949 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 182217002950 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 182217002951 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 182217002952 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 182217002953 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 182217002954 dimer interface [polypeptide binding]; other site 182217002955 putative functional site; other site 182217002956 putative MPT binding site; other site 182217002957 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 182217002958 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 182217002959 active site 182217002960 HIGH motif; other site 182217002961 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 182217002962 active site 182217002963 KMSKS motif; other site 182217002964 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002965 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 182217002966 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 182217002967 S-adenosylmethionine binding site [chemical binding]; other site 182217002968 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 182217002969 potential frameshift: common BLAST hit: gi|188527264|ref|YP_001909951.1| type II adenine specific methyltransferase 182217002970 NAD synthetase; Provisional; Region: PRK13980 182217002971 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 182217002972 homodimer interface [polypeptide binding]; other site 182217002973 NAD binding pocket [chemical binding]; other site 182217002974 ATP binding pocket [chemical binding]; other site 182217002975 Mg binding site [ion binding]; other site 182217002976 active-site loop [active] 182217002977 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 182217002978 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 182217002979 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 182217002980 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 182217002981 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 182217002982 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 182217002983 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 182217002984 ligand binding site; other site 182217002985 tetramer interface; other site 182217002986 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 182217002987 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 182217002988 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217002989 nuclease NucT; Provisional; Region: PRK13912 182217002990 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 182217002991 putative active site [active] 182217002992 catalytic site [active] 182217002993 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 182217002994 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 182217002995 catalytic site [active] 182217002996 G-X2-G-X-G-K; other site 182217002997 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 182217002998 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 182217002999 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 182217003000 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 182217003001 active site 182217003002 HIGH motif; other site 182217003003 KMSK motif region; other site 182217003004 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 182217003005 tRNA binding surface [nucleotide binding]; other site 182217003006 anticodon binding site; other site 182217003007 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 182217003008 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 182217003009 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 182217003010 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003011 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003012 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 182217003013 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 182217003014 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 182217003015 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 182217003016 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 182217003017 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 182217003018 nickel binding site [ion binding]; other site 182217003019 putative substrate-binding site; other site 182217003020 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 182217003021 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 182217003022 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 182217003023 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 182217003024 TPP-binding site [chemical binding]; other site 182217003025 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 182217003026 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 182217003027 dimer interface [polypeptide binding]; other site 182217003028 PYR/PP interface [polypeptide binding]; other site 182217003029 TPP binding site [chemical binding]; other site 182217003030 substrate binding site [chemical binding]; other site 182217003031 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 182217003032 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 182217003033 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 182217003034 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 182217003035 dimerization interface [polypeptide binding]; other site 182217003036 Protein of unknown function; Region: DUF3971; pfam13116 182217003037 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 182217003038 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 182217003039 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 182217003040 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 182217003041 minor groove reading motif; other site 182217003042 helix-hairpin-helix signature motif; other site 182217003043 substrate binding pocket [chemical binding]; other site 182217003044 active site 182217003045 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 182217003046 flagellar motor switch protein; Validated; Region: PRK08433 182217003047 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 182217003048 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 182217003049 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 182217003050 active site 182217003051 substrate binding pocket [chemical binding]; other site 182217003052 dimer interface [polypeptide binding]; other site 182217003053 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 182217003054 BNR repeat-like domain; Region: BNR_2; pfam13088 182217003055 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 182217003056 Sulfatase; Region: Sulfatase; pfam00884 182217003057 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 182217003058 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 182217003059 active site residue [active] 182217003060 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 182217003061 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 182217003062 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 182217003063 homodimer interface [polypeptide binding]; other site 182217003064 NADP binding site [chemical binding]; other site 182217003065 substrate binding site [chemical binding]; other site 182217003066 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 182217003067 Catalytic site [active] 182217003068 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 182217003069 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 182217003070 Peptidase family M50; Region: Peptidase_M50; pfam02163 182217003071 active site 182217003072 putative substrate binding region [chemical binding]; other site 182217003073 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 182217003074 Regulator of replication initiation timing [Replication, recombination, and repair]; Region: COG4467; cl01853 182217003075 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 182217003076 active site 182217003077 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 182217003078 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 182217003079 multifunctional aminopeptidase A; Provisional; Region: PRK00913 182217003080 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 182217003081 interface (dimer of trimers) [polypeptide binding]; other site 182217003082 Substrate-binding/catalytic site; other site 182217003083 Zn-binding sites [ion binding]; other site 182217003084 GTP-binding protein YchF; Reviewed; Region: PRK09601 182217003085 YchF GTPase; Region: YchF; cd01900 182217003086 G1 box; other site 182217003087 GTP/Mg2+ binding site [chemical binding]; other site 182217003088 Switch I region; other site 182217003089 G2 box; other site 182217003090 Switch II region; other site 182217003091 G3 box; other site 182217003092 G4 box; other site 182217003093 G5 box; other site 182217003094 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 182217003095 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 182217003096 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 182217003097 Domain of unknown function DUF20; Region: UPF0118; pfam01594 182217003098 diaminopimelate epimerase; Region: DapF; TIGR00652 182217003099 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 182217003100 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 182217003101 Predicted membrane protein [Function unknown]; Region: COG3059 182217003102 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 182217003103 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 182217003104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 182217003105 NAD(P) binding site [chemical binding]; other site 182217003106 active site 182217003107 acyl carrier protein; Provisional; Region: acpP; PRK00982 182217003108 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 182217003109 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 182217003110 dimer interface [polypeptide binding]; other site 182217003111 active site 182217003112 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 182217003113 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 182217003114 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 182217003115 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 182217003116 Sulfate transporter family; Region: Sulfate_transp; pfam00916 182217003117 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 182217003118 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 182217003119 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 182217003120 Predicted membrane protein [Function unknown]; Region: COG2855 182217003121 Lysine efflux permease [General function prediction only]; Region: COG1279 182217003122 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 182217003123 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 182217003124 FMN binding site [chemical binding]; other site 182217003125 active site 182217003126 catalytic residues [active] 182217003127 substrate binding site [chemical binding]; other site 182217003128 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 182217003129 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 182217003130 active site 182217003131 NTP binding site [chemical binding]; other site 182217003132 metal binding triad [ion binding]; metal-binding site 182217003133 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 182217003134 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 182217003135 Ligand Binding Site [chemical binding]; other site 182217003136 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 182217003137 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 182217003138 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 182217003139 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 182217003140 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 182217003141 RecO N terminal; Region: RecO_N_2; cl15812 182217003142 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 182217003143 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 182217003144 active site 1 [active] 182217003145 dimer interface [polypeptide binding]; other site 182217003146 hexamer interface [polypeptide binding]; other site 182217003147 active site 2 [active] 182217003148 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 182217003149 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 182217003150 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 182217003151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217003152 Walker A/P-loop; other site 182217003153 ATP binding site [chemical binding]; other site 182217003154 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 182217003155 ABC transporter; Region: ABC_tran_2; pfam12848 182217003156 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 182217003157 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217003158 dimer interface [polypeptide binding]; other site 182217003159 putative CheW interface [polypeptide binding]; other site 182217003160 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 182217003161 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 182217003162 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 182217003163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 182217003164 catalytic residue [active] 182217003165 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 182217003166 Transglycosylase; Region: Transgly; pfam00912 182217003167 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 182217003168 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217003169 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 182217003170 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 182217003171 trimerization site [polypeptide binding]; other site 182217003172 active site 182217003173 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 182217003174 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 182217003175 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 182217003176 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 182217003177 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 182217003178 catalytic residue [active] 182217003179 Helix-turn-helix domain; Region: HTH_28; pfam13518 182217003180 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 182217003181 substrate binding site [chemical binding]; other site 182217003182 potential frameshift: common BLAST hit: gi|108563237|ref|YP_627553.1| beta-1,4-galactosyltransferase 182217003183 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 182217003184 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 182217003185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 182217003186 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 182217003187 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 182217003188 catalytic residues [active] 182217003189 hypothetical protein; Reviewed; Region: PRK12497 182217003190 homoserine dehydrogenase; Provisional; Region: PRK06349 182217003191 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 182217003192 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 182217003193 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 182217003194 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 182217003195 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 182217003196 GIY-YIG motif/motif A; other site 182217003197 active site 182217003198 catalytic site [active] 182217003199 putative DNA binding site [nucleotide binding]; other site 182217003200 metal binding site [ion binding]; metal-binding site 182217003201 UvrB/uvrC motif; Region: UVR; pfam02151 182217003202 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 182217003203 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 182217003204 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217003205 Walker A/P-loop; other site 182217003206 ATP binding site [chemical binding]; other site 182217003207 Q-loop/lid; other site 182217003208 ABC transporter signature motif; other site 182217003209 Walker B; other site 182217003210 D-loop; other site 182217003211 H-loop/switch region; other site 182217003212 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 182217003213 dimer interface [polypeptide binding]; other site 182217003214 conserved gate region; other site 182217003215 ABC-ATPase subunit interface; other site 182217003216 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 182217003217 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 182217003218 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 182217003219 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 182217003220 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217003221 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217003222 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 182217003223 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 182217003224 molybdopterin cofactor binding site; other site 182217003225 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 182217003226 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 182217003227 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 182217003228 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 182217003229 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 182217003230 cyclase homology domain; Region: CHD; cd07302 182217003231 nucleotidyl binding site; other site 182217003232 metal binding site [ion binding]; metal-binding site 182217003233 dimer interface [polypeptide binding]; other site 182217003234 Predicted helicase [General function prediction only]; Region: COG4889 182217003235 Restriction endonuclease; Region: Mrr_cat; pfam04471 182217003236 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 182217003237 ATP binding site [chemical binding]; other site 182217003238 putative Mg++ binding site [ion binding]; other site 182217003239 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 182217003240 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 182217003241 binding surface 182217003242 TPR motif; other site 182217003243 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217003244 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 182217003245 TPR motif; other site 182217003246 binding surface 182217003247 Sel1-like repeats; Region: SEL1; smart00671 182217003248 Sel1-like repeats; Region: SEL1; smart00671 182217003249 Sel1-like repeats; Region: SEL1; smart00671 182217003250 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 182217003251 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 182217003252 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 182217003253 domain interfaces; other site 182217003254 active site 182217003255 prolyl-tRNA synthetase; Provisional; Region: PRK09194 182217003256 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 182217003257 dimer interface [polypeptide binding]; other site 182217003258 motif 1; other site 182217003259 active site 182217003260 motif 2; other site 182217003261 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 182217003262 putative deacylase active site [active] 182217003263 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 182217003264 active site 182217003265 motif 3; other site 182217003266 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 182217003267 anticodon binding site; other site 182217003268 glutamyl-tRNA reductase; Region: hemA; TIGR01035 182217003269 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 182217003270 tRNA; other site 182217003271 putative tRNA binding site [nucleotide binding]; other site 182217003272 putative NADP binding site [chemical binding]; other site 182217003273 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 182217003274 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 182217003275 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 182217003276 substrate binding pocket [chemical binding]; other site 182217003277 chain length determination region; other site 182217003278 substrate-Mg2+ binding site; other site 182217003279 catalytic residues [active] 182217003280 aspartate-rich region 1; other site 182217003281 active site lid residues [active] 182217003282 aspartate-rich region 2; other site 182217003283 serine/threonine-protein kinase; Reviewed; Region: pknD; PRK13184 182217003284 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 182217003285 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 182217003286 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 182217003287 dimerization interface [polypeptide binding]; other site 182217003288 DPS ferroxidase diiron center [ion binding]; other site 182217003289 ion pore; other site 182217003290 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 182217003291 dimer interface [polypeptide binding]; other site 182217003292 phosphorylation site [posttranslational modification] 182217003293 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 182217003294 ATP binding site [chemical binding]; other site 182217003295 Mg2+ binding site [ion binding]; other site 182217003296 G-X-G motif; other site 182217003297 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 182217003298 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 182217003299 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 182217003300 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 182217003301 ATP binding site [chemical binding]; other site 182217003302 Mg++ binding site [ion binding]; other site 182217003303 motif III; other site 182217003304 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 182217003305 nucleotide binding region [chemical binding]; other site 182217003306 ATP-binding site [chemical binding]; other site 182217003307 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 182217003308 SPFH domain / Band 7 family; Region: Band_7; pfam01145 182217003309 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 182217003310 Predicted permeases [General function prediction only]; Region: COG0730 182217003311 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 182217003312 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 182217003313 dimer interface [polypeptide binding]; other site 182217003314 substrate binding site [chemical binding]; other site 182217003315 metal binding sites [ion binding]; metal-binding site 182217003316 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003317 Cache domain; Region: Cache_2; cl07034 182217003318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 182217003319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217003320 dimer interface [polypeptide binding]; other site 182217003321 putative CheW interface [polypeptide binding]; other site 182217003322 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 182217003323 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 182217003324 adenylate kinase; Reviewed; Region: adk; PRK00279 182217003325 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 182217003326 AMP-binding site [chemical binding]; other site 182217003327 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 182217003328 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 182217003329 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 182217003330 dimer interface [polypeptide binding]; other site 182217003331 anticodon binding site; other site 182217003332 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 182217003333 homodimer interface [polypeptide binding]; other site 182217003334 motif 1; other site 182217003335 active site 182217003336 motif 2; other site 182217003337 GAD domain; Region: GAD; pfam02938 182217003338 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 182217003339 active site 182217003340 motif 3; other site 182217003341 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 182217003342 Response regulator receiver domain; Region: Response_reg; pfam00072 182217003343 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 182217003344 active site 182217003345 phosphorylation site [posttranslational modification] 182217003346 intermolecular recognition site; other site 182217003347 dimerization interface [polypeptide binding]; other site 182217003348 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 182217003349 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; cl17244 182217003350 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; cl17244 182217003351 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 182217003352 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 182217003353 nucleotide binding pocket [chemical binding]; other site 182217003354 K-X-D-G motif; other site 182217003355 catalytic site [active] 182217003356 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 182217003357 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 182217003358 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 182217003359 Dimer interface [polypeptide binding]; other site 182217003360 LPP20 lipoprotein; Region: LPP20; pfam02169 182217003361 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 182217003362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 182217003363 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 182217003364 hypothetical protein; Provisional; Region: PRK04081 182217003365 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 182217003366 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 182217003367 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 182217003368 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 182217003369 Ligand binding site; other site 182217003370 oligomer interface; other site 182217003371 glutamine synthetase, type I; Region: GlnA; TIGR00653 182217003372 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 182217003373 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 182217003374 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 182217003375 ThiC family; Region: ThiC; pfam01964 182217003376 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003377 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 182217003378 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 182217003379 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 182217003380 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 182217003381 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 182217003382 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 182217003383 RNA binding surface [nucleotide binding]; other site 182217003384 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 182217003385 S-adenosylmethionine binding site [chemical binding]; other site 182217003386 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 182217003387 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 182217003388 active site 182217003389 nucleotide binding site [chemical binding]; other site 182217003390 HIGH motif; other site 182217003391 KMSKS motif; other site 182217003392 Riboflavin kinase; Region: Flavokinase; pfam01687 182217003393 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 182217003394 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 182217003395 TPP-binding site [chemical binding]; other site 182217003396 dimer interface [polypeptide binding]; other site 182217003397 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 182217003398 PYR/PP interface [polypeptide binding]; other site 182217003399 dimer interface [polypeptide binding]; other site 182217003400 TPP binding site [chemical binding]; other site 182217003401 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 182217003402 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 182217003403 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 182217003404 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 182217003405 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 182217003406 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 182217003407 ADP_ribosylating enzymes catalyze the transfer of ADP_ribose from NAD+ to substrates. Bacterial toxins are cytoplasmic and catalyze the transfer of a single ADP_ribose unit to eukaryotic elongation factor 2, halting protein synthesis and killing the cell; Region: ADP_ribosyl; cl00283 182217003408 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 182217003409 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 182217003410 metal ion-dependent adhesion site (MIDAS); other site 182217003411 Protein phosphatase 2C; Region: PP2C_2; pfam13672 182217003412 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 182217003413 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 182217003414 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 182217003415 active site 182217003416 ATP binding site [chemical binding]; other site 182217003417 substrate binding site [chemical binding]; other site 182217003418 activation loop (A-loop); other site 182217003419 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 182217003420 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 182217003421 putative active site [active] 182217003422 catalytic site [active] 182217003423 AAA domain; Region: AAA_21; pfam13304 182217003424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217003425 Walker B; other site 182217003426 D-loop; other site 182217003427 H-loop/switch region; other site 182217003428 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 182217003429 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 182217003430 FeS/SAM binding site; other site 182217003431 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 182217003432 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 182217003433 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 182217003434 GTP binding site; other site 182217003435 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 182217003436 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 182217003437 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 182217003438 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 182217003439 substrate binding site [chemical binding]; other site 182217003440 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 182217003441 substrate binding site [chemical binding]; other site 182217003442 ligand binding site [chemical binding]; other site 182217003443 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 182217003444 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003445 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 182217003446 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 182217003447 active site 182217003448 metal binding site [ion binding]; metal-binding site 182217003449 Nitronate monooxygenase; Region: NMO; pfam03060 182217003450 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 182217003451 FMN binding site [chemical binding]; other site 182217003452 substrate binding site [chemical binding]; other site 182217003453 putative catalytic residue [active] 182217003454 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 182217003455 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 182217003456 active site 182217003457 HIGH motif; other site 182217003458 dimer interface [polypeptide binding]; other site 182217003459 KMSKS motif; other site 182217003460 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 182217003461 RNA binding surface [nucleotide binding]; other site 182217003462 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 182217003463 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 182217003464 Zn2+ binding site [ion binding]; other site 182217003465 Mg2+ binding site [ion binding]; other site 182217003466 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 182217003467 synthetase active site [active] 182217003468 NTP binding site [chemical binding]; other site 182217003469 metal binding site [ion binding]; metal-binding site 182217003470 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 182217003471 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 182217003472 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 182217003473 putative nucleotide binding site [chemical binding]; other site 182217003474 uridine monophosphate binding site [chemical binding]; other site 182217003475 homohexameric interface [polypeptide binding]; other site 182217003476 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 182217003477 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 182217003478 inhibitor-cofactor binding pocket; inhibition site 182217003479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 182217003480 catalytic residue [active] 182217003481 SurA N-terminal domain; Region: SurA_N_3; cl07813 182217003482 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 182217003483 cell division protein FtsA; Region: ftsA; TIGR01174 182217003484 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 182217003485 nucleotide binding site [chemical binding]; other site 182217003486 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 182217003487 Cell division protein FtsA; Region: FtsA; pfam14450 182217003488 cell division protein FtsZ; Validated; Region: PRK09330 182217003489 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 182217003490 nucleotide binding site [chemical binding]; other site 182217003491 SulA interaction site; other site 182217003492 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217003493 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 182217003494 binding surface 182217003495 TPR motif; other site 182217003496 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 182217003497 binding surface 182217003498 TPR motif; other site 182217003499 Sel1-like repeats; Region: SEL1; smart00671 182217003500 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 182217003501 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 182217003502 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 182217003503 AAA domain; Region: AAA_12; pfam13087 182217003504 Part of AAA domain; Region: AAA_19; pfam13245 182217003505 AAA domain; Region: AAA_30; pfam13604 182217003506 DNA repair protein RadA; Region: sms; TIGR00416 182217003507 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 182217003508 Walker A motif/ATP binding site; other site 182217003509 ATP binding site [chemical binding]; other site 182217003510 Walker B motif; other site 182217003511 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 182217003512 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 182217003513 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 182217003514 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 182217003515 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 182217003516 Methyltransferase domain; Region: Methyltransf_23; pfam13489 182217003517 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 182217003518 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 182217003519 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 182217003520 active site 182217003521 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 182217003522 glutamate dehydrogenase; Provisional; Region: PRK09414 182217003523 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 182217003524 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 182217003525 NAD(P) binding site [chemical binding]; other site 182217003526 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 182217003527 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 182217003528 Peptidase family M48; Region: Peptidase_M48; pfam01435 182217003529 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003530 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 182217003531 Sporulation related domain; Region: SPOR; pfam05036 182217003532 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003533 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 182217003534 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 182217003535 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 182217003536 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 182217003537 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 182217003538 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 182217003539 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 182217003540 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 182217003541 transmembrane helices; other site 182217003542 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 182217003543 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 182217003544 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 182217003545 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 182217003546 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 182217003547 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 182217003548 metal binding site [ion binding]; metal-binding site 182217003549 dimer interface [polypeptide binding]; other site 182217003550 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003551 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003552 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003553 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 182217003554 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 182217003555 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 182217003556 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 182217003557 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 182217003558 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 182217003559 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 182217003560 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 182217003561 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 182217003562 thiamine phosphate binding site [chemical binding]; other site 182217003563 active site 182217003564 pyrophosphate binding site [ion binding]; other site 182217003565 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 182217003566 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 182217003567 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 182217003568 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 182217003569 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 182217003570 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 182217003571 active site 182217003572 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 182217003573 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 182217003574 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 182217003575 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 182217003576 CoA-binding site [chemical binding]; other site 182217003577 ATP-binding [chemical binding]; other site 182217003578 spermidine synthase; Provisional; Region: speE; PRK00536 182217003579 spermidine synthase; Provisional; Region: PRK00811 182217003580 GTP-binding protein Der; Reviewed; Region: PRK00093 182217003581 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 182217003582 G1 box; other site 182217003583 GTP/Mg2+ binding site [chemical binding]; other site 182217003584 Switch I region; other site 182217003585 G2 box; other site 182217003586 Switch II region; other site 182217003587 G3 box; other site 182217003588 G4 box; other site 182217003589 G5 box; other site 182217003590 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 182217003591 G1 box; other site 182217003592 GTP/Mg2+ binding site [chemical binding]; other site 182217003593 Switch I region; other site 182217003594 G2 box; other site 182217003595 G3 box; other site 182217003596 Switch II region; other site 182217003597 G4 box; other site 182217003598 G5 box; other site 182217003599 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 182217003600 IHF dimer interface [polypeptide binding]; other site 182217003601 IHF - DNA interface [nucleotide binding]; other site 182217003602 LPP20 lipoprotein; Region: LPP20; cl15824 182217003603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 182217003604 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 182217003605 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 182217003606 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 182217003607 NAD(P) binding site [chemical binding]; other site 182217003608 homodimer interface [polypeptide binding]; other site 182217003609 substrate binding site [chemical binding]; other site 182217003610 active site 182217003611 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 182217003612 Flavoprotein; Region: Flavoprotein; pfam02441 182217003613 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 182217003614 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003615 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 182217003616 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 182217003617 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 182217003618 ligand binding site; other site 182217003619 tetramer interface; other site 182217003620 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 182217003621 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 182217003622 active site 182217003623 homodimer interface [polypeptide binding]; other site 182217003624 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 182217003625 NeuB family; Region: NeuB; pfam03102 182217003626 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 182217003627 NeuB binding interface [polypeptide binding]; other site 182217003628 putative substrate binding site [chemical binding]; other site 182217003629 hypothetical protein; Provisional; Region: PRK12378 182217003630 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 182217003631 dimer interface [polypeptide binding]; other site 182217003632 active site 182217003633 Schiff base residues; other site 182217003634 radical SAM protein, TIGR01212 family; Region: TIGR01212 182217003635 amidophosphoribosyltransferase; Provisional; Region: PRK08525 182217003636 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 182217003637 active site 182217003638 tetramer interface [polypeptide binding]; other site 182217003639 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 182217003640 active site 182217003641 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 182217003642 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 182217003643 dimerization interface [polypeptide binding]; other site 182217003644 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 182217003645 dimer interface [polypeptide binding]; other site 182217003646 phosphorylation site [posttranslational modification] 182217003647 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 182217003648 ATP binding site [chemical binding]; other site 182217003649 Mg2+ binding site [ion binding]; other site 182217003650 G-X-G motif; other site 182217003651 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 182217003652 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 182217003653 active site 182217003654 phosphorylation site [posttranslational modification] 182217003655 intermolecular recognition site; other site 182217003656 dimerization interface [polypeptide binding]; other site 182217003657 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 182217003658 DNA binding site [nucleotide binding] 182217003659 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 182217003660 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003661 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 182217003662 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 182217003663 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 182217003664 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 182217003665 active site 182217003666 Zn binding site [ion binding]; other site 182217003667 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 182217003668 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 182217003669 putative metal binding site [ion binding]; other site 182217003670 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 182217003671 putative substrate translocation pore; other site 182217003672 Major Facilitator Superfamily; Region: MFS_1; pfam07690 182217003673 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 182217003674 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 182217003675 active site 182217003676 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 182217003677 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 182217003678 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 182217003679 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 182217003680 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 182217003681 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 182217003682 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 182217003683 propionate/acetate kinase; Provisional; Region: PRK12379 182217003684 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 182217003685 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 182217003686 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 182217003687 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 182217003688 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 182217003689 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 182217003690 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 182217003691 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 182217003692 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 182217003693 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 182217003694 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217003695 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 182217003696 Part of AAA domain; Region: AAA_19; pfam13245 182217003697 Family description; Region: UvrD_C_2; pfam13538 182217003698 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 182217003699 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 182217003700 homotrimer interaction site [polypeptide binding]; other site 182217003701 putative active site [active] 182217003702 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 182217003703 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 182217003704 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 182217003705 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 182217003706 amino acid carrier protein; Region: agcS; TIGR00835 182217003707 alanine racemase; Region: alr; TIGR00492 182217003708 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 182217003709 active site 182217003710 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 182217003711 dimer interface [polypeptide binding]; other site 182217003712 substrate binding site [chemical binding]; other site 182217003713 catalytic residues [active] 182217003714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 182217003715 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 182217003716 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 182217003717 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 182217003718 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 182217003719 active site 182217003720 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 182217003721 catalytic residues [active] 182217003722 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 182217003723 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 182217003724 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 182217003725 putative ADP-binding pocket [chemical binding]; other site 182217003726 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 182217003727 active site 2 [active] 182217003728 active site 1 [active] 182217003729 Methyltransferase domain; Region: Methyltransf_23; pfam13489 182217003730 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 182217003731 S-adenosylmethionine binding site [chemical binding]; other site 182217003732 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 182217003733 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 182217003734 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 182217003735 active site 182217003736 HIGH motif; other site 182217003737 KMSKS motif; other site 182217003738 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 182217003739 anticodon binding site; other site 182217003740 tRNA binding surface [nucleotide binding]; other site 182217003741 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 182217003742 dimer interface [polypeptide binding]; other site 182217003743 putative tRNA-binding site [nucleotide binding]; other site 182217003744 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 182217003745 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 182217003746 S-adenosylmethionine binding site [chemical binding]; other site 182217003747 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 182217003748 Mechanosensitive ion channel; Region: MS_channel; pfam00924 182217003749 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 182217003750 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 182217003751 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 182217003752 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 182217003753 active site 182217003754 substrate binding site [chemical binding]; other site 182217003755 cosubstrate binding site; other site 182217003756 catalytic site [active] 182217003757 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 182217003758 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 182217003759 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 182217003760 active site 182217003761 zinc binding site [ion binding]; other site 182217003762 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 182217003763 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 182217003764 active site residue [active] 182217003765 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 182217003766 active site residue [active] 182217003767 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 182217003768 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 182217003769 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 182217003770 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 182217003771 dimer interface [polypeptide binding]; other site 182217003772 motif 1; other site 182217003773 active site 182217003774 motif 2; other site 182217003775 motif 3; other site 182217003776 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 182217003777 anticodon binding site; other site 182217003778 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 182217003779 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 182217003780 putative active site [active] 182217003781 Flavin Reductases; Region: FlaRed; cl00801 182217003782 Sel1 repeat; Region: Sel1; cl02723 182217003783 Sel1-like repeats; Region: SEL1; smart00671 182217003784 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 182217003785 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 182217003786 SelR domain; Region: SelR; pfam01641 182217003787 phosphoserine phosphatase SerB; Region: serB; TIGR00338 182217003788 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 182217003789 motif II; other site 182217003790 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 182217003791 Ferritin-like domain; Region: Ferritin; pfam00210 182217003792 ferroxidase diiron center [ion binding]; other site 182217003793 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 182217003794 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 182217003795 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 182217003796 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 182217003797 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003798 Methyltransferase domain; Region: Methyltransf_31; pfam13847 182217003799 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 182217003800 S-adenosylmethionine binding site [chemical binding]; other site 182217003801 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 182217003802 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 182217003803 ATP binding site [chemical binding]; other site 182217003804 substrate interface [chemical binding]; other site 182217003805 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 182217003806 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 182217003807 ATP binding site [chemical binding]; other site 182217003808 substrate interface [chemical binding]; other site 182217003809 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003810 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 182217003811 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 182217003812 ThiS interaction site; other site 182217003813 putative active site [active] 182217003814 tetramer interface [polypeptide binding]; other site 182217003815 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 182217003816 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 182217003817 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 182217003818 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 182217003819 potential protein location (hypothetical protein HCW_07745 [Helicobacter sp. MIT 00-7128]) that overlaps RNA (tRNA-I) 182217003820 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 182217003821 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 182217003822 NAD binding site [chemical binding]; other site 182217003823 homodimer interface [polypeptide binding]; other site 182217003824 active site 182217003825 substrate binding site [chemical binding]; other site 182217003826 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 182217003827 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 182217003828 dimerization interface 3.5A [polypeptide binding]; other site 182217003829 active site 182217003830 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 182217003831 Predicted permeases [General function prediction only]; Region: COG0795 182217003832 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 182217003833 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 182217003834 S-adenosylmethionine binding site [chemical binding]; other site 182217003835 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 182217003836 dimer interface [polypeptide binding]; other site 182217003837 putative radical transfer pathway; other site 182217003838 diiron center [ion binding]; other site 182217003839 tyrosyl radical; other site 182217003840 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 182217003841 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 182217003842 generic binding surface II; other site 182217003843 generic binding surface I; other site 182217003844 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 182217003845 RIP metalloprotease RseP; Region: TIGR00054 182217003846 active site 182217003847 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 182217003848 Uncharacterized conserved protein [Function unknown]; Region: COG3334 182217003849 Flagellar FliJ protein; Region: FliJ; pfam02050 182217003850 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 182217003851 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 182217003852 GDP-binding site [chemical binding]; other site 182217003853 ACT binding site; other site 182217003854 IMP binding site; other site 182217003855 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003856 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217003857 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 182217003858 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 182217003859 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 182217003860 N-terminal plug; other site 182217003861 ligand-binding site [chemical binding]; other site 182217003862 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 182217003863 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 182217003864 dimer interface [polypeptide binding]; other site 182217003865 conserved gate region; other site 182217003866 putative PBP binding loops; other site 182217003867 ABC-ATPase subunit interface; other site 182217003868 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 182217003869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 182217003870 Walker A/P-loop; other site 182217003871 ATP binding site [chemical binding]; other site 182217003872 Q-loop/lid; other site 182217003873 ABC transporter signature motif; other site 182217003874 Walker B; other site 182217003875 D-loop; other site 182217003876 H-loop/switch region; other site 182217003877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 182217003878 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 182217003879 Walker A/P-loop; other site 182217003880 ATP binding site [chemical binding]; other site 182217003881 Q-loop/lid; other site 182217003882 ABC transporter signature motif; other site 182217003883 Walker B; other site 182217003884 D-loop; other site 182217003885 H-loop/switch region; other site 182217003886 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 182217003887 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 182217003888 GMP synthase; Reviewed; Region: guaA; PRK00074 182217003889 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 182217003890 AMP/PPi binding site [chemical binding]; other site 182217003891 candidate oxyanion hole; other site 182217003892 catalytic triad [active] 182217003893 potential glutamine specificity residues [chemical binding]; other site 182217003894 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 182217003895 ATP Binding subdomain [chemical binding]; other site 182217003896 Ligand Binding sites [chemical binding]; other site 182217003897 Dimerization subdomain; other site 182217003898 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 182217003899 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 182217003900 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 182217003901 molybdopterin cofactor binding site [chemical binding]; other site 182217003902 substrate binding site [chemical binding]; other site 182217003903 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 182217003904 molybdopterin cofactor binding site; other site 182217003905 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 182217003906 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 182217003907 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 182217003908 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 182217003909 catalytic residue [active] 182217003910 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 182217003911 nucleotide binding site/active site [active] 182217003912 HIT family signature motif; other site 182217003913 catalytic residue [active] 182217003914 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 182217003915 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 182217003916 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 182217003917 dimer interface [polypeptide binding]; other site 182217003918 motif 1; other site 182217003919 active site 182217003920 motif 2; other site 182217003921 motif 3; other site 182217003922 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 182217003923 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 182217003924 putative tRNA-binding site [nucleotide binding]; other site 182217003925 tRNA synthetase B5 domain; Region: B5; smart00874 182217003926 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 182217003927 dimer interface [polypeptide binding]; other site 182217003928 motif 1; other site 182217003929 motif 3; other site 182217003930 motif 2; other site 182217003931 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 182217003932 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 182217003933 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 182217003934 hinge; other site 182217003935 active site 182217003936 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 182217003937 LytB protein; Region: LYTB; pfam02401 182217003938 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 182217003939 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 182217003940 RNA binding site [nucleotide binding]; other site 182217003941 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 182217003942 RNA binding site [nucleotide binding]; other site 182217003943 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 182217003944 RNA binding site [nucleotide binding]; other site 182217003945 S1 RNA binding domain; Region: S1; pfam00575 182217003946 RNA binding site [nucleotide binding]; other site 182217003947 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 182217003948 RNA binding site [nucleotide binding]; other site 182217003949 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 182217003950 RNA binding site [nucleotide binding]; other site 182217003951 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 182217003952 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 182217003953 ligand binding site [chemical binding]; other site 182217003954 NAD binding site [chemical binding]; other site 182217003955 dimerization interface [polypeptide binding]; other site 182217003956 catalytic site [active] 182217003957 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 182217003958 putative L-serine binding site [chemical binding]; other site 182217003959 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 182217003960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 182217003961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 182217003962 catalytic residue [active] 182217003963 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 182217003964 thiS-thiF/thiG interaction site; other site 182217003965 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 182217003966 putative active site [active] 182217003967 putative metal binding site [ion binding]; other site 182217003968 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 182217003969 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 182217003970 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 182217003971 active site 182217003972 phosphorylation site [posttranslational modification] 182217003973 intermolecular recognition site; other site 182217003974 dimerization interface [polypeptide binding]; other site 182217003975 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 182217003976 putative binding surface; other site 182217003977 active site 182217003978 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 182217003979 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 182217003980 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 182217003981 ATP binding site [chemical binding]; other site 182217003982 Mg2+ binding site [ion binding]; other site 182217003983 G-X-G motif; other site 182217003984 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 182217003985 Response regulator receiver domain; Region: Response_reg; pfam00072 182217003986 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 182217003987 active site 182217003988 phosphorylation site [posttranslational modification] 182217003989 intermolecular recognition site; other site 182217003990 dimerization interface [polypeptide binding]; other site 182217003991 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 182217003992 putative CheA interaction surface; other site 182217003993 urease subunit alpha; Provisional; Region: PRK13986 182217003994 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 182217003995 alpha-gamma subunit interface [polypeptide binding]; other site 182217003996 beta-gamma subunit interface [polypeptide binding]; other site 182217003997 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 182217003998 alpha-beta subunit interface [polypeptide binding]; other site 182217003999 urease subunit beta; Provisional; Region: ureB; PRK13985 182217004000 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 182217004001 subunit interactions [polypeptide binding]; other site 182217004002 active site 182217004003 flap region; other site 182217004004 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004005 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 182217004006 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 182217004007 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 182217004008 putative substrate translocation pore; other site 182217004009 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004010 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 182217004011 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 182217004012 active site 182217004013 intersubunit interface [polypeptide binding]; other site 182217004014 catalytic residue [active] 182217004015 Dehydratase family; Region: ILVD_EDD; cl00340 182217004016 6-phosphogluconate dehydratase; Region: edd; TIGR01196 182217004017 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 182217004018 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 182217004019 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 182217004020 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 182217004021 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 182217004022 putative active site [active] 182217004023 glucokinase, proteobacterial type; Region: glk; TIGR00749 182217004024 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 182217004025 nucleotide binding site [chemical binding]; other site 182217004026 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217004027 Sel1-like repeats; Region: SEL1; smart00671 182217004028 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217004029 Sel1-like repeats; Region: SEL1; smart00671 182217004030 Sel1-like repeats; Region: SEL1; smart00671 182217004031 Sel1-like repeats; Region: SEL1; smart00671 182217004032 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217004033 Sel1-like repeats; Region: SEL1; smart00671 182217004034 Sel1-like repeats; Region: SEL1; smart00671 182217004035 Sel1-like repeats; Region: SEL1; smart00671 182217004036 Sel1-like repeats; Region: SEL1; smart00671 182217004037 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 182217004038 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 182217004039 active site 182217004040 dimer interface [polypeptide binding]; other site 182217004041 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 182217004042 dimer interface [polypeptide binding]; other site 182217004043 active site 182217004044 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 182217004045 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217004046 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 182217004047 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 182217004048 cofactor binding site; other site 182217004049 DNA binding site [nucleotide binding] 182217004050 substrate interaction site [chemical binding]; other site 182217004051 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 182217004052 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 182217004053 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 182217004054 TrbC/VIRB2 family; Region: TrbC; pfam04956 182217004055 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 182217004056 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 182217004057 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217004058 Walker A motif; other site 182217004059 ATP binding site [chemical binding]; other site 182217004060 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 182217004061 VirB8 protein; Region: VirB8; cl01500 182217004062 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 182217004063 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 182217004064 VirB7 interaction site; other site 182217004065 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 182217004066 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 182217004067 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 182217004068 Walker A motif; other site 182217004069 hexamer interface [polypeptide binding]; other site 182217004070 ATP binding site [chemical binding]; other site 182217004071 Walker B motif; other site 182217004072 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 182217004073 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 182217004074 Walker A motif; other site 182217004075 ATP binding site [chemical binding]; other site 182217004076 Walker B motif; other site 182217004077 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217004078 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 182217004079 DEAD-like helicases superfamily; Region: DEXDc; smart00487 182217004080 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 182217004081 helicase superfamily c-terminal domain; Region: HELICc; smart00490 182217004082 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 182217004083 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 182217004084 active site 182217004085 metal binding site [ion binding]; metal-binding site 182217004086 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 182217004087 domain I; other site 182217004088 DNA binding groove [nucleotide binding] 182217004089 phosphate binding site [ion binding]; other site 182217004090 domain II; other site 182217004091 domain III; other site 182217004092 nucleotide binding site [chemical binding]; other site 182217004093 catalytic site [active] 182217004094 domain IV; other site 182217004095 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 182217004096 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 182217004097 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 182217004098 P-loop; other site 182217004099 Magnesium ion binding site [ion binding]; other site 182217004100 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 182217004101 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 182217004102 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 182217004103 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 182217004104 Abi-like protein; Region: Abi_2; cl01988 182217004105 HipA-like C-terminal domain; Region: HipA_C; pfam07804 182217004106 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 182217004107 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 182217004108 active site 182217004109 catalytic residues [active] 182217004110 DNA binding site [nucleotide binding] 182217004111 Int/Topo IB signature motif; other site 182217004112 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 182217004113 GTPase CgtA; Reviewed; Region: obgE; PRK12299 182217004114 GTP1/OBG; Region: GTP1_OBG; pfam01018 182217004115 Obg GTPase; Region: Obg; cd01898 182217004116 G1 box; other site 182217004117 GTP/Mg2+ binding site [chemical binding]; other site 182217004118 Switch I region; other site 182217004119 G2 box; other site 182217004120 G3 box; other site 182217004121 Switch II region; other site 182217004122 G4 box; other site 182217004123 G5 box; other site 182217004124 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 182217004125 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 182217004126 Walker A/P-loop; other site 182217004127 ATP binding site [chemical binding]; other site 182217004128 Q-loop/lid; other site 182217004129 ABC transporter signature motif; other site 182217004130 Walker B; other site 182217004131 D-loop; other site 182217004132 H-loop/switch region; other site 182217004133 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 182217004134 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 182217004135 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 182217004136 Walker A/P-loop; other site 182217004137 ATP binding site [chemical binding]; other site 182217004138 Q-loop/lid; other site 182217004139 ABC transporter signature motif; other site 182217004140 Walker B; other site 182217004141 D-loop; other site 182217004142 H-loop/switch region; other site 182217004143 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 182217004144 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 182217004145 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 182217004146 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 182217004147 dimer interface [polypeptide binding]; other site 182217004148 conserved gate region; other site 182217004149 putative PBP binding loops; other site 182217004150 ABC-ATPase subunit interface; other site 182217004151 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 182217004152 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 182217004153 dimer interface [polypeptide binding]; other site 182217004154 conserved gate region; other site 182217004155 putative PBP binding loops; other site 182217004156 ABC-ATPase subunit interface; other site 182217004157 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 182217004158 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 182217004159 peptide binding site [polypeptide binding]; other site 182217004160 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 182217004161 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 182217004162 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004163 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 182217004164 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 182217004165 binding surface 182217004166 TPR motif; other site 182217004167 Sel1-like repeats; Region: SEL1; smart00671 182217004168 Sel1-like repeats; Region: SEL1; smart00671 182217004169 Sel1-like repeats; Region: SEL1; smart00671 182217004170 Sel1-like repeats; Region: SEL1; smart00671 182217004171 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 182217004172 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 182217004173 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217004174 DNA methylase; Region: N6_N4_Mtase; pfam01555 182217004175 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 182217004176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 182217004177 ATP binding site [chemical binding]; other site 182217004178 putative Mg++ binding site [ion binding]; other site 182217004179 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 182217004180 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 182217004181 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 182217004182 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 182217004183 Tetratricopeptide repeat; Region: TPR_16; pfam13432 182217004184 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 182217004185 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 182217004186 ligand binding site [chemical binding]; other site 182217004187 translocation protein TolB; Provisional; Region: tolB; PRK04043 182217004188 TolB amino-terminal domain; Region: TolB_N; pfam04052 182217004189 TonB C terminal; Region: TonB_2; pfam13103 182217004190 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 182217004191 TolR protein; Region: tolR; TIGR02801 182217004192 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 182217004193 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 182217004194 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 182217004195 gamma subunit interface [polypeptide binding]; other site 182217004196 epsilon subunit interface [polypeptide binding]; other site 182217004197 LBP interface [polypeptide binding]; other site 182217004198 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 182217004199 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 182217004200 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 182217004201 alpha subunit interaction interface [polypeptide binding]; other site 182217004202 Walker A motif; other site 182217004203 ATP binding site [chemical binding]; other site 182217004204 Walker B motif; other site 182217004205 inhibitor binding site; inhibition site 182217004206 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 182217004207 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 182217004208 core domain interface [polypeptide binding]; other site 182217004209 delta subunit interface [polypeptide binding]; other site 182217004210 epsilon subunit interface [polypeptide binding]; other site 182217004211 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 182217004212 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 182217004213 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 182217004214 beta subunit interaction interface [polypeptide binding]; other site 182217004215 Walker A motif; other site 182217004216 ATP binding site [chemical binding]; other site 182217004217 Walker B motif; other site 182217004218 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 182217004219 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 182217004220 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 182217004221 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 182217004222 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 182217004223 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 182217004224 ParB-like nuclease domain; Region: ParB; smart00470 182217004225 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 182217004226 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 182217004227 P-loop; other site 182217004228 Magnesium ion binding site [ion binding]; other site 182217004229 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 182217004230 biotin--protein ligase; Provisional; Region: PRK08477 182217004231 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 182217004232 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 182217004233 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 182217004234 putative active site [active] 182217004235 substrate binding site [chemical binding]; other site 182217004236 putative cosubstrate binding site; other site 182217004237 catalytic site [active] 182217004238 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 182217004239 potential frameshift: common BLAST hit: gi|218562749|ref|YP_002344528.1| two-domain glucosyltransferase 182217004240 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 182217004241 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 182217004242 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 182217004243 ATP binding site [chemical binding]; other site 182217004244 putative Mg++ binding site [ion binding]; other site 182217004245 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217004246 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 182217004247 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 182217004248 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 182217004249 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 182217004250 S-adenosylmethionine binding site [chemical binding]; other site 182217004251 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 182217004252 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 182217004253 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 182217004254 dimer interface [polypeptide binding]; other site 182217004255 conserved gate region; other site 182217004256 putative PBP binding loops; other site 182217004257 ABC-ATPase subunit interface; other site 182217004258 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 182217004259 dimer interface [polypeptide binding]; other site 182217004260 conserved gate region; other site 182217004261 putative PBP binding loops; other site 182217004262 ABC-ATPase subunit interface; other site 182217004263 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 182217004264 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 182217004265 Walker A/P-loop; other site 182217004266 ATP binding site [chemical binding]; other site 182217004267 Q-loop/lid; other site 182217004268 ABC transporter signature motif; other site 182217004269 Walker B; other site 182217004270 D-loop; other site 182217004271 H-loop/switch region; other site 182217004272 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 182217004273 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 182217004274 substrate binding pocket [chemical binding]; other site 182217004275 membrane-bound complex binding site; other site 182217004276 hinge residues; other site 182217004277 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217004278 Uncharacterized conserved protein [Function unknown]; Region: COG1479 182217004279 Protein of unknown function DUF262; Region: DUF262; pfam03235 182217004280 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 182217004281 elongation factor G; Reviewed; Region: PRK00007 182217004282 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 182217004283 G1 box; other site 182217004284 putative GEF interaction site [polypeptide binding]; other site 182217004285 GTP/Mg2+ binding site [chemical binding]; other site 182217004286 Switch I region; other site 182217004287 G2 box; other site 182217004288 G3 box; other site 182217004289 Switch II region; other site 182217004290 G4 box; other site 182217004291 G5 box; other site 182217004292 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 182217004293 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 182217004294 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 182217004295 30S ribosomal protein S7; Validated; Region: PRK05302 182217004296 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 182217004297 S17 interaction site [polypeptide binding]; other site 182217004298 S8 interaction site; other site 182217004299 16S rRNA interaction site [nucleotide binding]; other site 182217004300 streptomycin interaction site [chemical binding]; other site 182217004301 23S rRNA interaction site [nucleotide binding]; other site 182217004302 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 182217004303 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 182217004304 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; cl17585 182217004305 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 182217004306 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 182217004307 RPB11 interaction site [polypeptide binding]; other site 182217004308 RPB12 interaction site [polypeptide binding]; other site 182217004309 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 182217004310 RPB3 interaction site [polypeptide binding]; other site 182217004311 RPB1 interaction site [polypeptide binding]; other site 182217004312 RPB11 interaction site [polypeptide binding]; other site 182217004313 RPB10 interaction site [polypeptide binding]; other site 182217004314 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 182217004315 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 182217004316 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 182217004317 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 182217004318 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 182217004319 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 182217004320 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 182217004321 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 182217004322 DNA binding site [nucleotide binding] 182217004323 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 182217004324 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 182217004325 core dimer interface [polypeptide binding]; other site 182217004326 peripheral dimer interface [polypeptide binding]; other site 182217004327 L10 interface [polypeptide binding]; other site 182217004328 L11 interface [polypeptide binding]; other site 182217004329 putative EF-Tu interaction site [polypeptide binding]; other site 182217004330 putative EF-G interaction site [polypeptide binding]; other site 182217004331 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 182217004332 23S rRNA interface [nucleotide binding]; other site 182217004333 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 182217004334 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 182217004335 mRNA/rRNA interface [nucleotide binding]; other site 182217004336 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 182217004337 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 182217004338 23S rRNA interface [nucleotide binding]; other site 182217004339 L7/L12 interface [polypeptide binding]; other site 182217004340 putative thiostrepton binding site; other site 182217004341 L25 interface [polypeptide binding]; other site 182217004342 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 182217004343 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 182217004344 putative homodimer interface [polypeptide binding]; other site 182217004345 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 182217004346 heterodimer interface [polypeptide binding]; other site 182217004347 homodimer interface [polypeptide binding]; other site 182217004348 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 182217004349 elongation factor Tu; Reviewed; Region: PRK00049 182217004350 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 182217004351 G1 box; other site 182217004352 GEF interaction site [polypeptide binding]; other site 182217004353 GTP/Mg2+ binding site [chemical binding]; other site 182217004354 Switch I region; other site 182217004355 G2 box; other site 182217004356 G3 box; other site 182217004357 Switch II region; other site 182217004358 G4 box; other site 182217004359 G5 box; other site 182217004360 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 182217004361 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 182217004362 Antibiotic Binding Site [chemical binding]; other site 182217004363 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 182217004364 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 182217004365 Walker A/P-loop; other site 182217004366 ATP binding site [chemical binding]; other site 182217004367 Q-loop/lid; other site 182217004368 ABC transporter signature motif; other site 182217004369 Walker B; other site 182217004370 D-loop; other site 182217004371 H-loop/switch region; other site 182217004372 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 182217004373 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 182217004374 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004375 AAA domain; Region: AAA_13; pfam13166 182217004376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 182217004377 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 182217004378 Methyltransferase domain; Region: Methyltransf_26; pfam13659 182217004379 excinuclease ABC subunit B; Provisional; Region: PRK05298 182217004380 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 182217004381 ATP binding site [chemical binding]; other site 182217004382 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 182217004383 nucleotide binding region [chemical binding]; other site 182217004384 ATP-binding site [chemical binding]; other site 182217004385 Ultra-violet resistance protein B; Region: UvrB; pfam12344 182217004386 UvrB/uvrC motif; Region: UVR; pfam02151 182217004387 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 182217004388 primosome assembly protein PriA; Validated; Region: PRK05580 182217004389 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 182217004390 ATP binding site [chemical binding]; other site 182217004391 putative Mg++ binding site [ion binding]; other site 182217004392 helicase superfamily c-terminal domain; Region: HELICc; smart00490 182217004393 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 182217004394 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 182217004395 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 182217004396 putative NAD(P) binding site [chemical binding]; other site 182217004397 putative substrate binding site [chemical binding]; other site 182217004398 catalytic Zn binding site [ion binding]; other site 182217004399 structural Zn binding site [ion binding]; other site 182217004400 dimer interface [polypeptide binding]; other site 182217004401 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004402 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 182217004403 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 182217004404 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 182217004405 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 182217004406 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 182217004407 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 182217004408 dimer interface [polypeptide binding]; other site 182217004409 PYR/PP interface [polypeptide binding]; other site 182217004410 TPP binding site [chemical binding]; other site 182217004411 substrate binding site [chemical binding]; other site 182217004412 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 182217004413 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 182217004414 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 182217004415 TPP-binding site [chemical binding]; other site 182217004416 putative dimer interface [polypeptide binding]; other site 182217004417 adenylosuccinate lyase; Provisional; Region: PRK08470 182217004418 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 182217004419 tetramer interface [polypeptide binding]; other site 182217004420 active site 182217004421 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 182217004422 AAA domain; Region: AAA_21; pfam13304 182217004423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 182217004424 Walker B; other site 182217004425 D-loop; other site 182217004426 H-loop/switch region; other site 182217004427 Flagellin N-methylase; Region: FliB; pfam03692 182217004428 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 182217004429 tellurium resistance terB-like protein; Region: terB_like; cl11965 182217004430 metal binding site [ion binding]; metal-binding site 182217004431 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 182217004432 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 182217004433 Cytochrome c; Region: Cytochrom_C; pfam00034 182217004434 Cytochrome c; Region: Cytochrom_C; pfam00034 182217004435 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 182217004436 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 182217004437 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 182217004438 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 182217004439 Low-spin heme binding site [chemical binding]; other site 182217004440 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 182217004441 D-pathway; other site 182217004442 Putative water exit pathway; other site 182217004443 Binuclear center (active site) [active] 182217004444 K-pathway; other site 182217004445 Putative proton exit pathway; other site 182217004446 potential frameshift: common BLAST hit: gi|109946936|ref|YP_664164.1| citrate carrier 182217004447 DNA glycosylase MutY; Provisional; Region: PRK13910 182217004448 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 182217004449 minor groove reading motif; other site 182217004450 helix-hairpin-helix signature motif; other site 182217004451 substrate binding pocket [chemical binding]; other site 182217004452 active site 182217004453 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 182217004454 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 182217004455 L-lactate transport; Region: lctP; TIGR00795 182217004456 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 182217004457 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 182217004458 Cysteine-rich domain; Region: CCG; pfam02754 182217004459 Cysteine-rich domain; Region: CCG; pfam02754 182217004460 iron-sulfur cluster-binding protein; Region: TIGR00273 182217004461 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 182217004462 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 182217004463 Uncharacterized conserved protein [Function unknown]; Region: COG1556 182217004464 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 182217004465 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 182217004466 catalytic triad [active] 182217004467 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 182217004468 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 182217004469 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 182217004470 metal-binding site 182217004471 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 182217004472 HAMP domain; Region: HAMP; pfam00672 182217004473 dimerization interface [polypeptide binding]; other site 182217004474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 182217004475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 182217004476 dimer interface [polypeptide binding]; other site 182217004477 putative CheW interface [polypeptide binding]; other site 182217004478 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 182217004479 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 182217004480 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 182217004481 hypothetical protein; Provisional; Region: PRK10236 182217004482 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 182217004483 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 182217004484 Initiator Replication protein; Region: Rep_3; pfam01051 182217004485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 182217004486 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 182217004487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 182217004488 Initiator Replication protein; Region: Rep_3; pfam01051 182217004489 Initiator Replication protein; Region: Rep_3; pfam01051 182217004490 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 182217004491 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 182217004492 Replication protein; Region: Rep_1; cl02412