-- dump date 20140619_112149 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1163745000001 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 1163745000002 putative RNA binding site [nucleotide binding]; other site 1163745000003 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 1163745000004 homopentamer interface [polypeptide binding]; other site 1163745000005 active site 1163745000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1163745000007 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 1163745000008 active site clefts [active] 1163745000009 zinc binding site [ion binding]; other site 1163745000010 dimer interface [polypeptide binding]; other site 1163745000011 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 1163745000012 active site 1163745000013 dimer interface [polypeptide binding]; other site 1163745000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1163745000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1163745000016 active site 1163745000017 ATP-binding site [chemical binding]; other site 1163745000018 pantoate-binding site; other site 1163745000019 HXXH motif; other site 1163745000020 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1163745000021 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 1163745000022 ring oligomerisation interface [polypeptide binding]; other site 1163745000023 ATP/Mg binding site [chemical binding]; other site 1163745000024 stacking interactions; other site 1163745000025 hinge regions; other site 1163745000026 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 1163745000027 oligomerisation interface [polypeptide binding]; other site 1163745000028 mobile loop; other site 1163745000029 roof hairpin; other site 1163745000030 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000031 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000032 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1163745000033 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1163745000034 NADP binding site [chemical binding]; other site 1163745000035 active site 1163745000036 putative substrate binding site [chemical binding]; other site 1163745000037 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 1163745000038 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1163745000039 NADP-binding site; other site 1163745000040 homotetramer interface [polypeptide binding]; other site 1163745000041 substrate binding site [chemical binding]; other site 1163745000042 homodimer interface [polypeptide binding]; other site 1163745000043 active site 1163745000044 potential frameshift: common BLAST hit: gi|109946688|ref|YP_663916.1| mannose-6-phosphate isomerase / mannose-1-phosphate 1163745000045 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1163745000046 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1163745000047 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163745000048 VirB7 interaction site; other site 1163745000049 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1163745000050 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 1163745000051 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 1163745000052 PDZ domain; Region: PDZ_2; pfam13180 1163745000053 hypothetical protein; Provisional; Region: PRK03762 1163745000054 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1163745000055 tetramerization interface [polypeptide binding]; other site 1163745000056 active site 1163745000057 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1163745000058 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 1163745000059 Walker A motif; other site 1163745000060 ATP binding site [chemical binding]; other site 1163745000061 Walker B motif; other site 1163745000062 arginine finger; other site 1163745000063 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 1163745000064 Walker A motif; other site 1163745000065 ATP binding site [chemical binding]; other site 1163745000066 Walker B motif; other site 1163745000067 arginine finger; other site 1163745000068 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163745000069 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1163745000070 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 1163745000071 Ligand Binding Site [chemical binding]; other site 1163745000072 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1163745000073 AAA domain; Region: AAA_26; pfam13500 1163745000074 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1163745000075 isocitrate dehydrogenase; Validated; Region: PRK07362 1163745000076 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1163745000077 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 1163745000078 dimer interface [polypeptide binding]; other site 1163745000079 Citrate synthase; Region: Citrate_synt; pfam00285 1163745000080 active site 1163745000081 citrylCoA binding site [chemical binding]; other site 1163745000082 NADH binding [chemical binding]; other site 1163745000083 cationic pore residues; other site 1163745000084 oxalacetate/citrate binding site [chemical binding]; other site 1163745000085 coenzyme A binding site [chemical binding]; other site 1163745000086 catalytic triad [active] 1163745000087 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000088 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 1163745000089 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1163745000090 Sulfatase; Region: Sulfatase; pfam00884 1163745000091 lipid A 1-phosphatase; Reviewed; Region: PRK09597 1163745000092 active site 1163745000093 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1163745000094 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1163745000095 dimer interface [polypeptide binding]; other site 1163745000096 active site 1163745000097 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163745000098 catalytic residues [active] 1163745000099 substrate binding site [chemical binding]; other site 1163745000100 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 1163745000101 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163745000102 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 1163745000103 active site 1163745000104 phosphorylation site [posttranslational modification] 1163745000105 intermolecular recognition site; other site 1163745000106 dimerization interface [polypeptide binding]; other site 1163745000107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1163745000108 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1163745000109 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163745000110 Domain of unknown function DUF87; Region: DUF87; pfam01935 1163745000111 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1163745000112 TrbC/VIRB2 family; Region: TrbC; cl01583 1163745000113 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1163745000114 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 1163745000115 Ligand Binding Site [chemical binding]; other site 1163745000116 DNA primase, catalytic core; Region: dnaG; TIGR01391 1163745000117 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1163745000118 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1163745000119 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 1163745000120 active site 1163745000121 metal binding site [ion binding]; metal-binding site 1163745000122 interdomain interaction site; other site 1163745000123 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163745000124 MULE transposase domain; Region: MULE; pfam10551 1163745000125 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1163745000126 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1163745000127 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 1163745000128 dimer interface [polypeptide binding]; other site 1163745000129 active site 1163745000130 CoA binding pocket [chemical binding]; other site 1163745000131 putative phosphate acyltransferase; Provisional; Region: PRK05331 1163745000132 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1163745000133 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1163745000134 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 1163745000135 active site 1163745000136 multimer interface [polypeptide binding]; other site 1163745000137 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1163745000138 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1163745000139 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1163745000140 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1163745000141 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1163745000142 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1163745000143 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 1163745000144 trimer interface [polypeptide binding]; other site 1163745000145 active site 1163745000146 UDP-GlcNAc binding site [chemical binding]; other site 1163745000147 lipid binding site [chemical binding]; lipid-binding site 1163745000148 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 1163745000149 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1163745000150 NAD binding site [chemical binding]; other site 1163745000151 homotetramer interface [polypeptide binding]; other site 1163745000152 homodimer interface [polypeptide binding]; other site 1163745000153 substrate binding site [chemical binding]; other site 1163745000154 active site 1163745000155 triosephosphate isomerase; Provisional; Region: PRK14567 1163745000156 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 1163745000157 substrate binding site [chemical binding]; other site 1163745000158 dimer interface [polypeptide binding]; other site 1163745000159 catalytic triad [active] 1163745000160 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 1163745000161 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 1163745000162 Iron-sulfur protein interface; other site 1163745000163 proximal heme binding site [chemical binding]; other site 1163745000164 distal heme binding site [chemical binding]; other site 1163745000165 dimer interface [polypeptide binding]; other site 1163745000166 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 1163745000167 L-aspartate oxidase; Provisional; Region: PRK06175 1163745000168 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1163745000169 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 1163745000170 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 1163745000171 catalytic loop [active] 1163745000172 iron binding site [ion binding]; other site 1163745000173 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 1163745000174 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1163745000175 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163745000176 putative active site [active] 1163745000177 catalytic site [active] 1163745000178 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1163745000179 putative active site [active] 1163745000180 catalytic site [active] 1163745000181 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000182 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000183 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1163745000184 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1163745000185 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 1163745000186 dimer interface [polypeptide binding]; other site 1163745000187 ssDNA binding site [nucleotide binding]; other site 1163745000188 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163745000189 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1163745000190 DNA polymerase III subunit delta; Validated; Region: PRK08487 1163745000191 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1163745000192 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1163745000193 RNB domain; Region: RNB; pfam00773 1163745000194 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1163745000195 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1163745000196 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1163745000197 shikimate binding site; other site 1163745000198 NAD(P) binding site [chemical binding]; other site 1163745000199 Bacterial SH3 domain; Region: SH3_3; pfam08239 1163745000200 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1163745000201 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 1163745000202 dimer interface [polypeptide binding]; other site 1163745000203 conserved gate region; other site 1163745000204 putative PBP binding loops; other site 1163745000205 ABC-ATPase subunit interface; other site 1163745000206 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1163745000207 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1163745000208 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1163745000209 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1163745000210 active site 1163745000211 HIGH motif; other site 1163745000212 dimer interface [polypeptide binding]; other site 1163745000213 KMSKS motif; other site 1163745000214 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1163745000215 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 1163745000216 S-adenosylmethionine binding site [chemical binding]; other site 1163745000217 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1163745000218 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1163745000219 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 1163745000220 hinge region; other site 1163745000221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163745000222 active site 1163745000223 RDD family; Region: RDD; pfam06271 1163745000224 NADH dehydrogenase subunit A; Validated; Region: PRK08489 1163745000225 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1163745000226 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 1163745000227 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1163745000228 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1163745000229 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1163745000230 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1163745000231 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 1163745000232 catalytic loop [active] 1163745000233 iron binding site [ion binding]; other site 1163745000234 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1163745000235 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 1163745000236 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1163745000237 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1163745000238 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1163745000239 4Fe-4S binding domain; Region: Fer4; cl02805 1163745000240 4Fe-4S binding domain; Region: Fer4; pfam00037 1163745000241 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1163745000242 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1163745000243 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1163745000244 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1163745000245 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1163745000246 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1163745000247 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163745000248 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1163745000249 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163745000250 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1163745000251 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163745000252 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1163745000253 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1163745000254 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 1163745000255 active site 1163745000256 substrate binding site [chemical binding]; other site 1163745000257 metal binding site [ion binding]; metal-binding site 1163745000258 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 1163745000259 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1163745000260 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1163745000261 Thiamine pyrophosphokinase; Region: TPK; cd07995 1163745000262 active site 1163745000263 dimerization interface [polypeptide binding]; other site 1163745000264 thiamine binding site [chemical binding]; other site 1163745000265 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1163745000266 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 1163745000267 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 1163745000268 active site 1163745000269 motif I; other site 1163745000270 motif II; other site 1163745000271 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163745000272 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 1163745000273 potential frameshift: common BLAST hit: gi|384899791|ref|YP_005775171.1| Type II DNA modification enzyme 1163745000274 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745000275 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 1163745000276 cofactor binding site; other site 1163745000277 DNA binding site [nucleotide binding] 1163745000278 substrate interaction site [chemical binding]; other site 1163745000279 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745000280 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 1163745000281 anthranilate synthase component I; Provisional; Region: PRK13564 1163745000282 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163745000283 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163745000284 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1163745000285 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1163745000286 glutamine binding [chemical binding]; other site 1163745000287 catalytic triad [active] 1163745000288 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1163745000289 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 1163745000290 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1163745000291 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1163745000292 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 1163745000293 active site 1163745000294 ribulose/triose binding site [chemical binding]; other site 1163745000295 phosphate binding site [ion binding]; other site 1163745000296 substrate (anthranilate) binding pocket [chemical binding]; other site 1163745000297 product (indole) binding pocket [chemical binding]; other site 1163745000298 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 1163745000299 active site 1163745000300 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1163745000301 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 1163745000302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745000303 catalytic residue [active] 1163745000304 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1163745000305 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 1163745000306 substrate binding site [chemical binding]; other site 1163745000307 active site 1163745000308 catalytic residues [active] 1163745000309 heterodimer interface [polypeptide binding]; other site 1163745000310 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163745000311 Sel1-like repeats; Region: SEL1; smart00671 1163745000312 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745000313 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 1163745000314 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 1163745000315 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1163745000316 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1163745000317 IPP transferase; Region: IPPT; pfam01715 1163745000318 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 1163745000319 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163745000320 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1163745000321 Ligand binding site; other site 1163745000322 metal-binding site 1163745000323 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 1163745000324 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 1163745000325 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 1163745000326 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1163745000327 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1163745000328 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 1163745000329 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 1163745000330 Walker A motif/ATP binding site; other site 1163745000331 Walker B motif; other site 1163745000332 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 1163745000333 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 1163745000334 ATP binding site [chemical binding]; other site 1163745000335 Walker A motif; other site 1163745000336 hexamer interface [polypeptide binding]; other site 1163745000337 Walker B motif; other site 1163745000338 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1163745000339 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163745000340 active site 1163745000341 HIGH motif; other site 1163745000342 nucleotide binding site [chemical binding]; other site 1163745000343 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1163745000344 active site 1163745000345 KMSKS motif; other site 1163745000346 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1163745000347 tRNA binding surface [nucleotide binding]; other site 1163745000348 anticodon binding site; other site 1163745000349 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 1163745000350 RNA binding surface [nucleotide binding]; other site 1163745000351 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000352 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1163745000353 dimethyladenosine transferase; Region: ksgA; TIGR00755 1163745000354 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1163745000355 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163745000356 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1163745000357 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1163745000358 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 1163745000359 putative active site [active] 1163745000360 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 1163745000361 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 1163745000362 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 1163745000363 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000364 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 1163745000365 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1163745000366 MFS/sugar transport protein; Region: MFS_2; pfam13347 1163745000367 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 1163745000368 active site 1163745000369 carbon storage regulator; Provisional; Region: PRK00568 1163745000370 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 1163745000371 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 1163745000372 SmpB-tmRNA interface; other site 1163745000373 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1163745000374 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163745000375 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1163745000376 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1163745000377 Ribonuclease P; Region: Ribonuclease_P; cl00457 1163745000378 Haemolytic domain; Region: Haemolytic; cl00506 1163745000379 membrane protein insertase; Provisional; Region: PRK01318 1163745000380 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1163745000381 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1163745000382 KH domain; Region: KH_4; pfam13083 1163745000383 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1163745000384 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1163745000385 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1163745000386 G4 box; other site 1163745000387 GTP/Mg2+ binding site [chemical binding]; other site 1163745000388 G5 box; other site 1163745000389 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1163745000390 G1 box; other site 1163745000391 G1 box; other site 1163745000392 GTP/Mg2+ binding site [chemical binding]; other site 1163745000393 Switch I region; other site 1163745000394 Switch I region; other site 1163745000395 G2 box; other site 1163745000396 G2 box; other site 1163745000397 Switch II region; other site 1163745000398 G3 box; other site 1163745000399 G4 box; other site 1163745000400 G5 box; other site 1163745000401 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1163745000402 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000403 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000404 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000405 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1163745000406 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1163745000407 tandem repeat interface [polypeptide binding]; other site 1163745000408 oligomer interface [polypeptide binding]; other site 1163745000409 active site residues [active] 1163745000410 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 1163745000411 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1163745000412 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1163745000413 active site 1163745000414 substrate binding site [chemical binding]; other site 1163745000415 cosubstrate binding site; other site 1163745000416 catalytic site [active] 1163745000417 LPP20 lipoprotein; Region: LPP20; cl15824 1163745000418 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1163745000419 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 1163745000420 catalytic residues [active] 1163745000421 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 1163745000422 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1163745000423 active site 1163745000424 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1163745000425 RNA polymerase II transcription mediator complex subunit 9; Region: Med9; pfam07544 1163745000426 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163745000427 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1163745000428 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1163745000429 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745000430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745000431 Probable transposase; Region: OrfB_IS605; pfam01385 1163745000432 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745000433 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745000434 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000435 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745000436 dimer interface [polypeptide binding]; other site 1163745000437 putative CheW interface [polypeptide binding]; other site 1163745000438 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 1163745000439 PAS domain; Region: PAS_9; pfam13426 1163745000440 putative active site [active] 1163745000441 heme pocket [chemical binding]; other site 1163745000442 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1163745000443 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163745000444 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163745000445 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1163745000446 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000447 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163745000448 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745000449 dimer interface [polypeptide binding]; other site 1163745000450 putative CheW interface [polypeptide binding]; other site 1163745000451 MraW methylase family; Region: Methyltransf_5; cl17771 1163745000452 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1163745000453 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000454 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000455 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1163745000456 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1163745000457 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1163745000458 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1163745000459 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1163745000460 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1163745000461 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1163745000462 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1163745000463 Walker A/P-loop; other site 1163745000464 ATP binding site [chemical binding]; other site 1163745000465 Q-loop/lid; other site 1163745000466 ABC transporter signature motif; other site 1163745000467 Walker B; other site 1163745000468 D-loop; other site 1163745000469 H-loop/switch region; other site 1163745000470 tRNA threonylcarbamoyl adenosine modification protein YjeE; Region: T6A_YjeE; TIGR00150 1163745000471 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 1163745000472 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 1163745000473 Walker A motif; other site 1163745000474 ATP binding site [chemical binding]; other site 1163745000475 Walker B motif; other site 1163745000476 arginine finger; other site 1163745000477 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1163745000478 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1163745000479 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1163745000480 active site 1163745000481 homodimer interface [polypeptide binding]; other site 1163745000482 homotetramer interface [polypeptide binding]; other site 1163745000483 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163745000484 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163745000485 Predicted membrane protein [Function unknown]; Region: COG2855 1163745000486 Lysine efflux permease [General function prediction only]; Region: COG1279 1163745000487 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1163745000488 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 1163745000489 FMN binding site [chemical binding]; other site 1163745000490 active site 1163745000491 catalytic residues [active] 1163745000492 substrate binding site [chemical binding]; other site 1163745000493 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1163745000494 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163745000495 active site 1163745000496 NTP binding site [chemical binding]; other site 1163745000497 metal binding triad [ion binding]; metal-binding site 1163745000498 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163745000499 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 1163745000500 Ligand Binding Site [chemical binding]; other site 1163745000501 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163745000502 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 1163745000503 nickel binding site [ion binding]; other site 1163745000504 putative substrate-binding site; other site 1163745000505 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 1163745000506 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1163745000507 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1163745000508 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745000509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745000510 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745000511 Probable transposase; Region: OrfB_IS605; pfam01385 1163745000512 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745000513 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1163745000514 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1163745000515 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1163745000516 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1163745000517 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000518 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1163745000519 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163745000520 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163745000521 Outer membrane efflux protein; Region: OEP; pfam02321 1163745000522 Outer membrane efflux protein; Region: OEP; pfam02321 1163745000523 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 1163745000524 substrate binding site [chemical binding]; other site 1163745000525 active site 1163745000526 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 1163745000527 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163745000528 minor groove reading motif; other site 1163745000529 helix-hairpin-helix signature motif; other site 1163745000530 substrate binding pocket [chemical binding]; other site 1163745000531 active site 1163745000532 flagellin A; Reviewed; Region: PRK12584 1163745000533 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163745000534 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163745000535 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163745000536 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163745000537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745000538 dimer interface [polypeptide binding]; other site 1163745000539 putative CheW interface [polypeptide binding]; other site 1163745000540 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1163745000541 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1163745000542 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163745000543 catalytic residue [active] 1163745000544 Transglycosylase; Region: Transgly; pfam00912 1163745000545 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1163745000546 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163745000547 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 1163745000548 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1163745000549 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000550 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 1163745000551 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1163745000552 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 1163745000553 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 1163745000554 TPP-binding site [chemical binding]; other site 1163745000555 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 1163745000556 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 1163745000557 dimer interface [polypeptide binding]; other site 1163745000558 PYR/PP interface [polypeptide binding]; other site 1163745000559 TPP binding site [chemical binding]; other site 1163745000560 substrate binding site [chemical binding]; other site 1163745000561 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 1163745000562 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 1163745000563 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1163745000564 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1163745000565 dimerization interface [polypeptide binding]; other site 1163745000566 Protein of unknown function; Region: DUF3971; pfam13116 1163745000567 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 1163745000568 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1163745000569 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1163745000570 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163745000571 minor groove reading motif; other site 1163745000572 helix-hairpin-helix signature motif; other site 1163745000573 substrate binding pocket [chemical binding]; other site 1163745000574 active site 1163745000575 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1163745000576 flagellar motor switch protein; Validated; Region: PRK08433 1163745000577 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163745000578 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1163745000579 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 1163745000580 Amidohydrolase; Region: Amidohydro_4; pfam13147 1163745000581 active site 1163745000582 substrate binding pocket [chemical binding]; other site 1163745000583 dimer interface [polypeptide binding]; other site 1163745000584 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1163745000585 BNR repeat-like domain; Region: BNR_2; pfam13088 1163745000586 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1163745000587 Sulfatase; Region: Sulfatase; pfam00884 1163745000588 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1163745000589 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 1163745000590 active site residue [active] 1163745000591 thymidylate kinase; Provisional; Region: PRK13975; cl17243 1163745000592 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 1163745000593 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1163745000594 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1163745000595 homodimer interface [polypeptide binding]; other site 1163745000596 NADP binding site [chemical binding]; other site 1163745000597 substrate binding site [chemical binding]; other site 1163745000598 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1163745000599 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 1163745000600 Catalytic site [active] 1163745000601 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 1163745000602 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 1163745000603 Peptidase family M50; Region: Peptidase_M50; pfam02163 1163745000604 active site 1163745000605 putative substrate binding region [chemical binding]; other site 1163745000606 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1163745000607 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163745000608 active site 1163745000609 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163745000610 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1163745000611 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 1163745000612 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 1163745000613 interface (dimer of trimers) [polypeptide binding]; other site 1163745000614 Substrate-binding/catalytic site; other site 1163745000615 Zn-binding sites [ion binding]; other site 1163745000616 GTP-binding protein YchF; Reviewed; Region: PRK09601 1163745000617 YchF GTPase; Region: YchF; cd01900 1163745000618 G1 box; other site 1163745000619 GTP/Mg2+ binding site [chemical binding]; other site 1163745000620 Switch I region; other site 1163745000621 G2 box; other site 1163745000622 Switch II region; other site 1163745000623 G3 box; other site 1163745000624 G4 box; other site 1163745000625 G5 box; other site 1163745000626 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 1163745000627 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1163745000628 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163745000629 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163745000630 diaminopimelate epimerase; Region: DapF; TIGR00652 1163745000631 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163745000632 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163745000633 Predicted membrane protein [Function unknown]; Region: COG3059 1163745000634 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1163745000635 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163745000636 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163745000637 NAD(P) binding site [chemical binding]; other site 1163745000638 active site 1163745000639 acyl carrier protein; Provisional; Region: acpP; PRK00982 1163745000640 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 1163745000641 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 1163745000642 dimer interface [polypeptide binding]; other site 1163745000643 active site 1163745000644 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 1163745000645 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1163745000646 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1163745000647 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 1163745000648 N-terminal plug; other site 1163745000649 ligand-binding site [chemical binding]; other site 1163745000650 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000651 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1163745000652 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 1163745000653 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 1163745000654 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1163745000655 stage II sporulation protein E; Region: spore_II_E; TIGR02865 1163745000656 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000657 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 1163745000658 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1163745000659 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 1163745000660 Mg2+ binding site [ion binding]; other site 1163745000661 G-X-G motif; other site 1163745000662 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 1163745000663 anchoring element; other site 1163745000664 dimer interface [polypeptide binding]; other site 1163745000665 ATP binding site [chemical binding]; other site 1163745000666 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 1163745000667 active site 1163745000668 putative metal-binding site [ion binding]; other site 1163745000669 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163745000670 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 1163745000671 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 1163745000672 putative DNA binding surface [nucleotide binding]; other site 1163745000673 dimer interface [polypeptide binding]; other site 1163745000674 beta-clamp/translesion DNA polymerase binding surface; other site 1163745000675 beta-clamp/clamp loader binding surface; other site 1163745000676 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 1163745000677 dimerization interface [polypeptide binding]; other site 1163745000678 substrate binding site [chemical binding]; other site 1163745000679 active site 1163745000680 calcium binding site [ion binding]; other site 1163745000681 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163745000682 Na2 binding site [ion binding]; other site 1163745000683 putative substrate binding site 1 [chemical binding]; other site 1163745000684 Na binding site 1 [ion binding]; other site 1163745000685 putative substrate binding site 2 [chemical binding]; other site 1163745000686 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1163745000687 Na binding site [ion binding]; other site 1163745000688 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163745000689 putative substrate binding site 1 [chemical binding]; other site 1163745000690 Na binding site 1 [ion binding]; other site 1163745000691 putative substrate binding site 2 [chemical binding]; other site 1163745000692 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 1163745000693 active site 1163745000694 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1163745000695 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 1163745000696 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163745000697 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163745000698 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1163745000699 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 1163745000700 Mg++ binding site [ion binding]; other site 1163745000701 putative catalytic motif [active] 1163745000702 putative substrate binding site [chemical binding]; other site 1163745000703 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163745000704 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1163745000705 Cation transport protein; Region: TrkH; cl17365 1163745000706 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1163745000707 TrkA-N domain; Region: TrkA_N; pfam02254 1163745000708 TrkA-C domain; Region: TrkA_C; pfam02080 1163745000709 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1163745000710 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1163745000711 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1163745000712 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1163745000713 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 1163745000714 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 1163745000715 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 1163745000716 active site 1163745000717 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1163745000718 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1163745000719 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1163745000720 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 1163745000721 CoA-binding site [chemical binding]; other site 1163745000722 ATP-binding [chemical binding]; other site 1163745000723 spermidine synthase; Provisional; Region: speE; PRK00536 1163745000724 spermidine synthase; Provisional; Region: PRK00811 1163745000725 GTP-binding protein Der; Reviewed; Region: PRK00093 1163745000726 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1163745000727 G1 box; other site 1163745000728 GTP/Mg2+ binding site [chemical binding]; other site 1163745000729 Switch I region; other site 1163745000730 G2 box; other site 1163745000731 Switch II region; other site 1163745000732 G3 box; other site 1163745000733 G4 box; other site 1163745000734 G5 box; other site 1163745000735 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1163745000736 G1 box; other site 1163745000737 GTP/Mg2+ binding site [chemical binding]; other site 1163745000738 Switch I region; other site 1163745000739 G2 box; other site 1163745000740 G3 box; other site 1163745000741 Switch II region; other site 1163745000742 G4 box; other site 1163745000743 G5 box; other site 1163745000744 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 1163745000745 IHF dimer interface [polypeptide binding]; other site 1163745000746 IHF - DNA interface [nucleotide binding]; other site 1163745000747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1163745000748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1163745000749 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1163745000750 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1163745000751 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1163745000752 NAD(P) binding site [chemical binding]; other site 1163745000753 homodimer interface [polypeptide binding]; other site 1163745000754 substrate binding site [chemical binding]; other site 1163745000755 active site 1163745000756 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1163745000757 Flavoprotein; Region: Flavoprotein; pfam02441 1163745000758 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1163745000759 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1163745000760 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1163745000761 Alpha-2,3-sialyltransferase (CST-I); Region: CST-I; pfam06002 1163745000762 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 1163745000763 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1163745000764 ligand binding site; other site 1163745000765 tetramer interface; other site 1163745000766 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1163745000767 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 1163745000768 active site 1163745000769 homodimer interface [polypeptide binding]; other site 1163745000770 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1163745000771 NeuB family; Region: NeuB; pfam03102 1163745000772 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1163745000773 NeuB binding interface [polypeptide binding]; other site 1163745000774 putative substrate binding site [chemical binding]; other site 1163745000775 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 1163745000776 active site 1163745000777 thiamine phosphate binding site [chemical binding]; other site 1163745000778 pyrophosphate binding site [ion binding]; other site 1163745000779 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1163745000780 dimer interface [polypeptide binding]; other site 1163745000781 substrate binding site [chemical binding]; other site 1163745000782 ATP binding site [chemical binding]; other site 1163745000783 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1163745000784 substrate binding site [chemical binding]; other site 1163745000785 multimerization interface [polypeptide binding]; other site 1163745000786 ATP binding site [chemical binding]; other site 1163745000787 Protein of unknown function (DUF511); Region: DUF511; cl01114 1163745000788 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1163745000789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745000790 Walker A/P-loop; other site 1163745000791 ATP binding site [chemical binding]; other site 1163745000792 Q-loop/lid; other site 1163745000793 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163745000794 ABC transporter; Region: ABC_tran_2; pfam12848 1163745000795 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163745000796 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745000797 potential frameshift: common BLAST hit: gi|383750635|ref|YP_005425737.1| IS606 transposase 1163745000798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745000799 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745000800 Probable transposase; Region: OrfB_IS605; pfam01385 1163745000801 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745000802 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1163745000803 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 1163745000804 dimer interface [polypeptide binding]; other site 1163745000805 active site 1163745000806 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1163745000807 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 1163745000808 putative ribose interaction site [chemical binding]; other site 1163745000809 putative ADP binding site [chemical binding]; other site 1163745000810 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1163745000811 active site 1163745000812 nucleotide binding site [chemical binding]; other site 1163745000813 HIGH motif; other site 1163745000814 KMSKS motif; other site 1163745000815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163745000816 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1163745000817 NAD(P) binding site [chemical binding]; other site 1163745000818 active site 1163745000819 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1163745000820 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 1163745000821 active site 1163745000822 motif I; other site 1163745000823 motif II; other site 1163745000824 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1163745000825 pantothenate kinase; Reviewed; Region: PRK13333 1163745000826 PQQ-like domain; Region: PQQ_2; pfam13360 1163745000827 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163745000828 trimer interface [polypeptide binding]; other site 1163745000829 active site 1163745000830 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1163745000831 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163745000832 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163745000833 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1163745000834 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 1163745000835 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 1163745000836 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 1163745000837 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1163745000838 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 1163745000839 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163745000840 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163745000841 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1163745000842 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163745000843 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1163745000844 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1163745000845 PhnA protein; Region: PhnA; pfam03831 1163745000846 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1163745000847 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1163745000848 tetramer interface [polypeptide binding]; other site 1163745000849 heme binding pocket [chemical binding]; other site 1163745000850 NADPH binding site [chemical binding]; other site 1163745000851 potential frameshift: common BLAST hit: gi|308183030|ref|YP_003927157.1| iron-regulated outer membrane protein 1163745000852 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 1163745000853 active site 1163745000854 putative DNA-binding cleft [nucleotide binding]; other site 1163745000855 dimer interface [polypeptide binding]; other site 1163745000856 Vacuolating cyotoxin; Region: VacA; pfam02691 1163745000857 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745000858 Vacuolating cyotoxin; Region: VacA; pfam02691 1163745000859 Vacuolating cyotoxin; Region: VacA; pfam02691 1163745000860 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745000861 Vacuolating cyotoxin; Region: VacA; pfam02691 1163745000862 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745000863 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1163745000864 RuvA N terminal domain; Region: RuvA_N; pfam01330 1163745000865 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1163745000866 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1163745000867 MviN-like protein; Region: MVIN; pfam03023 1163745000868 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1163745000869 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163745000870 active site 1163745000871 HIGH motif; other site 1163745000872 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163745000873 KMSKS motif; other site 1163745000874 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163745000875 tRNA binding surface [nucleotide binding]; other site 1163745000876 anticodon binding site; other site 1163745000877 Vacuolating cyotoxin; Region: VacA; pfam02691 1163745000878 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745000879 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1163745000880 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1163745000881 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1163745000882 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1163745000883 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1163745000884 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1163745000885 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1163745000886 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1163745000887 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745000888 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163745000889 Part of AAA domain; Region: AAA_19; pfam13245 1163745000890 Family description; Region: UvrD_C_2; pfam13538 1163745000891 potential frameshift: common BLAST hit: gi|109947739|ref|YP_664967.1| type II restriction endonuclease 1163745000892 potential frameshift: common BLAST hit: gi|188527303|ref|YP_001909990.1| type II restriction endonuclease 1163745000893 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 1163745000894 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745000895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745000896 Probable transposase; Region: OrfB_IS605; pfam01385 1163745000897 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745000898 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745000899 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 1163745000900 cofactor binding site; other site 1163745000901 DNA binding site [nucleotide binding] 1163745000902 substrate interaction site [chemical binding]; other site 1163745000903 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1163745000904 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 1163745000905 homotrimer interaction site [polypeptide binding]; other site 1163745000906 putative active site [active] 1163745000907 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1163745000908 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 1163745000909 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163745000910 amino acid carrier protein; Region: agcS; TIGR00835 1163745000911 alanine racemase; Region: alr; TIGR00492 1163745000912 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1163745000913 active site 1163745000914 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163745000915 dimer interface [polypeptide binding]; other site 1163745000916 substrate binding site [chemical binding]; other site 1163745000917 catalytic residues [active] 1163745000918 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1163745000919 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 1163745000920 substrate binding pocket [chemical binding]; other site 1163745000921 membrane-bound complex binding site; other site 1163745000922 hinge residues; other site 1163745000923 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1163745000924 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 1163745000925 dimer interface [polypeptide binding]; other site 1163745000926 conserved gate region; other site 1163745000927 putative PBP binding loops; other site 1163745000928 ABC-ATPase subunit interface; other site 1163745000929 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000930 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745000931 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 1163745000932 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1163745000933 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1163745000934 putative recombination protein RecO; Provisional; Region: PRK13908 1163745000935 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 1163745000936 AAA domain; Region: AAA_23; pfam13476 1163745000937 AAA ATPase domain; Region: AAA_15; pfam13175 1163745000938 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1163745000939 Walker B; other site 1163745000940 D-loop; other site 1163745000941 H-loop/switch region; other site 1163745000942 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 1163745000943 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1163745000944 cofactor binding site; other site 1163745000945 DNA binding site [nucleotide binding] 1163745000946 substrate interaction site [chemical binding]; other site 1163745000947 GTP-binding protein LepA; Provisional; Region: PRK05433 1163745000948 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1163745000949 G1 box; other site 1163745000950 putative GEF interaction site [polypeptide binding]; other site 1163745000951 GTP/Mg2+ binding site [chemical binding]; other site 1163745000952 Switch I region; other site 1163745000953 G2 box; other site 1163745000954 G3 box; other site 1163745000955 Switch II region; other site 1163745000956 G4 box; other site 1163745000957 G5 box; other site 1163745000958 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 1163745000959 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 1163745000960 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1163745000961 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 1163745000962 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 1163745000963 TPP-binding site; other site 1163745000964 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 1163745000965 PYR/PP interface [polypeptide binding]; other site 1163745000966 dimer interface [polypeptide binding]; other site 1163745000967 TPP binding site [chemical binding]; other site 1163745000968 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163745000969 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1163745000970 Flagellar assembly protein FliH; Region: FliH; pfam02108 1163745000971 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1163745000972 FliG C-terminal domain; Region: FliG_C; pfam01706 1163745000973 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 1163745000974 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1163745000975 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1163745000976 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163745000977 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 1163745000978 active site 1163745000979 CTP synthetase; Validated; Region: pyrG; PRK05380 1163745000980 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 1163745000981 Catalytic site [active] 1163745000982 active site 1163745000983 UTP binding site [chemical binding]; other site 1163745000984 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1163745000985 active site 1163745000986 putative oxyanion hole; other site 1163745000987 catalytic triad [active] 1163745000988 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1163745000989 DHH family; Region: DHH; pfam01368 1163745000990 DHHA1 domain; Region: DHHA1; pfam02272 1163745000991 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163745000992 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163745000993 active site 1163745000994 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745000995 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163745000996 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163745000997 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745000998 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1163745000999 DNA protecting protein DprA; Region: dprA; TIGR00732 1163745001000 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1163745001001 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1163745001002 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 1163745001003 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 1163745001004 Switch I; other site 1163745001005 Switch II; other site 1163745001006 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1163745001007 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1163745001008 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1163745001009 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 1163745001010 NAD synthetase; Provisional; Region: PRK13980 1163745001011 homodimer interface [polypeptide binding]; other site 1163745001012 NAD binding pocket [chemical binding]; other site 1163745001013 ATP binding pocket [chemical binding]; other site 1163745001014 Mg binding site [ion binding]; other site 1163745001015 active-site loop [active] 1163745001016 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1163745001017 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1163745001018 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163745001019 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 1163745001020 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1163745001021 ligand binding site; other site 1163745001022 tetramer interface; other site 1163745001023 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1163745001024 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1163745001025 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001026 nuclease NucT; Provisional; Region: PRK13912 1163745001027 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1163745001028 putative active site [active] 1163745001029 catalytic site [active] 1163745001030 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 1163745001031 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1163745001032 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 1163745001033 catalytic site [active] 1163745001034 G-X2-G-X-G-K; other site 1163745001035 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1163745001036 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1163745001037 arginyl-tRNA synthetase; Region: argS; TIGR00456 1163745001038 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1163745001039 active site 1163745001040 HIGH motif; other site 1163745001041 KMSK motif region; other site 1163745001042 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163745001043 tRNA binding surface [nucleotide binding]; other site 1163745001044 anticodon binding site; other site 1163745001045 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1163745001046 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 1163745001047 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1163745001048 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1163745001049 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745001050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745001051 Probable transposase; Region: OrfB_IS605; pfam01385 1163745001052 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745001053 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745001054 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 1163745001055 P-loop; other site 1163745001056 Magnesium ion binding site [ion binding]; other site 1163745001057 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1163745001058 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 1163745001059 potential frameshift: common BLAST hit: gi|109947157|ref|YP_664385.1| outer membrane protein 5 1163745001060 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745001061 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745001062 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163745001063 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745001064 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745001065 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1163745001066 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1163745001067 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 1163745001068 Walker B motif; other site 1163745001069 arginine finger; other site 1163745001070 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 1163745001071 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163745001072 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 1163745001073 FeS/SAM binding site; other site 1163745001074 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163745001075 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163745001076 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1163745001077 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1163745001078 active site 1163745001079 dimer interface [polypeptide binding]; other site 1163745001080 metal binding site [ion binding]; metal-binding site 1163745001081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 1163745001082 TrkA-C domain; Region: TrkA_C; pfam02080 1163745001083 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1163745001084 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1163745001085 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1163745001086 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163745001087 putative acyl-acceptor binding pocket; other site 1163745001088 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163745001089 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 1163745001090 putative active site [active] 1163745001091 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1163745001092 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1163745001093 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1163745001094 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1163745001095 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1163745001096 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1163745001097 putative acyl-acceptor binding pocket; other site 1163745001098 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163745001099 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 1163745001100 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 1163745001101 FeS/SAM binding site; other site 1163745001102 chlorohydrolase; Provisional; Region: PRK08418 1163745001103 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 1163745001104 active site 1163745001105 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 1163745001106 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 1163745001107 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 1163745001108 active site 1163745001109 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1163745001110 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1163745001111 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1163745001112 Clp amino terminal domain; Region: Clp_N; pfam02861 1163745001113 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 1163745001114 Walker A motif; other site 1163745001115 ATP binding site [chemical binding]; other site 1163745001116 Walker B motif; other site 1163745001117 arginine finger; other site 1163745001118 Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability; Region: TRFH; cl02779 1163745001119 dimer interface [polypeptide binding]; other site 1163745001120 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 1163745001121 Walker A motif; other site 1163745001122 ATP binding site [chemical binding]; other site 1163745001123 Walker B motif; other site 1163745001124 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163745001125 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163745001126 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745001127 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745001128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745001129 Probable transposase; Region: OrfB_IS605; pfam01385 1163745001130 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745001131 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745001132 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1163745001133 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1163745001134 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 1163745001135 active site 1163745001136 catalytic residues [active] 1163745001137 DNA binding site [nucleotide binding] 1163745001138 Int/Topo IB signature motif; other site 1163745001139 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1163745001140 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 1163745001141 antiporter inner membrane protein; Provisional; Region: PRK11670 1163745001142 Domain of unknown function DUF59; Region: DUF59; cl00941 1163745001143 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 1163745001144 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745001145 potential frameshift: common BLAST hit: gi|383750635|ref|YP_005425737.1| IS606 transposase 1163745001146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745001147 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745001148 Probable transposase; Region: OrfB_IS605; pfam01385 1163745001149 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745001150 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1163745001151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745001152 Walker A/P-loop; other site 1163745001153 ATP binding site [chemical binding]; other site 1163745001154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745001155 Walker B; other site 1163745001156 D-loop; other site 1163745001157 H-loop/switch region; other site 1163745001158 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001159 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163745001160 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 1163745001161 S-adenosylmethionine binding site [chemical binding]; other site 1163745001162 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1163745001163 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163745001164 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163745001165 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1163745001166 dimer interface [polypeptide binding]; other site 1163745001167 catalytic triad [active] 1163745001168 peroxidatic and resolving cysteines [active] 1163745001169 potential protein location (hypothetical protein HCD_02520 [Helicobacter cetorum MIT 99-5656]) that overlaps RNA (tRNA-I) 1163745001170 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 1163745001171 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1163745001172 NAD binding site [chemical binding]; other site 1163745001173 homodimer interface [polypeptide binding]; other site 1163745001174 active site 1163745001175 substrate binding site [chemical binding]; other site 1163745001176 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 1163745001177 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1163745001178 dimerization interface 3.5A [polypeptide binding]; other site 1163745001179 active site 1163745001180 Predicted permeases [General function prediction only]; Region: COG0795 1163745001181 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163745001182 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1163745001183 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 1163745001184 S-adenosylmethionine binding site [chemical binding]; other site 1163745001185 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1163745001186 dimer interface [polypeptide binding]; other site 1163745001187 putative radical transfer pathway; other site 1163745001188 diiron center [ion binding]; other site 1163745001189 tyrosyl radical; other site 1163745001190 potential protein location (hypothetical protein HCD_02550 [Helicobacter cetorum MIT 99-5656]) that overlaps RNA (tRNA-L) 1163745001191 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 1163745001192 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 1163745001193 generic binding surface II; other site 1163745001194 generic binding surface I; other site 1163745001195 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 1163745001196 RIP metalloprotease RseP; Region: TIGR00054 1163745001197 active site 1163745001198 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 1163745001199 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1163745001200 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1163745001201 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 1163745001202 GDP-binding site [chemical binding]; other site 1163745001203 ACT binding site; other site 1163745001204 IMP binding site; other site 1163745001205 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001206 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001207 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1163745001208 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 1163745001209 dimer interface [polypeptide binding]; other site 1163745001210 conserved gate region; other site 1163745001211 putative PBP binding loops; other site 1163745001212 ABC-ATPase subunit interface; other site 1163745001213 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1163745001214 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163745001215 Walker A/P-loop; other site 1163745001216 ATP binding site [chemical binding]; other site 1163745001217 Q-loop/lid; other site 1163745001218 ABC transporter signature motif; other site 1163745001219 Walker B; other site 1163745001220 D-loop; other site 1163745001221 H-loop/switch region; other site 1163745001222 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163745001223 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163745001224 Walker A/P-loop; other site 1163745001225 ATP binding site [chemical binding]; other site 1163745001226 Q-loop/lid; other site 1163745001227 ABC transporter signature motif; other site 1163745001228 Walker B; other site 1163745001229 D-loop; other site 1163745001230 H-loop/switch region; other site 1163745001231 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163745001232 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163745001233 GMP synthase; Reviewed; Region: guaA; PRK00074 1163745001234 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1163745001235 AMP/PPi binding site [chemical binding]; other site 1163745001236 candidate oxyanion hole; other site 1163745001237 catalytic triad [active] 1163745001238 potential glutamine specificity residues [chemical binding]; other site 1163745001239 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 1163745001240 ATP Binding subdomain [chemical binding]; other site 1163745001241 Ligand Binding sites [chemical binding]; other site 1163745001242 Dimerization subdomain; other site 1163745001243 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1163745001244 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 1163745001245 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1163745001246 molybdopterin cofactor binding site [chemical binding]; other site 1163745001247 substrate binding site [chemical binding]; other site 1163745001248 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 1163745001249 molybdopterin cofactor binding site; other site 1163745001250 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 1163745001251 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1163745001252 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 1163745001253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163745001254 catalytic residue [active] 1163745001255 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 1163745001256 nucleotide binding site/active site [active] 1163745001257 HIT family signature motif; other site 1163745001258 catalytic residue [active] 1163745001259 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1163745001260 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1163745001261 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 1163745001262 dimer interface [polypeptide binding]; other site 1163745001263 motif 1; other site 1163745001264 active site 1163745001265 motif 2; other site 1163745001266 motif 3; other site 1163745001267 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1163745001268 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 1163745001269 putative tRNA-binding site [nucleotide binding]; other site 1163745001270 tRNA synthetase B5 domain; Region: B5; smart00874 1163745001271 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 1163745001272 dimer interface [polypeptide binding]; other site 1163745001273 motif 1; other site 1163745001274 motif 3; other site 1163745001275 motif 2; other site 1163745001276 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1163745001277 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1163745001278 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 1163745001279 hinge; other site 1163745001280 active site 1163745001281 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1163745001282 LytB protein; Region: LYTB; pfam02401 1163745001283 ribosomal protein S1; Region: rpsA; TIGR00717 1163745001284 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 1163745001285 RNA binding site [nucleotide binding]; other site 1163745001286 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; cd00164 1163745001287 RNA binding site [nucleotide binding]; other site 1163745001288 S1 RNA binding domain; Region: S1; pfam00575 1163745001289 RNA binding site [nucleotide binding]; other site 1163745001290 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 1163745001291 RNA binding site [nucleotide binding]; other site 1163745001292 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; cd00164 1163745001293 RNA binding site [nucleotide binding]; other site 1163745001294 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 1163745001295 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1163745001296 ligand binding site [chemical binding]; other site 1163745001297 NAD binding site [chemical binding]; other site 1163745001298 dimerization interface [polypeptide binding]; other site 1163745001299 catalytic site [active] 1163745001300 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1163745001301 putative L-serine binding site [chemical binding]; other site 1163745001302 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 1163745001303 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1163745001304 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163745001305 catalytic residue [active] 1163745001306 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163745001307 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163745001308 putative active site [active] 1163745001309 putative metal binding site [ion binding]; other site 1163745001310 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163745001311 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163745001312 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 1163745001313 active site 1163745001314 phosphorylation site [posttranslational modification] 1163745001315 intermolecular recognition site; other site 1163745001316 dimerization interface [polypeptide binding]; other site 1163745001317 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163745001318 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 1163745001319 putative binding surface; other site 1163745001320 active site 1163745001321 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163745001322 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 1163745001323 ATP binding site [chemical binding]; other site 1163745001324 Mg2+ binding site [ion binding]; other site 1163745001325 G-X-G motif; other site 1163745001326 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 1163745001327 Response regulator receiver domain; Region: Response_reg; pfam00072 1163745001328 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 1163745001329 active site 1163745001330 phosphorylation site [posttranslational modification] 1163745001331 intermolecular recognition site; other site 1163745001332 dimerization interface [polypeptide binding]; other site 1163745001333 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 1163745001334 putative CheA interaction surface; other site 1163745001335 urease subunit alpha; Provisional; Region: PRK13986 1163745001336 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 1163745001337 alpha-gamma subunit interface [polypeptide binding]; other site 1163745001338 beta-gamma subunit interface [polypeptide binding]; other site 1163745001339 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 1163745001340 alpha-beta subunit interface [polypeptide binding]; other site 1163745001341 urease subunit beta; Provisional; Region: ureB; PRK13985 1163745001342 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 1163745001343 subunit interactions [polypeptide binding]; other site 1163745001344 active site 1163745001345 flap region; other site 1163745001346 RloB-like protein; Region: RloB; pfam13707 1163745001347 AAA domain; Region: AAA_21; pfam13304 1163745001348 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1163745001349 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1163745001350 putative NAD(P) binding site [chemical binding]; other site 1163745001351 homodimer interface [polypeptide binding]; other site 1163745001352 homotetramer interface [polypeptide binding]; other site 1163745001353 active site 1163745001354 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001355 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1163745001356 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745001357 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 1163745001358 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1163745001359 phosphopentomutase; Provisional; Region: PRK05362 1163745001360 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1163745001361 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1163745001362 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1163745001363 Nucleoside recognition; Region: Gate; pfam07670 1163745001364 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1163745001365 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 1163745001366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163745001367 putative substrate translocation pore; other site 1163745001368 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1163745001369 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 1163745001370 Ligand Binding Site [chemical binding]; other site 1163745001371 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163745001372 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163745001373 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163745001374 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1163745001375 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1163745001376 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 1163745001377 active site 1163745001378 zinc binding site [ion binding]; other site 1163745001379 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1163745001380 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 1163745001381 active site residue [active] 1163745001382 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 1163745001383 active site residue [active] 1163745001384 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 1163745001385 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163745001386 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1163745001387 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 1163745001388 dimer interface [polypeptide binding]; other site 1163745001389 motif 1; other site 1163745001390 active site 1163745001391 motif 2; other site 1163745001392 motif 3; other site 1163745001393 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 1163745001394 anticodon binding site; other site 1163745001395 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163745001396 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 1163745001397 putative active site [active] 1163745001398 Flavin Reductases; Region: FlaRed; cl00801 1163745001399 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745001400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745001401 Probable transposase; Region: OrfB_IS605; pfam01385 1163745001402 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745001403 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745001404 excinuclease ABC subunit B; Provisional; Region: PRK05298 1163745001405 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 1163745001406 ATP binding site [chemical binding]; other site 1163745001407 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; cl17251 1163745001408 putative Mg++ binding site [ion binding]; other site 1163745001409 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 1163745001410 nucleotide binding region [chemical binding]; other site 1163745001411 ATP-binding site [chemical binding]; other site 1163745001412 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1163745001413 UvrB/uvrC motif; Region: UVR; pfam02151 1163745001414 elongation factor G; Reviewed; Region: PRK00007 1163745001415 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1163745001416 G1 box; other site 1163745001417 putative GEF interaction site [polypeptide binding]; other site 1163745001418 GTP/Mg2+ binding site [chemical binding]; other site 1163745001419 Switch I region; other site 1163745001420 G2 box; other site 1163745001421 G3 box; other site 1163745001422 Switch II region; other site 1163745001423 G4 box; other site 1163745001424 G5 box; other site 1163745001425 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 1163745001426 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 1163745001427 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 1163745001428 30S ribosomal protein S7; Validated; Region: PRK05302 1163745001429 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 1163745001430 S17 interaction site [polypeptide binding]; other site 1163745001431 S8 interaction site; other site 1163745001432 16S rRNA interaction site [nucleotide binding]; other site 1163745001433 streptomycin interaction site [chemical binding]; other site 1163745001434 23S rRNA interaction site [nucleotide binding]; other site 1163745001435 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1163745001436 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1163745001437 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 1163745001438 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1163745001439 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 1163745001440 RPB11 interaction site [polypeptide binding]; other site 1163745001441 RPB12 interaction site [polypeptide binding]; other site 1163745001442 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 1163745001443 RPB3 interaction site [polypeptide binding]; other site 1163745001444 RPB1 interaction site [polypeptide binding]; other site 1163745001445 RPB11 interaction site [polypeptide binding]; other site 1163745001446 RPB10 interaction site [polypeptide binding]; other site 1163745001447 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1163745001448 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1163745001449 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1163745001450 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1163745001451 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163745001452 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1163745001453 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163745001454 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1163745001455 DNA binding site [nucleotide binding] 1163745001456 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1163745001457 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 1163745001458 core dimer interface [polypeptide binding]; other site 1163745001459 peripheral dimer interface [polypeptide binding]; other site 1163745001460 L10 interface [polypeptide binding]; other site 1163745001461 L11 interface [polypeptide binding]; other site 1163745001462 putative EF-Tu interaction site [polypeptide binding]; other site 1163745001463 putative EF-G interaction site [polypeptide binding]; other site 1163745001464 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 1163745001465 23S rRNA interface [nucleotide binding]; other site 1163745001466 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1163745001467 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 1163745001468 mRNA/rRNA interface [nucleotide binding]; other site 1163745001469 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1163745001470 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 1163745001471 23S rRNA interface [nucleotide binding]; other site 1163745001472 L7/L12 interface [polypeptide binding]; other site 1163745001473 putative thiostrepton binding site; other site 1163745001474 L25 interface [polypeptide binding]; other site 1163745001475 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1163745001476 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1163745001477 putative homodimer interface [polypeptide binding]; other site 1163745001478 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1163745001479 heterodimer interface [polypeptide binding]; other site 1163745001480 homodimer interface [polypeptide binding]; other site 1163745001481 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1163745001482 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1163745001483 elongation factor Tu; Reviewed; Region: PRK00049 1163745001484 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163745001485 G1 box; other site 1163745001486 GEF interaction site [polypeptide binding]; other site 1163745001487 GTP/Mg2+ binding site [chemical binding]; other site 1163745001488 Switch I region; other site 1163745001489 G2 box; other site 1163745001490 G3 box; other site 1163745001491 Switch II region; other site 1163745001492 G4 box; other site 1163745001493 G5 box; other site 1163745001494 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 1163745001495 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 1163745001496 Antibiotic Binding Site [chemical binding]; other site 1163745001497 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163745001498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745001499 Walker A/P-loop; other site 1163745001500 ATP binding site [chemical binding]; other site 1163745001501 Q-loop/lid; other site 1163745001502 ABC transporter signature motif; other site 1163745001503 Walker B; other site 1163745001504 D-loop; other site 1163745001505 H-loop/switch region; other site 1163745001506 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163745001507 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163745001508 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001509 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 1163745001510 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1163745001511 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1163745001512 oligomer interface [polypeptide binding]; other site 1163745001513 RNA binding site [nucleotide binding]; other site 1163745001514 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1163745001515 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1163745001516 oligomer interface [polypeptide binding]; other site 1163745001517 RNA binding site [nucleotide binding]; other site 1163745001518 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 1163745001519 putative nucleic acid binding region [nucleotide binding]; other site 1163745001520 G-X-X-G motif; other site 1163745001521 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 1163745001522 RNA binding site [nucleotide binding]; other site 1163745001523 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1163745001524 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1163745001525 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1163745001526 RDD family; Region: RDD; cl00746 1163745001527 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 1163745001528 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1163745001529 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163745001530 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1163745001531 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745001532 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745001533 Probable transposase; Region: OrfB_IS605; pfam01385 1163745001534 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745001535 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745001536 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1163745001537 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 1163745001538 active site 1163745001539 DNA binding site [nucleotide binding] 1163745001540 Int/Topo IB signature motif; other site 1163745001541 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cl00238 1163745001542 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001543 Sporulation related domain; Region: SPOR; pfam05036 1163745001544 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 1163745001545 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 1163745001546 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1163745001547 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 1163745001548 dimer interface [polypeptide binding]; other site 1163745001549 active site 1163745001550 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1163745001551 folate binding site [chemical binding]; other site 1163745001552 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1163745001553 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 1163745001554 dimer interface [polypeptide binding]; other site 1163745001555 putative anticodon binding site; other site 1163745001556 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 1163745001557 motif 1; other site 1163745001558 active site 1163745001559 motif 2; other site 1163745001560 motif 3; other site 1163745001561 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1163745001562 Colicin V production protein; Region: Colicin_V; pfam02674 1163745001563 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 1163745001564 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1163745001565 active site 1163745001566 catalytic triad [active] 1163745001567 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163745001568 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163745001569 Walker A/P-loop; other site 1163745001570 ATP binding site [chemical binding]; other site 1163745001571 Q-loop/lid; other site 1163745001572 ABC transporter signature motif; other site 1163745001573 Walker B; other site 1163745001574 D-loop; other site 1163745001575 H-loop/switch region; other site 1163745001576 pseudaminic acid synthase; Region: PseI; TIGR03586 1163745001577 NeuB family; Region: NeuB; pfam03102 1163745001578 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1163745001579 NeuB binding interface [polypeptide binding]; other site 1163745001580 putative substrate binding site [chemical binding]; other site 1163745001581 elongation factor P; Validated; Region: PRK00529 1163745001582 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163745001583 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 1163745001584 RNA binding site [nucleotide binding]; other site 1163745001585 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 1163745001586 RNA binding site [nucleotide binding]; other site 1163745001587 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 1163745001588 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1163745001589 intersubunit interface [polypeptide binding]; other site 1163745001590 active site 1163745001591 zinc binding site [ion binding]; other site 1163745001592 Na+ binding site [ion binding]; other site 1163745001593 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1163745001594 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163745001595 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1163745001596 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1163745001597 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1163745001598 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 1163745001599 dimer interface [polypeptide binding]; other site 1163745001600 putative functional site; other site 1163745001601 putative MPT binding site; other site 1163745001602 peptide chain release factor 2; Region: prfB; TIGR00020 1163745001603 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163745001604 RF-1 domain; Region: RF-1; pfam00472 1163745001605 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1163745001606 Peptidase family U32; Region: Peptidase_U32; pfam01136 1163745001607 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 1163745001608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163745001609 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 1163745001610 active site 1163745001611 phosphorylation site [posttranslational modification] 1163745001612 intermolecular recognition site; other site 1163745001613 dimerization interface [polypeptide binding]; other site 1163745001614 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 1163745001615 DNA binding site [nucleotide binding] 1163745001616 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163745001617 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1163745001618 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 1163745001619 dimer interface [polypeptide binding]; other site 1163745001620 phosphorylation site [posttranslational modification] 1163745001621 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 1163745001622 ATP binding site [chemical binding]; other site 1163745001623 Mg2+ binding site [ion binding]; other site 1163745001624 G-X-G motif; other site 1163745001625 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 1163745001626 dimer interface [polypeptide binding]; other site 1163745001627 active site 1163745001628 Schiff base residues; other site 1163745001629 hypothetical protein; Provisional; Region: PRK12378 1163745001630 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745001631 Sel1-like repeats; Region: SEL1; smart00671 1163745001632 Sel1-like repeats; Region: SEL1; smart00671 1163745001633 Sel1-like repeats; Region: SEL1; smart00671 1163745001634 Sel1-like repeats; Region: SEL1; smart00671 1163745001635 Sel1-like repeats; Region: SEL1; smart00671 1163745001636 Sel1-like repeats; Region: SEL1; smart00671 1163745001637 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163745001638 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1163745001639 Ligand binding site; other site 1163745001640 metal-binding site 1163745001641 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001642 Cache domain; Region: Cache_1; pfam02743 1163745001643 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1163745001644 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 1163745001645 ADP binding site [chemical binding]; other site 1163745001646 magnesium binding site [ion binding]; other site 1163745001647 putative shikimate binding site; other site 1163745001648 AMIN domain; Region: AMIN; pfam11741 1163745001649 rod shape-determining protein MreC; Provisional; Region: PRK13922 1163745001650 enolase; Provisional; Region: eno; PRK00077 1163745001651 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 1163745001652 dimer interface [polypeptide binding]; other site 1163745001653 metal binding site [ion binding]; metal-binding site 1163745001654 substrate binding pocket [chemical binding]; other site 1163745001655 recombinase A; Provisional; Region: recA; PRK09354 1163745001656 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 1163745001657 hexamer interface [polypeptide binding]; other site 1163745001658 Walker A motif; other site 1163745001659 ATP binding site [chemical binding]; other site 1163745001660 Walker B motif; other site 1163745001661 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 1163745001662 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 1163745001663 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1163745001664 Cytochrome c; Region: Cytochrom_C; pfam00034 1163745001665 Cytochrome c; Region: Cytochrom_C; pfam00034 1163745001666 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 1163745001667 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1163745001668 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1163745001669 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 1163745001670 Low-spin heme binding site [chemical binding]; other site 1163745001671 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1163745001672 D-pathway; other site 1163745001673 Putative water exit pathway; other site 1163745001674 Binuclear center (active site) [active] 1163745001675 K-pathway; other site 1163745001676 Putative proton exit pathway; other site 1163745001677 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163745001678 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 1163745001679 transmembrane helices; other site 1163745001680 DNA glycosylase MutY; Provisional; Region: PRK13910 1163745001681 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163745001682 minor groove reading motif; other site 1163745001683 helix-hairpin-helix signature motif; other site 1163745001684 substrate binding pocket [chemical binding]; other site 1163745001685 active site 1163745001686 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1163745001687 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1163745001688 DNA binding and oxoG recognition site [nucleotide binding] 1163745001689 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1163745001690 L-lactate transport; Region: lctP; TIGR00795 1163745001691 L-lactate transport; Region: lctP; TIGR00795 1163745001692 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1163745001693 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163745001694 Cysteine-rich domain; Region: CCG; pfam02754 1163745001695 Cysteine-rich domain; Region: CCG; pfam02754 1163745001696 iron-sulfur cluster-binding protein; Region: TIGR00273 1163745001697 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1163745001698 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1163745001699 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1163745001700 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163745001701 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 1163745001702 catalytic triad [active] 1163745001703 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745001704 Sel1-like repeats; Region: SEL1; smart00671 1163745001705 Maf-like protein; Region: Maf; pfam02545 1163745001706 Maf-like protein; Reviewed; Region: PRK04056 1163745001707 putative active site [active] 1163745001708 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1163745001709 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 1163745001710 motif 1; other site 1163745001711 active site 1163745001712 motif 2; other site 1163745001713 motif 3; other site 1163745001714 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163745001715 DHHA1 domain; Region: DHHA1; pfam02272 1163745001716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1163745001717 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1163745001718 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1163745001719 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1163745001720 catalytic site [active] 1163745001721 subunit interface [polypeptide binding]; other site 1163745001722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 1163745001723 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163745001724 EamA-like transporter family; Region: EamA; pfam00892 1163745001725 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163745001726 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001727 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1163745001728 23S rRNA binding site [nucleotide binding]; other site 1163745001729 L21 binding site [polypeptide binding]; other site 1163745001730 L13 binding site [polypeptide binding]; other site 1163745001731 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1163745001732 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1163745001733 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1163745001734 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1163745001735 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1163745001736 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1163745001737 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 1163745001738 active site 1163745001739 dimer interface [polypeptide binding]; other site 1163745001740 motif 1; other site 1163745001741 motif 2; other site 1163745001742 motif 3; other site 1163745001743 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 1163745001744 anticodon binding site; other site 1163745001745 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1163745001746 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163745001747 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163745001748 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163745001749 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1163745001750 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001751 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163745001752 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1163745001753 metal-binding site 1163745001754 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 1163745001755 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163745001756 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745001757 dimer interface [polypeptide binding]; other site 1163745001758 putative CheW interface [polypeptide binding]; other site 1163745001759 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1163745001760 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1163745001761 nucleotide binding site [chemical binding]; other site 1163745001762 NEF interaction site [polypeptide binding]; other site 1163745001763 SBD interface [polypeptide binding]; other site 1163745001764 GrpE; Region: GrpE; pfam01025 1163745001765 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 1163745001766 dimer interface [polypeptide binding]; other site 1163745001767 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1163745001768 heat-inducible transcription repressor; Provisional; Region: PRK03911 1163745001769 hypothetical protein; Provisional; Region: PRK05834 1163745001770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1163745001771 flagellin B; Provisional; Region: PRK13588 1163745001772 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163745001773 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163745001774 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163745001775 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163745001776 DNA topoisomerase I; Validated; Region: PRK05582 1163745001777 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 1163745001778 active site 1163745001779 interdomain interaction site; other site 1163745001780 putative metal-binding site [ion binding]; other site 1163745001781 nucleotide binding site [chemical binding]; other site 1163745001782 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 1163745001783 domain I; other site 1163745001784 DNA binding groove [nucleotide binding] 1163745001785 phosphate binding site [ion binding]; other site 1163745001786 domain II; other site 1163745001787 domain III; other site 1163745001788 nucleotide binding site [chemical binding]; other site 1163745001789 catalytic site [active] 1163745001790 domain IV; other site 1163745001791 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163745001792 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163745001793 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163745001794 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1163745001795 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 1163745001796 FeS/SAM binding site; other site 1163745001797 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001798 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001799 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 1163745001800 Ligand Binding Site [chemical binding]; other site 1163745001801 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163745001802 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745001803 dimer interface [polypeptide binding]; other site 1163745001804 putative CheW interface [polypeptide binding]; other site 1163745001805 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1163745001806 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 1163745001807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745001808 catalytic residue [active] 1163745001809 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1163745001810 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1163745001811 NAD binding site [chemical binding]; other site 1163745001812 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1163745001813 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1163745001814 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1163745001815 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1163745001816 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1163745001817 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163745001818 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163745001819 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163745001820 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 1163745001821 DNA binding residues [nucleotide binding] 1163745001822 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 1163745001823 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1163745001824 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1163745001825 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1163745001826 NlpC/P60 family; Region: NLPC_P60; cl17555 1163745001827 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1163745001828 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1163745001829 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 1163745001830 23S rRNA interface [nucleotide binding]; other site 1163745001831 L3 interface [polypeptide binding]; other site 1163745001832 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1163745001833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745001834 dimer interface [polypeptide binding]; other site 1163745001835 putative CheW interface [polypeptide binding]; other site 1163745001836 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1163745001837 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163745001838 RF-1 domain; Region: RF-1; pfam00472 1163745001839 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1163745001840 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 1163745001841 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 1163745001842 active site 1163745001843 substrate binding site [chemical binding]; other site 1163745001844 metal binding site [ion binding]; metal-binding site 1163745001845 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1163745001846 urease subunit alpha; Provisional; Region: PRK13986 1163745001847 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 1163745001848 alpha-gamma subunit interface [polypeptide binding]; other site 1163745001849 beta-gamma subunit interface [polypeptide binding]; other site 1163745001850 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 1163745001851 gamma-beta subunit interface [polypeptide binding]; other site 1163745001852 alpha-beta subunit interface [polypeptide binding]; other site 1163745001853 urease subunit beta; Provisional; Region: ureB; PRK13985 1163745001854 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 1163745001855 subunit interactions [polypeptide binding]; other site 1163745001856 active site 1163745001857 flap region; other site 1163745001858 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1163745001859 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1163745001860 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 1163745001861 dimer interface [polypeptide binding]; other site 1163745001862 catalytic residues [active] 1163745001863 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1163745001864 UreF; Region: UreF; pfam01730 1163745001865 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1163745001866 G1 box; other site 1163745001867 GTP/Mg2+ binding site [chemical binding]; other site 1163745001868 G2 box; other site 1163745001869 Switch I region; other site 1163745001870 G3 box; other site 1163745001871 Switch II region; other site 1163745001872 G4 box; other site 1163745001873 G5 box; other site 1163745001874 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1163745001875 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 1163745001876 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1163745001877 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 1163745001878 Proline dehydrogenase; Region: Pro_dh; pfam01619 1163745001879 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1163745001880 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1163745001881 Glutamate binding site [chemical binding]; other site 1163745001882 NAD binding site [chemical binding]; other site 1163745001883 catalytic residues [active] 1163745001884 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1163745001885 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1163745001886 Na binding site [ion binding]; other site 1163745001887 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745001888 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 1163745001889 cofactor binding site; other site 1163745001890 DNA binding site [nucleotide binding] 1163745001891 substrate interaction site [chemical binding]; other site 1163745001892 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1163745001893 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 1163745001894 S-adenosylmethionine binding site [chemical binding]; other site 1163745001895 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1163745001896 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1163745001897 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 1163745001898 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 1163745001899 active site 1163745001900 hydrophilic channel; other site 1163745001901 dimerization interface [polypeptide binding]; other site 1163745001902 catalytic residues [active] 1163745001903 active site lid [active] 1163745001904 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1163745001905 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 1163745001906 Mg++ binding site [ion binding]; other site 1163745001907 putative catalytic motif [active] 1163745001908 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163745001909 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 1163745001910 active site 1163745001911 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745001912 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1163745001913 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1163745001914 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1163745001915 Walker A/P-loop; other site 1163745001916 ATP binding site [chemical binding]; other site 1163745001917 Q-loop/lid; other site 1163745001918 ABC transporter signature motif; other site 1163745001919 Walker B; other site 1163745001920 D-loop; other site 1163745001921 H-loop/switch region; other site 1163745001922 NIL domain; Region: NIL; pfam09383 1163745001923 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 1163745001924 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 1163745001925 Lumazine binding domain; Region: Lum_binding; pfam00677 1163745001926 Lumazine binding domain; Region: Lum_binding; pfam00677 1163745001927 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163745001928 active site 1163745001929 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 1163745001930 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163745001931 catalytic residue [active] 1163745001932 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163745001933 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1163745001934 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1163745001935 Sporulation related domain; Region: SPOR; pfam05036 1163745001936 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1163745001937 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 1163745001938 motif II; other site 1163745001939 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1163745001940 OstA-like protein; Region: OstA; pfam03968 1163745001941 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1163745001942 G1 box; other site 1163745001943 GTP/Mg2+ binding site [chemical binding]; other site 1163745001944 Switch I region; other site 1163745001945 G2 box; other site 1163745001946 G3 box; other site 1163745001947 Switch II region; other site 1163745001948 G4 box; other site 1163745001949 G5 box; other site 1163745001950 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1163745001951 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163745001952 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163745001953 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1163745001954 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1163745001955 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163745001956 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 1163745001957 dimer interface [polypeptide binding]; other site 1163745001958 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1163745001959 catalytic triad [active] 1163745001960 peroxidatic and resolving cysteines [active] 1163745001961 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1163745001962 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 1163745001963 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1163745001964 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1163745001965 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1163745001966 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1163745001967 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163745001968 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 1163745001969 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1163745001970 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163745001971 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163745001972 Protein of unknown function (DUF535); Region: DUF535; cl01128 1163745001973 Predicted ATPases [General function prediction only]; Region: COG1106 1163745001974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745001975 Walker A/P-loop; other site 1163745001976 ATP binding site [chemical binding]; other site 1163745001977 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1163745001978 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1163745001979 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1163745001980 Cytochrome c; Region: Cytochrom_C; pfam00034 1163745001981 Cytochrome c; Region: Cytochrom_C; cl11414 1163745001982 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1163745001983 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 1163745001984 intrachain domain interface; other site 1163745001985 interchain domain interface [polypeptide binding]; other site 1163745001986 heme bH binding site [chemical binding]; other site 1163745001987 Qi binding site; other site 1163745001988 heme bL binding site [chemical binding]; other site 1163745001989 Qo binding site; other site 1163745001990 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 1163745001991 interchain domain interface [polypeptide binding]; other site 1163745001992 intrachain domain interface; other site 1163745001993 Qi binding site; other site 1163745001994 Qo binding site; other site 1163745001995 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1163745001996 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1163745001997 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 1163745001998 iron-sulfur cluster [ion binding]; other site 1163745001999 [2Fe-2S] cluster binding site [ion binding]; other site 1163745002000 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 1163745002001 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 1163745002002 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 1163745002003 ATP binding site [chemical binding]; other site 1163745002004 putative Mg++ binding site [ion binding]; other site 1163745002005 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 1163745002006 nucleotide binding region [chemical binding]; other site 1163745002007 ATP-binding site [chemical binding]; other site 1163745002008 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1163745002009 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1163745002010 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1163745002011 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163745002012 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163745002013 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163745002014 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163745002015 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1163745002016 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163745002017 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163745002018 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1163745002019 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1163745002020 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163745002021 HIGH motif; other site 1163745002022 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163745002023 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163745002024 active site 1163745002025 KMSKS motif; other site 1163745002026 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1163745002027 tRNA binding surface [nucleotide binding]; other site 1163745002028 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1163745002029 Protein export membrane protein; Region: SecD_SecF; pfam02355 1163745002030 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1163745002031 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1163745002032 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1163745002033 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 1163745002034 Part of AAA domain; Region: AAA_19; pfam13245 1163745002035 putative recombination protein RecB; Provisional; Region: PRK13909 1163745002036 Family description; Region: UvrD_C_2; pfam13538 1163745002037 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 1163745002038 rRNA interaction site [nucleotide binding]; other site 1163745002039 S8 interaction site; other site 1163745002040 putative laminin-1 binding site; other site 1163745002041 elongation factor Ts; Provisional; Region: tsf; PRK09377 1163745002042 UBA/TS-N domain; Region: UBA; pfam00627 1163745002043 Elongation factor TS; Region: EF_TS; pfam00889 1163745002044 Elongation factor TS; Region: EF_TS; pfam00889 1163745002045 potential frameshift: common BLAST hit: gi|188528156|ref|YP_001910843.1| type II restriction endonuclease 1163745002046 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1163745002047 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 1163745002048 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745002049 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 1163745002050 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1163745002051 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 1163745002052 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1163745002053 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1163745002054 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1163745002055 alphaNTD homodimer interface [polypeptide binding]; other site 1163745002056 alphaNTD - beta interaction site [polypeptide binding]; other site 1163745002057 alphaNTD - beta' interaction site [polypeptide binding]; other site 1163745002058 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1163745002059 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1163745002060 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1163745002061 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 1163745002062 RNA binding surface [nucleotide binding]; other site 1163745002063 30S ribosomal protein S11; Validated; Region: PRK05309 1163745002064 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1163745002065 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1163745002066 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1163745002067 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 1163745002068 rRNA binding site [nucleotide binding]; other site 1163745002069 predicted 30S ribosome binding site; other site 1163745002070 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 1163745002071 active site 1163745002072 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1163745002073 SecY translocase; Region: SecY; pfam00344 1163745002074 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1163745002075 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 1163745002076 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1163745002077 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1163745002078 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 1163745002079 23S rRNA interface [nucleotide binding]; other site 1163745002080 5S rRNA interface [nucleotide binding]; other site 1163745002081 L27 interface [polypeptide binding]; other site 1163745002082 L5 interface [polypeptide binding]; other site 1163745002083 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1163745002084 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163745002085 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1163745002086 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1163745002087 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1163745002088 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1163745002089 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1163745002090 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1163745002091 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1163745002092 RNA binding site [nucleotide binding]; other site 1163745002093 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1163745002094 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1163745002095 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 1163745002096 putative translocon interaction site; other site 1163745002097 23S rRNA interface [nucleotide binding]; other site 1163745002098 signal recognition particle (SRP54) interaction site; other site 1163745002099 L23 interface [polypeptide binding]; other site 1163745002100 trigger factor interaction site; other site 1163745002101 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 1163745002102 23S rRNA interface [nucleotide binding]; other site 1163745002103 5S rRNA interface [nucleotide binding]; other site 1163745002104 putative antibiotic binding site [chemical binding]; other site 1163745002105 L25 interface [polypeptide binding]; other site 1163745002106 L27 interface [polypeptide binding]; other site 1163745002107 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1163745002108 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 1163745002109 G-X-X-G motif; other site 1163745002110 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1163745002111 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 1163745002112 putative translocon binding site; other site 1163745002113 protein-rRNA interface [nucleotide binding]; other site 1163745002114 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1163745002115 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1163745002116 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1163745002117 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1163745002118 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1163745002119 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1163745002120 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1163745002121 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1163745002122 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1163745002123 AAA domain; Region: AAA_14; pfam13173 1163745002124 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1163745002125 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163745002126 active site 1163745002127 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1163745002128 Class II fumarases; Region: Fumarase_classII; cd01362 1163745002129 active site 1163745002130 tetramer interface [polypeptide binding]; other site 1163745002131 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 1163745002132 iron-sulfur cluster [ion binding]; other site 1163745002133 [2Fe-2S] cluster binding site [ion binding]; other site 1163745002134 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1163745002135 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1163745002136 YtkA-like; Region: YtkA; pfam13115 1163745002137 Outer membrane efflux protein; Region: OEP; pfam02321 1163745002138 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1163745002139 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163745002140 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163745002141 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1163745002142 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163745002143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 1163745002144 RelB antitoxin; Region: RelB; cl01171 1163745002145 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002146 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163745002147 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002148 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1163745002149 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163745002150 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 1163745002151 ATP binding site [chemical binding]; other site 1163745002152 putative Mg++ binding site [ion binding]; other site 1163745002153 Protein of unknown function DUF45; Region: DUF45; pfam01863 1163745002154 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163745002155 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 1163745002156 active site 1163745002157 phosphorylation site [posttranslational modification] 1163745002158 intermolecular recognition site; other site 1163745002159 dimerization interface [polypeptide binding]; other site 1163745002160 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 1163745002161 DNA binding site [nucleotide binding] 1163745002162 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163745002163 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1163745002164 dimer interface [polypeptide binding]; other site 1163745002165 phosphorylation site [posttranslational modification] 1163745002166 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 1163745002167 ATP binding site [chemical binding]; other site 1163745002168 Mg2+ binding site [ion binding]; other site 1163745002169 G-X-G motif; other site 1163745002170 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 1163745002171 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 1163745002172 putative substrate binding site [chemical binding]; other site 1163745002173 putative ATP binding site [chemical binding]; other site 1163745002174 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002175 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163745002176 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002177 replicative DNA helicase; Provisional; Region: PRK08506 1163745002178 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1163745002179 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 1163745002180 Walker A motif; other site 1163745002181 ATP binding site [chemical binding]; other site 1163745002182 Walker B motif; other site 1163745002183 DNA binding loops [nucleotide binding] 1163745002184 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1163745002185 Competence protein; Region: Competence; pfam03772 1163745002186 Protein of unknown function (DUF502); Region: DUF502; cl01107 1163745002187 Protein of unknown function (DUF502); Region: DUF502; cl01107 1163745002188 prenyltransferase; Reviewed; Region: ubiA; PRK12874 1163745002189 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163745002190 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 1163745002191 quinolinate synthetase; Provisional; Region: PRK09375 1163745002192 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 1163745002193 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 1163745002194 dimerization interface [polypeptide binding]; other site 1163745002195 active site 1163745002196 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163745002197 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745002198 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163745002199 C-terminal peptidase (prc); Region: prc; TIGR00225 1163745002200 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 1163745002201 protein binding site [polypeptide binding]; other site 1163745002202 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163745002203 Catalytic dyad [active] 1163745002204 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163745002205 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163745002206 putative acyl-acceptor binding pocket; other site 1163745002207 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1163745002208 ligand binding site [chemical binding]; other site 1163745002209 active site 1163745002210 UGI interface [polypeptide binding]; other site 1163745002211 catalytic site [active] 1163745002212 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1163745002213 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1163745002214 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163745002215 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1163745002216 Phosphoglycerate kinase; Region: PGK; pfam00162 1163745002217 substrate binding site [chemical binding]; other site 1163745002218 hinge regions; other site 1163745002219 ADP binding site [chemical binding]; other site 1163745002220 catalytic site [active] 1163745002221 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1163745002222 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 1163745002223 Cl binding site [ion binding]; other site 1163745002224 oligomer interface [polypeptide binding]; other site 1163745002225 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1163745002226 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002227 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002228 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1163745002229 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1163745002230 thymidylate kinase; Validated; Region: tmk; PRK00698 1163745002231 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 1163745002232 TMP-binding site; other site 1163745002233 ATP-binding site [chemical binding]; other site 1163745002234 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1163745002235 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1163745002236 active site 1163745002237 (T/H)XGH motif; other site 1163745002238 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1163745002239 Flavoprotein; Region: Flavoprotein; pfam02441 1163745002240 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 1163745002241 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 1163745002242 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163745002243 Part of AAA domain; Region: AAA_19; pfam13245 1163745002244 Family description; Region: UvrD_C_2; pfam13538 1163745002245 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 1163745002246 TPR motif; other site 1163745002247 binding surface 1163745002248 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 1163745002249 TPR motif; other site 1163745002250 binding surface 1163745002251 seryl-tRNA synthetase; Provisional; Region: PRK05431 1163745002252 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1163745002253 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 1163745002254 dimer interface [polypeptide binding]; other site 1163745002255 active site 1163745002256 motif 1; other site 1163745002257 motif 2; other site 1163745002258 motif 3; other site 1163745002259 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1163745002260 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1163745002261 active site 1163745002262 catalytic triad [active] 1163745002263 dimer interface [polypeptide binding]; other site 1163745002264 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1163745002265 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1163745002266 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 1163745002267 S-adenosylmethionine binding site [chemical binding]; other site 1163745002268 Predicted membrane protein [Function unknown]; Region: COG1981 1163745002269 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1163745002270 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1163745002271 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163745002272 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163745002273 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163745002274 ABC-2 type transporter; Region: ABC2_membrane; cl17235 1163745002275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163745002276 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163745002277 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163745002278 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1163745002279 Domain of unknown function DUF21; Region: DUF21; pfam01595 1163745002280 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 1163745002281 Transporter associated domain; Region: CorC_HlyC; smart01091 1163745002282 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1163745002283 Phosphate transporter family; Region: PHO4; pfam01384 1163745002284 Phosphate transporter family; Region: PHO4; cl00396 1163745002285 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1163745002286 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1163745002287 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163745002288 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163745002289 Class I aldolases; Region: Aldolase_Class_I; cl17187 1163745002290 transaldolase; Provisional; Region: PRK03903 1163745002291 catalytic residue [active] 1163745002292 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1163745002293 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1163745002294 5S rRNA interface [nucleotide binding]; other site 1163745002295 CTC domain interface [polypeptide binding]; other site 1163745002296 L16 interface [polypeptide binding]; other site 1163745002297 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 1163745002298 putative active site [active] 1163745002299 catalytic residue [active] 1163745002300 Predicted permeases [General function prediction only]; Region: COG0795 1163745002301 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163745002302 Protein of unknown function (DUF535); Region: DUF535; cl01128 1163745002303 Protein of unknown function (DUF1561); Region: DUF1561; pfam07598 1163745002304 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 1163745002305 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1163745002306 cofactor binding site; other site 1163745002307 DNA binding site [nucleotide binding] 1163745002308 substrate interaction site [chemical binding]; other site 1163745002309 potential frameshift: common BLAST hit: gi|108563837|ref|YP_628153.1| restriction endonuclease 1163745002310 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1163745002312 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1163745002313 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163745002314 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 1163745002315 metal-binding site [ion binding] 1163745002316 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163745002317 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163745002318 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1163745002319 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 1163745002320 S-adenosylmethionine binding site [chemical binding]; other site 1163745002321 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 1163745002322 catalytic motif [active] 1163745002323 Zn binding site [ion binding]; other site 1163745002324 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1163745002325 RibD C-terminal domain; Region: RibD_C; cl17279 1163745002326 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1163745002327 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1163745002328 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1163745002329 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163745002330 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1163745002331 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 1163745002332 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 1163745002333 active site 1163745002334 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163745002335 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163745002336 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163745002337 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 1163745002338 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1163745002339 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 1163745002340 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 1163745002341 NusA N-terminal domain; Region: NusA_N; pfam08529 1163745002342 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 1163745002343 RNA binding site [nucleotide binding]; other site 1163745002344 homodimer interface [polypeptide binding]; other site 1163745002345 NusA-like KH domain; Region: KH_5; pfam13184 1163745002346 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 1163745002347 G-X-X-G motif; other site 1163745002348 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163745002349 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745002350 potential frameshift: common BLAST hit: gi|15645979|ref|NP_208159.1| type IIS restriction enzyme M1 protein (mod) 1163745002351 potential frameshift: common BLAST hit: gi|15645978|ref|NP_208158.1| type IIS restriction enzyme R protein (MBOIIR) 1163745002352 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1163745002353 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 1163745002354 ATP binding site [chemical binding]; other site 1163745002355 putative Mg++ binding site [ion binding]; other site 1163745002356 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163745002357 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745002358 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745002359 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 1163745002360 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 1163745002361 generic binding surface II; other site 1163745002362 ssDNA binding site; other site 1163745002363 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 1163745002364 ATP binding site [chemical binding]; other site 1163745002365 putative Mg++ binding site [ion binding]; other site 1163745002366 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 1163745002367 nucleotide binding region [chemical binding]; other site 1163745002368 ATP-binding site [chemical binding]; other site 1163745002369 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002370 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1163745002371 active site 1163745002372 putative catalytic site [active] 1163745002373 DNA binding site [nucleotide binding] 1163745002374 putative phosphate binding site [ion binding]; other site 1163745002375 metal binding site A [ion binding]; metal-binding site 1163745002376 AP binding site [nucleotide binding]; other site 1163745002377 metal binding site B [ion binding]; metal-binding site 1163745002378 potential frameshift: common BLAST hit: gi|188528296|ref|YP_001910983.1| periplasmic competence protein 1163745002379 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1163745002380 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 1163745002381 Walker A motif; other site 1163745002382 ATP binding site [chemical binding]; other site 1163745002383 Walker B motif; other site 1163745002384 arginine finger; other site 1163745002385 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 1163745002386 DnaA box-binding interface [nucleotide binding]; other site 1163745002387 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1163745002388 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 1163745002389 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1163745002390 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 1163745002391 glutaminase active site [active] 1163745002392 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 1163745002393 dimer interface [polypeptide binding]; other site 1163745002394 active site 1163745002395 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 1163745002396 dimer interface [polypeptide binding]; other site 1163745002397 active site 1163745002398 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163745002399 Part of AAA domain; Region: AAA_19; pfam13245 1163745002400 Family description; Region: UvrD_C_2; pfam13538 1163745002401 Family description; Region: UvrD_C_2; pfam13538 1163745002402 Thymidylate synthase complementing protein; Region: Thy1; cl03630 1163745002403 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 1163745002404 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163745002405 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745002406 DNA polymerase I; Region: pola; TIGR00593 1163745002407 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1163745002408 active site 1163745002409 metal binding site 1 [ion binding]; metal-binding site 1163745002410 putative 5' ssDNA interaction site; other site 1163745002411 metal binding site 3; metal-binding site 1163745002412 metal binding site 2 [ion binding]; metal-binding site 1163745002413 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163745002414 putative DNA binding site [nucleotide binding]; other site 1163745002415 putative metal binding site [ion binding]; other site 1163745002416 3'-5' exonuclease; Region: 35EXOc; smart00474 1163745002417 active site 1163745002418 substrate binding site [chemical binding]; other site 1163745002419 catalytic site [active] 1163745002420 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1163745002421 active site 1163745002422 DNA binding site [nucleotide binding] 1163745002423 catalytic site [active] 1163745002424 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002425 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1163745002426 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 1163745002427 homodimer interface [polypeptide binding]; other site 1163745002428 substrate-cofactor binding pocket; other site 1163745002429 catalytic residue [active] 1163745002430 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745002431 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 1163745002432 active site 1163745002433 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 1163745002434 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1163745002435 substrate binding site [chemical binding]; other site 1163745002436 hexamer interface [polypeptide binding]; other site 1163745002437 metal binding site [ion binding]; metal-binding site 1163745002438 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 1163745002439 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1163745002440 active site 1163745002441 catalytic site [active] 1163745002442 substrate binding site [chemical binding]; other site 1163745002443 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1163745002444 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1163745002445 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1163745002446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745002447 Walker A/P-loop; other site 1163745002448 ATP binding site [chemical binding]; other site 1163745002449 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163745002450 ABC transporter signature motif; other site 1163745002451 Walker B; other site 1163745002452 D-loop; other site 1163745002453 H-loop/switch region; other site 1163745002454 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1163745002455 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1163745002456 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002457 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002458 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163745002459 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163745002460 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163745002461 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163745002462 Cache domain; Region: Cache_1; pfam02743 1163745002463 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1163745002464 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163745002465 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745002466 dimer interface [polypeptide binding]; other site 1163745002467 putative CheW interface [polypeptide binding]; other site 1163745002468 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163745002469 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163745002470 putative NAD(P) binding site [chemical binding]; other site 1163745002471 putative substrate binding site [chemical binding]; other site 1163745002472 catalytic Zn binding site [ion binding]; other site 1163745002473 structural Zn binding site [ion binding]; other site 1163745002474 dimer interface [polypeptide binding]; other site 1163745002475 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1163745002476 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1163745002477 hexamer interface [polypeptide binding]; other site 1163745002478 ligand binding site [chemical binding]; other site 1163745002479 putative active site [active] 1163745002480 NAD(P) binding site [chemical binding]; other site 1163745002481 S-methylmethionine transporter; Provisional; Region: PRK11387 1163745002482 Arginase family; Region: Arginase; cd09989 1163745002483 active site 1163745002484 Mn binding site [ion binding]; other site 1163745002485 oligomer interface [polypeptide binding]; other site 1163745002486 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002487 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 1163745002488 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1163745002489 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1163745002490 putative NAD(P) binding site [chemical binding]; other site 1163745002491 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1163745002492 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163745002493 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 1163745002494 ATP binding site [chemical binding]; other site 1163745002495 putative Mg++ binding site [ion binding]; other site 1163745002496 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1163745002497 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002498 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002499 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1163745002500 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745002501 prephenate dehydrogenase; Validated; Region: PRK08507 1163745002502 Prephenate dehydrogenase; Region: PDH; pfam02153 1163745002503 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1163745002504 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 1163745002505 Walker A motif; other site 1163745002506 ATP binding site [chemical binding]; other site 1163745002507 Walker B motif; other site 1163745002508 arginine finger; other site 1163745002509 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163745002510 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1163745002511 flagellar assembly protein FliW; Provisional; Region: PRK13282 1163745002512 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 1163745002513 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1163745002514 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 1163745002515 active site 1163745002516 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1163745002517 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1163745002518 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163745002519 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 1163745002520 Walker A motif; other site 1163745002521 ATP binding site [chemical binding]; other site 1163745002522 Walker B motif; other site 1163745002523 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163745002524 rod shape-determining protein MreB; Provisional; Region: PRK13927 1163745002525 MreB and similar proteins; Region: MreB_like; cd10225 1163745002526 nucleotide binding site [chemical binding]; other site 1163745002527 Mg binding site [ion binding]; other site 1163745002528 putative protofilament interaction site [polypeptide binding]; other site 1163745002529 RodZ interaction site [polypeptide binding]; other site 1163745002530 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1163745002531 rod shape-determining protein MreC; Region: MreC; pfam04085 1163745002532 potential frameshift: common BLAST hit: gi|254780026|ref|YP_003058133.1| type IIS restriction-modification protein 1163745002533 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1163745002534 AzlC protein; Region: AzlC; cl00570 1163745002535 chaperone protein DnaJ; Provisional; Region: PRK14288 1163745002536 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 1163745002537 HSP70 interaction site [polypeptide binding]; other site 1163745002538 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1163745002539 substrate binding site [polypeptide binding]; other site 1163745002540 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1163745002541 Zn binding sites [ion binding]; other site 1163745002542 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163745002543 substrate binding site [polypeptide binding]; other site 1163745002544 dimer interface [polypeptide binding]; other site 1163745002545 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1163745002546 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 1163745002547 Ligand Binding Site [chemical binding]; other site 1163745002548 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 1163745002549 HSP70 interaction site [polypeptide binding]; other site 1163745002550 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1163745002551 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1163745002552 active site 1163745002553 (T/H)XGH motif; other site 1163745002554 nickel responsive regulator; Provisional; Region: PRK00630 1163745002555 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1163745002556 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1163745002557 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1163745002558 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163745002559 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1163745002560 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163745002561 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1163745002562 biotin synthase; Provisional; Region: PRK08508 1163745002563 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 1163745002564 FeS/SAM binding site; other site 1163745002565 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1163745002566 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1163745002567 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002568 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163745002569 conserved hypothetical integral membrane protein; Region: TIGR00056 1163745002570 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1163745002571 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1163745002572 Walker A/P-loop; other site 1163745002573 ATP binding site [chemical binding]; other site 1163745002574 Q-loop/lid; other site 1163745002575 ABC transporter signature motif; other site 1163745002576 Walker B; other site 1163745002577 D-loop; other site 1163745002578 H-loop/switch region; other site 1163745002579 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163745002580 mce related protein; Region: MCE; pfam02470 1163745002581 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1163745002582 Protein of unknown function (DUF535); Region: DUF535; cl01128 1163745002583 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1163745002584 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1163745002585 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1163745002586 active site 1163745002587 PHP Thumb interface [polypeptide binding]; other site 1163745002588 metal binding site [ion binding]; metal-binding site 1163745002589 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 1163745002590 generic binding surface I; other site 1163745002591 generic binding surface II; other site 1163745002592 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163745002593 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 1163745002594 RNA binding surface [nucleotide binding]; other site 1163745002595 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163745002596 active site 1163745002597 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163745002598 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163745002599 RNA polymerase II transcription mediator complex subunit 9; Region: Med9; pfam07544 1163745002600 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1163745002601 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1163745002602 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 1163745002603 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1163745002604 FHIPEP family; Region: FHIPEP; pfam00771 1163745002605 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1163745002606 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163745002607 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 1163745002608 active site 1163745002609 intermolecular recognition site; other site 1163745002610 dimerization interface [polypeptide binding]; other site 1163745002611 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 1163745002612 DNA binding site [nucleotide binding] 1163745002613 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1163745002614 putative active site [active] 1163745002615 putative metal binding site [ion binding]; other site 1163745002616 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163745002617 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1163745002618 Tsp45I type II restriction enzyme; Region: Tsp45I; pfam06300 1163745002619 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 1163745002620 DNA binding site [nucleotide binding] 1163745002621 active site 1163745002622 Int/Topo IB signature motif; other site 1163745002623 catalytic residues [active] 1163745002624 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745002625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745002626 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745002627 Probable transposase; Region: OrfB_IS605; pfam01385 1163745002628 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745002629 Fic/DOC family; Region: Fic; cl00960 1163745002630 Response regulator receiver domain; Region: Response_reg; pfam00072 1163745002631 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 1163745002632 active site 1163745002633 phosphorylation site [posttranslational modification] 1163745002634 intermolecular recognition site; other site 1163745002635 dimerization interface [polypeptide binding]; other site 1163745002636 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 1163745002637 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163745002638 Walker A motif; other site 1163745002639 ATP binding site [chemical binding]; other site 1163745002640 Walker B motif; other site 1163745002641 arginine finger; other site 1163745002642 DNA gyrase subunit A; Validated; Region: PRK05560 1163745002643 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 1163745002644 CAP-like domain; other site 1163745002645 active site 1163745002646 primary dimer interface [polypeptide binding]; other site 1163745002647 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002648 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163745002653 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1163745002654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 1163745002655 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745002656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745002657 Probable transposase; Region: OrfB_IS605; pfam01385 1163745002658 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745002659 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745002660 NgoBV restriction endonuclease; Region: RE_NgoBV; pfam09564 1163745002661 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 1163745002662 cofactor binding site; other site 1163745002663 DNA binding site [nucleotide binding] 1163745002664 substrate interaction site [chemical binding]; other site 1163745002665 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 1163745002666 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1163745002667 active site 1163745002668 catalytic site [active] 1163745002669 substrate binding site [chemical binding]; other site 1163745002670 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1163745002671 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1163745002672 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1163745002673 G1 box; other site 1163745002674 GTP/Mg2+ binding site [chemical binding]; other site 1163745002675 Switch I region; other site 1163745002676 G2 box; other site 1163745002677 G3 box; other site 1163745002678 Switch II region; other site 1163745002679 G4 box; other site 1163745002680 G5 box; other site 1163745002681 Nucleoside recognition; Region: Gate; pfam07670 1163745002682 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1163745002683 Nucleoside recognition; Region: Gate; pfam07670 1163745002684 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745002685 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745002686 Probable transposase; Region: OrfB_IS605; pfam01385 1163745002687 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745002688 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745002689 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 1163745002690 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1163745002691 active site 1163745002692 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1163745002693 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 1163745002694 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1163745002695 Substrate binding site; other site 1163745002696 Mg++ binding site; other site 1163745002697 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 1163745002698 active site 1163745002699 substrate binding site [chemical binding]; other site 1163745002700 CoA binding site [chemical binding]; other site 1163745002701 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 1163745002702 ATP cone domain; Region: ATP-cone; pfam03477 1163745002703 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1163745002704 active site 1163745002705 dimer interface [polypeptide binding]; other site 1163745002706 catalytic residues [active] 1163745002707 effector binding site; other site 1163745002708 R2 peptide binding site; other site 1163745002709 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1163745002710 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163745002711 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1163745002712 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163745002713 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1163745002714 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1163745002715 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 1163745002716 DNA binding site [nucleotide binding] 1163745002717 active site 1163745002718 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163745002719 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 1163745002720 S-adenosylmethionine binding site [chemical binding]; other site 1163745002721 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745002722 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1163745002723 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 1163745002724 active site 1163745002725 DNA binding site [nucleotide binding] 1163745002726 Int/Topo IB signature motif; other site 1163745002727 aspartate aminotransferase; Provisional; Region: PRK05764 1163745002728 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 1163745002729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745002730 homodimer interface [polypeptide binding]; other site 1163745002731 catalytic residue [active] 1163745002732 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002733 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 1163745002734 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163745002735 Cysteine-rich domain; Region: CCG; pfam02754 1163745002736 Cysteine-rich domain; Region: CCG; pfam02754 1163745002737 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 1163745002738 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 1163745002739 FeS/SAM binding site; other site 1163745002740 HemN C-terminal domain; Region: HemN_C; pfam06969 1163745002741 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 1163745002742 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1163745002743 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1163745002744 Tetramer interface [polypeptide binding]; other site 1163745002745 active site 1163745002746 FMN-binding site [chemical binding]; other site 1163745002747 ribonuclease III; Reviewed; Region: rnc; PRK00102 1163745002748 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 1163745002749 dimerization interface [polypeptide binding]; other site 1163745002750 active site 1163745002751 metal binding site [ion binding]; metal-binding site 1163745002752 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 1163745002753 dsRNA binding site [nucleotide binding]; other site 1163745002754 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1163745002755 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163745002756 active site 1163745002757 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 1163745002758 binding surface 1163745002759 TPR motif; other site 1163745002760 SurA N-terminal domain; Region: SurA_N; pfam09312 1163745002761 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1163745002762 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1163745002763 GatB domain; Region: GatB_Yqey; smart00845 1163745002764 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163745002765 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163745002766 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163745002767 hypothetical protein; Provisional; Region: PRK08445 1163745002768 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 1163745002769 FeS/SAM binding site; other site 1163745002770 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1163745002771 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163745002772 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163745002773 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163745002774 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163745002775 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163745002776 hypothetical protein; Provisional; Region: PRK08444 1163745002777 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 1163745002778 FeS/SAM binding site; other site 1163745002779 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 1163745002780 dimer interface [polypeptide binding]; other site 1163745002781 substrate binding site [chemical binding]; other site 1163745002782 metal binding sites [ion binding]; metal-binding site 1163745002783 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 1163745002784 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 1163745002785 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 1163745002786 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 1163745002787 adenylate kinase; Reviewed; Region: adk; PRK00279 1163745002788 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 1163745002789 AMP-binding site [chemical binding]; other site 1163745002790 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1163745002791 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1163745002792 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 1163745002793 dimer interface [polypeptide binding]; other site 1163745002794 anticodon binding site; other site 1163745002795 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 1163745002796 homodimer interface [polypeptide binding]; other site 1163745002797 motif 1; other site 1163745002798 active site 1163745002799 motif 2; other site 1163745002800 GAD domain; Region: GAD; pfam02938 1163745002801 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 1163745002802 active site 1163745002803 motif 3; other site 1163745002804 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 1163745002805 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163745002806 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 1163745002807 active site 1163745002808 phosphorylation site [posttranslational modification] 1163745002809 intermolecular recognition site; other site 1163745002810 dimerization interface [polypeptide binding]; other site 1163745002811 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1163745002812 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 1163745002813 nucleotide binding pocket [chemical binding]; other site 1163745002814 K-X-D-G motif; other site 1163745002815 catalytic site [active] 1163745002816 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1163745002817 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1163745002818 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 1163745002819 Dimer interface [polypeptide binding]; other site 1163745002820 BRCT sequence motif; other site 1163745002821 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1163745002822 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 1163745002823 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1163745002824 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 1163745002825 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 1163745002826 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1163745002827 molybdopterin cofactor binding site; other site 1163745002828 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 1163745002829 molybdopterin cofactor binding site; other site 1163745002830 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1163745002831 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 1163745002832 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1163745002833 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1163745002834 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1163745002835 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163745002836 Predicted methyltransferases [General function prediction only]; Region: COG0313 1163745002837 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1163745002838 putative SAM binding site [chemical binding]; other site 1163745002839 putative homodimer interface [polypeptide binding]; other site 1163745002840 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 1163745002841 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1163745002842 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1163745002843 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 1163745002844 RNA binding site [nucleotide binding]; other site 1163745002845 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 1163745002846 multimer interface [polypeptide binding]; other site 1163745002847 Walker A motif; other site 1163745002848 ATP binding site [chemical binding]; other site 1163745002849 Walker B motif; other site 1163745002850 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1163745002851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1163745002852 GTPase Era; Reviewed; Region: era; PRK00089 1163745002853 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1163745002854 G1 box; other site 1163745002855 GTP/Mg2+ binding site [chemical binding]; other site 1163745002856 Switch I region; other site 1163745002857 G2 box; other site 1163745002858 Switch II region; other site 1163745002859 G3 box; other site 1163745002860 G4 box; other site 1163745002861 G5 box; other site 1163745002862 KH domain; Region: KH_2; pfam07650 1163745002863 G-X-X-G motif; other site 1163745002864 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1163745002865 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 1163745002866 Walker A motif; other site 1163745002867 ATP binding site [chemical binding]; other site 1163745002868 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 1163745002869 Walker B motif; other site 1163745002870 arginine finger; other site 1163745002871 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163745002872 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 1163745002873 active site 1163745002874 HslU subunit interaction site [polypeptide binding]; other site 1163745002875 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1163745002876 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1163745002877 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1163745002878 Cache domain; Region: Cache_2; cl07034 1163745002879 HAMP domain; Region: HAMP; pfam00672 1163745002880 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163745002881 dimer interface [polypeptide binding]; other site 1163745002882 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1163745002883 putative CheW interface [polypeptide binding]; other site 1163745002884 glutamine synthetase, type I; Region: GlnA; TIGR00653 1163745002885 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1163745002886 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1163745002887 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002888 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745002889 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745002890 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745002891 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745002892 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163745002893 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745002894 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745002895 dihydrodipicolinate reductase; Region: dapB; TIGR00036 1163745002896 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1163745002897 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1163745002898 HNH endonuclease; Region: HNH_2; pfam13391 1163745002899 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 1163745002900 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1163745002901 DNA binding site [nucleotide binding] 1163745002902 substrate interaction site [chemical binding]; other site 1163745002903 FAD binding domain; Region: FAD_binding_4; pfam01565 1163745002904 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1163745002905 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1163745002906 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 1163745002907 dimer interface [polypeptide binding]; other site 1163745002908 ADP-ribose binding site [chemical binding]; other site 1163745002909 active site 1163745002910 nudix motif; other site 1163745002911 metal binding site [ion binding]; metal-binding site 1163745002912 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163745002913 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163745002914 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 1163745002915 dimerization interface [polypeptide binding]; other site 1163745002916 putative ATP binding site [chemical binding]; other site 1163745002917 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1163745002918 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745002919 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1163745002920 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1163745002921 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1163745002922 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1163745002923 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 1163745002924 nucleotide binding region [chemical binding]; other site 1163745002925 ATP-binding site [chemical binding]; other site 1163745002926 SEC-C motif; Region: SEC-C; pfam02810 1163745002927 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1163745002928 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1163745002929 FtsX-like permease family; Region: FtsX; pfam02687 1163745002930 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745002931 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002932 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002933 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745002934 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163745002935 Heavy-metal-associated domain; Region: HMA; pfam00403 1163745002936 metal-binding site [ion binding] 1163745002937 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163745002938 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163745002939 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1163745002940 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163745002941 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163745002942 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1163745002943 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 1163745002944 active site 1163745002945 catalytic residues [active] 1163745002946 metal binding site [ion binding]; metal-binding site 1163745002947 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1163745002948 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1163745002949 oligomer interface [polypeptide binding]; other site 1163745002950 active site residues [active] 1163745002951 trigger factor; Provisional; Region: tig; PRK01490 1163745002952 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163745002953 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1163745002954 NapD protein; Region: NapD; cl01163 1163745002955 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1163745002956 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163745002957 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1163745002958 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 1163745002959 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1163745002960 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 1163745002961 molybdopterin cofactor binding site; other site 1163745002962 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 1163745002963 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 1163745002964 molybdopterin cofactor binding site; other site 1163745002965 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163745002966 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 1163745002967 trimer interface [polypeptide binding]; other site 1163745002968 dimer interface [polypeptide binding]; other site 1163745002969 putative active site [active] 1163745002970 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 1163745002971 MPT binding site; other site 1163745002972 trimer interface [polypeptide binding]; other site 1163745002973 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 1163745002974 MoaE homodimer interface [polypeptide binding]; other site 1163745002975 MoaD interaction [polypeptide binding]; other site 1163745002976 active site residues [active] 1163745002977 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1163745002978 MoaE interaction surface [polypeptide binding]; other site 1163745002979 MoeB interaction surface [polypeptide binding]; other site 1163745002980 thiocarboxylated glycine; other site 1163745002981 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1163745002982 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 1163745002983 dimer interface [polypeptide binding]; other site 1163745002984 putative functional site; other site 1163745002985 putative MPT binding site; other site 1163745002986 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 1163745002987 dimerization interface [polypeptide binding]; other site 1163745002988 active site 1163745002989 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1163745002990 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1163745002991 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1163745002992 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 1163745002993 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1163745002994 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1163745002995 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1163745002996 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 1163745002997 dimer interface [polypeptide binding]; other site 1163745002998 conserved gate region; other site 1163745002999 putative PBP binding loops; other site 1163745003000 ABC-ATPase subunit interface; other site 1163745003001 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745003002 Walker A/P-loop; other site 1163745003003 ATP binding site [chemical binding]; other site 1163745003004 ABC transporter; Region: ABC_tran; pfam00005 1163745003005 Q-loop/lid; other site 1163745003006 ABC transporter signature motif; other site 1163745003007 Walker B; other site 1163745003008 D-loop; other site 1163745003009 H-loop/switch region; other site 1163745003010 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 1163745003011 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1163745003012 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745003013 Sel1-like repeats; Region: SEL1; smart00671 1163745003014 Sel1-like repeats; Region: SEL1; smart00671 1163745003015 Sel1 repeat; Region: Sel1; cl02723 1163745003016 Sel1-like repeats; Region: SEL1; smart00671 1163745003017 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 1163745003018 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 1163745003019 putative trimer interface [polypeptide binding]; other site 1163745003020 putative CoA binding site [chemical binding]; other site 1163745003021 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1163745003022 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163745003023 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163745003024 hypothetical protein; Provisional; Region: PRK05839 1163745003025 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 1163745003026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745003027 homodimer interface [polypeptide binding]; other site 1163745003028 catalytic residue [active] 1163745003029 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 1163745003030 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163745003031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163745003032 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1163745003033 MutS domain III; Region: MutS_III; pfam05192 1163745003034 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 1163745003035 Walker A/P-loop; other site 1163745003036 ATP binding site [chemical binding]; other site 1163745003037 Q-loop/lid; other site 1163745003038 ABC transporter signature motif; other site 1163745003039 Walker B; other site 1163745003040 D-loop; other site 1163745003041 H-loop/switch region; other site 1163745003042 Smr domain; Region: Smr; pfam01713 1163745003043 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 1163745003044 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1163745003045 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163745003046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163745003047 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 1163745003048 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163745003049 catalytic residues [active] 1163745003050 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 1163745003051 homoserine dehydrogenase; Provisional; Region: PRK06349 1163745003052 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1163745003053 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 1163745003054 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 1163745003055 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1163745003056 GIY-YIG motif/motif A; other site 1163745003057 active site 1163745003058 catalytic site [active] 1163745003059 putative DNA binding site [nucleotide binding]; other site 1163745003060 metal binding site [ion binding]; metal-binding site 1163745003061 UvrB/uvrC motif; Region: UVR; pfam02151 1163745003062 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1163745003063 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163745003064 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745003065 Walker A/P-loop; other site 1163745003066 ATP binding site [chemical binding]; other site 1163745003067 Q-loop/lid; other site 1163745003068 ABC transporter signature motif; other site 1163745003069 Walker B; other site 1163745003070 D-loop; other site 1163745003071 H-loop/switch region; other site 1163745003072 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 1163745003073 dimer interface [polypeptide binding]; other site 1163745003074 conserved gate region; other site 1163745003075 ABC-ATPase subunit interface; other site 1163745003076 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1163745003077 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003078 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003079 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 1163745003080 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163745003081 ligand binding site [chemical binding]; other site 1163745003082 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163745003083 flagellar motor protein MotA; Validated; Region: PRK08456 1163745003084 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1163745003085 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 1163745003086 ATP binding site [chemical binding]; other site 1163745003087 substrate interface [chemical binding]; other site 1163745003088 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1163745003089 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1163745003090 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003091 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003092 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003093 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003094 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003095 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163745003096 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 1163745003097 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 1163745003098 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1163745003099 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1163745003100 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163745003101 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163745003102 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1163745003103 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163745003104 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163745003105 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 1163745003106 IMP binding site; other site 1163745003107 dimer interface [polypeptide binding]; other site 1163745003108 interdomain contacts; other site 1163745003109 partial ornithine binding site; other site 1163745003110 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1163745003111 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1163745003112 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1163745003113 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1163745003114 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163745003115 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745003116 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 1163745003117 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745003118 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163745003119 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163745003120 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163745003121 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 1163745003122 active site 1 [active] 1163745003123 dimer interface [polypeptide binding]; other site 1163745003124 hexamer interface [polypeptide binding]; other site 1163745003125 active site 2 [active] 1163745003126 recombination protein RecR; Region: recR; TIGR00615 1163745003127 RecR protein; Region: RecR; pfam02132 1163745003128 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 1163745003129 putative active site [active] 1163745003130 putative metal-binding site [ion binding]; other site 1163745003131 tetramer interface [polypeptide binding]; other site 1163745003132 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1163745003133 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1163745003134 Permutation of conserved domain; other site 1163745003135 active site 1163745003136 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163745003137 heat shock protein HtpX; Provisional; Region: PRK02870 1163745003138 GTP cyclohydrolase I; Region: folE; TIGR00063 1163745003139 GTP cyclohydrolase I; Provisional; Region: PLN03044 1163745003140 active site 1163745003141 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163745003142 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163745003143 substrate binding pocket [chemical binding]; other site 1163745003144 chain length determination region; other site 1163745003145 substrate-Mg2+ binding site; other site 1163745003146 catalytic residues [active] 1163745003147 aspartate-rich region 1; other site 1163745003148 active site lid residues [active] 1163745003149 aspartate-rich region 2; other site 1163745003150 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1163745003151 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1163745003152 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1163745003153 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1163745003154 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163745003155 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163745003156 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163745003157 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1163745003158 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1163745003159 G1 box; other site 1163745003160 putative GEF interaction site [polypeptide binding]; other site 1163745003161 GTP/Mg2+ binding site [chemical binding]; other site 1163745003162 Switch I region; other site 1163745003163 G2 box; other site 1163745003164 G3 box; other site 1163745003165 Switch II region; other site 1163745003166 G4 box; other site 1163745003167 G5 box; other site 1163745003168 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 1163745003169 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 1163745003170 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163745003171 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1163745003172 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 1163745003173 S-adenosylmethionine binding site [chemical binding]; other site 1163745003174 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1163745003175 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003176 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1163745003177 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163745003178 active site 1163745003179 HIGH motif; other site 1163745003180 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163745003181 active site 1163745003182 KMSKS motif; other site 1163745003183 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003184 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163745003185 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163745003186 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1163745003187 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1163745003188 active site 1163745003189 Zn binding site [ion binding]; other site 1163745003190 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1163745003191 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1163745003192 putative metal binding site [ion binding]; other site 1163745003193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1163745003194 polyphosphate kinase; Provisional; Region: PRK05443 1163745003195 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1163745003196 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1163745003197 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1163745003198 putative domain interface [polypeptide binding]; other site 1163745003199 putative active site [active] 1163745003200 catalytic site [active] 1163745003201 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1163745003202 putative active site [active] 1163745003203 putative domain interface [polypeptide binding]; other site 1163745003204 catalytic site [active] 1163745003205 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 1163745003206 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 1163745003207 quinone interaction residues [chemical binding]; other site 1163745003208 active site 1163745003209 catalytic residues [active] 1163745003210 FMN binding site [chemical binding]; other site 1163745003211 substrate binding site [chemical binding]; other site 1163745003212 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163745003213 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163745003214 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163745003215 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1163745003216 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1163745003217 dimer interface [polypeptide binding]; other site 1163745003218 active site 1163745003219 catalytic residue [active] 1163745003220 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 1163745003221 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1163745003222 putative NAD(P) binding site [chemical binding]; other site 1163745003223 active site 1163745003224 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1163745003225 S-methylmethionine transporter; Provisional; Region: PRK11387 1163745003226 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1163745003227 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163745003228 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 1163745003229 protein binding site [polypeptide binding]; other site 1163745003230 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 1163745003231 protein binding site [polypeptide binding]; other site 1163745003232 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1163745003233 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1163745003234 substrate binding site; other site 1163745003235 dimer interface; other site 1163745003236 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 1163745003237 homotrimer interaction site [polypeptide binding]; other site 1163745003238 zinc binding site [ion binding]; other site 1163745003239 CDP-binding sites; other site 1163745003240 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163745003241 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 1163745003242 active site 1163745003243 dimerization interface [polypeptide binding]; other site 1163745003244 5'-3' exonuclease; Provisional; Region: PRK14976 1163745003245 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1163745003246 putative active site [active] 1163745003247 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163745003248 putative DNA binding site [nucleotide binding]; other site 1163745003249 putative metal binding site [ion binding]; other site 1163745003250 chaperone protein DnaJ; Provisional; Region: PRK14299 1163745003251 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 1163745003252 HSP70 interaction site [polypeptide binding]; other site 1163745003253 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163745003254 substrate binding site [polypeptide binding]; other site 1163745003255 dimer interface [polypeptide binding]; other site 1163745003256 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1163745003257 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163745003258 DNA binding residues [nucleotide binding] 1163745003259 putative dimer interface [polypeptide binding]; other site 1163745003260 recombination factor protein RarA; Reviewed; Region: PRK13342 1163745003261 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 1163745003262 Walker A motif; other site 1163745003263 ATP binding site [chemical binding]; other site 1163745003264 Walker B motif; other site 1163745003265 arginine finger; other site 1163745003266 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1163745003267 ferric uptake regulator; Provisional; Region: fur; PRK09462 1163745003268 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163745003269 metal binding site 2 [ion binding]; metal-binding site 1163745003270 putative DNA binding helix; other site 1163745003271 metal binding site 1 [ion binding]; metal-binding site 1163745003272 dimer interface [polypeptide binding]; other site 1163745003273 structural Zn2+ binding site [ion binding]; other site 1163745003274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1163745003275 Domain of unknown function (DUF386); Region: DUF386; cl01047 1163745003276 flagellar motor switch protein FliY; Validated; Region: PRK08432 1163745003277 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1163745003278 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1163745003279 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1163745003280 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1163745003281 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163745003282 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 1163745003283 DNA binding residues [nucleotide binding] 1163745003284 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1163745003285 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 1163745003286 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 1163745003287 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1163745003288 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 1163745003289 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 1163745003290 catalytic center binding site [active] 1163745003291 ATP binding site [chemical binding]; other site 1163745003292 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1163745003293 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1163745003294 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 1163745003295 active site 1163745003296 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1163745003297 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 1163745003298 trimer interface [polypeptide binding]; other site 1163745003299 active site 1163745003300 dimer interface [polypeptide binding]; other site 1163745003301 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1163745003302 O-Antigen ligase; Region: Wzy_C; pfam04932 1163745003303 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 1163745003304 16S/18S rRNA binding site [nucleotide binding]; other site 1163745003305 S13e-L30e interaction site [polypeptide binding]; other site 1163745003306 25S rRNA binding site [nucleotide binding]; other site 1163745003307 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 1163745003308 active site 1163745003309 metal binding site [ion binding]; metal-binding site 1163745003310 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745003311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745003312 Probable transposase; Region: OrfB_IS605; pfam01385 1163745003313 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745003314 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745003315 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003316 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745003317 Sel1-like repeats; Region: SEL1; smart00671 1163745003318 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 1163745003319 TPR motif; other site 1163745003320 binding surface 1163745003321 Sel1-like repeats; Region: SEL1; smart00671 1163745003322 Sel1-like repeats; Region: SEL1; smart00671 1163745003323 Cytochrome c; Region: Cytochrom_C; cl11414 1163745003324 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1163745003325 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 1163745003326 domain interfaces; other site 1163745003327 active site 1163745003328 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1163745003329 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 1163745003330 dimer interface [polypeptide binding]; other site 1163745003331 motif 1; other site 1163745003332 active site 1163745003333 motif 2; other site 1163745003334 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 1163745003335 putative deacylase active site [active] 1163745003336 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 1163745003337 active site 1163745003338 motif 3; other site 1163745003339 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 1163745003340 anticodon binding site; other site 1163745003341 glutamyl-tRNA reductase; Region: hemA; TIGR01035 1163745003342 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1163745003343 tRNA; other site 1163745003344 putative tRNA binding site [nucleotide binding]; other site 1163745003345 putative NADP binding site [chemical binding]; other site 1163745003346 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1163745003347 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163745003348 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163745003349 substrate binding pocket [chemical binding]; other site 1163745003350 chain length determination region; other site 1163745003351 substrate-Mg2+ binding site; other site 1163745003352 catalytic residues [active] 1163745003353 aspartate-rich region 1; other site 1163745003354 active site lid residues [active] 1163745003355 aspartate-rich region 2; other site 1163745003356 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 1163745003357 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1163745003358 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1163745003359 dimerization interface [polypeptide binding]; other site 1163745003360 DPS ferroxidase diiron center [ion binding]; other site 1163745003361 ion pore; other site 1163745003362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163745003363 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 1163745003364 dimer interface [polypeptide binding]; other site 1163745003365 phosphorylation site [posttranslational modification] 1163745003366 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 1163745003367 ATP binding site [chemical binding]; other site 1163745003368 Mg2+ binding site [ion binding]; other site 1163745003369 G-X-G motif; other site 1163745003370 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1163745003371 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1163745003372 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1163745003373 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 1163745003374 ATP binding site [chemical binding]; other site 1163745003375 Mg++ binding site [ion binding]; other site 1163745003376 motif III; other site 1163745003377 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 1163745003378 nucleotide binding region [chemical binding]; other site 1163745003379 ATP-binding site [chemical binding]; other site 1163745003380 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1163745003381 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1163745003382 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 1163745003383 Predicted permeases [General function prediction only]; Region: COG0730 1163745003384 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1163745003385 HNH endonuclease; Region: HNH_2; pfam13391 1163745003386 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 1163745003387 DNA binding site [nucleotide binding] 1163745003388 substrate interaction site [chemical binding]; other site 1163745003389 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 1163745003390 sec-independent translocase; Provisional; Region: PRK04098 1163745003391 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1163745003392 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1163745003393 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1163745003394 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1163745003395 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 1163745003396 S-adenosylmethionine binding site [chemical binding]; other site 1163745003397 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003398 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163745003399 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 1163745003400 active site 1163745003401 phosphorylation site [posttranslational modification] 1163745003402 intermolecular recognition site; other site 1163745003403 dimerization interface [polypeptide binding]; other site 1163745003404 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 1163745003405 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 1163745003406 S-adenosylmethionine binding site [chemical binding]; other site 1163745003407 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1163745003408 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 1163745003409 Walker A motif; other site 1163745003410 ATP binding site [chemical binding]; other site 1163745003411 Walker B motif; other site 1163745003412 arginine finger; other site 1163745003413 Peptidase family M41; Region: Peptidase_M41; pfam01434 1163745003414 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1163745003415 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1163745003416 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163745003417 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 1163745003418 metal-binding site [ion binding] 1163745003419 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163745003420 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163745003421 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 1163745003422 metal-binding site [ion binding] 1163745003423 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 1163745003424 metal-binding site [ion binding] 1163745003425 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745003426 Sel1-like repeats; Region: SEL1; smart00671 1163745003427 Sel1-like repeats; Region: SEL1; smart00671 1163745003428 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745003429 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 1163745003430 binding surface 1163745003431 TPR motif; other site 1163745003432 Sel1-like repeats; Region: SEL1; smart00671 1163745003433 Sel1-like repeats; Region: SEL1; smart00671 1163745003434 Sel1-like repeats; Region: SEL1; smart00671 1163745003435 Sel1-like repeats; Region: SEL1; smart00671 1163745003436 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1163745003437 active site 1163745003438 Zn binding site [ion binding]; other site 1163745003439 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1163745003440 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745003441 Sel1 repeat; Region: Sel1; cl02723 1163745003442 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 1163745003443 Restriction endonuclease; Region: Mrr_cat; pfam04471 1163745003444 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163745003445 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163745003446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745003447 Walker A/P-loop; other site 1163745003448 ATP binding site [chemical binding]; other site 1163745003449 Q-loop/lid; other site 1163745003450 ABC transporter signature motif; other site 1163745003451 Walker B; other site 1163745003452 D-loop; other site 1163745003453 H-loop/switch region; other site 1163745003454 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003455 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1163745003456 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163745003457 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163745003458 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1163745003459 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 1163745003460 RNA binding surface [nucleotide binding]; other site 1163745003461 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 1163745003462 S-adenosylmethionine binding site [chemical binding]; other site 1163745003463 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1163745003464 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1163745003465 active site 1163745003466 Riboflavin kinase; Region: Flavokinase; pfam01687 1163745003467 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 1163745003468 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 1163745003469 TPP-binding site [chemical binding]; other site 1163745003470 dimer interface [polypeptide binding]; other site 1163745003471 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 1163745003472 PYR/PP interface [polypeptide binding]; other site 1163745003473 dimer interface [polypeptide binding]; other site 1163745003474 TPP binding site [chemical binding]; other site 1163745003475 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163745003476 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 1163745003477 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1163745003478 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1163745003479 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163745003480 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1163745003481 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1163745003482 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 1163745003483 putative substrate translocation pore; other site 1163745003484 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1163745003485 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1163745003486 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 1163745003487 dimer interface [polypeptide binding]; other site 1163745003488 FMN binding site [chemical binding]; other site 1163745003489 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 1163745003490 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163745003491 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163745003492 active site 1163745003493 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1163745003494 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1163745003495 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1163745003496 Putative zinc ribbon domain; Region: DUF164; pfam02591 1163745003497 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 1163745003498 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1163745003499 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 1163745003500 dimer interface [polypeptide binding]; other site 1163745003501 motif 1; other site 1163745003502 active site 1163745003503 motif 2; other site 1163745003504 motif 3; other site 1163745003505 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1163745003506 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1163745003507 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1163745003508 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003509 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1163745003510 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1163745003511 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 1163745003512 active site 1163745003513 catalytic residues [active] 1163745003514 DNA binding site [nucleotide binding] 1163745003515 Int/Topo IB signature motif; other site 1163745003516 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1163745003517 Fic family protein [Function unknown]; Region: COG3177 1163745003518 Fic/DOC family; Region: Fic; pfam02661 1163745003519 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1163745003520 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745003521 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1163745003522 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1163745003523 MULE transposase domain; Region: MULE; pfam10551 1163745003524 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003525 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1163745003526 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1163745003527 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 1163745003528 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 1163745003529 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163745003530 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1163745003531 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1163745003532 propionate/acetate kinase; Provisional; Region: PRK12379 1163745003533 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 1163745003534 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1163745003535 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1163745003536 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 1163745003537 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1163745003538 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1163745003539 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 1163745003540 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1163745003541 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163745003542 potential frameshift: common BLAST hit: gi|315453300|ref|YP_004073570.1| putative N-6 DNA methylase 1163745003543 potential frameshift: common BLAST hit: gi|315453300|ref|YP_004073570.1| putative N-6 DNA methylase 1163745003544 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1163745003545 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163745003546 Walker A/P-loop; other site 1163745003547 ATP binding site [chemical binding]; other site 1163745003548 Q-loop/lid; other site 1163745003549 ABC transporter signature motif; other site 1163745003550 Walker B; other site 1163745003551 D-loop; other site 1163745003552 H-loop/switch region; other site 1163745003553 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; cl00462 1163745003554 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163745003555 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 1163745003556 ABC-ATPase subunit interface; other site 1163745003557 dimer interface [polypeptide binding]; other site 1163745003558 putative PBP binding regions; other site 1163745003559 short chain dehydrogenase; Validated; Region: PRK06182 1163745003560 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1163745003561 NADP binding site [chemical binding]; other site 1163745003562 active site 1163745003563 steroid binding site; other site 1163745003564 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 1163745003565 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1163745003566 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 1163745003567 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 1163745003568 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 1163745003569 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163745003570 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163745003571 Outer membrane efflux protein; Region: OEP; pfam02321 1163745003572 Outer membrane efflux protein; Region: OEP; pfam02321 1163745003573 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 1163745003574 phosphoglyceromutase; Provisional; Region: PRK05434 1163745003575 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1163745003576 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 1163745003577 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1163745003578 Ferritin-like domain; Region: Ferritin; pfam00210 1163745003579 ferroxidase diiron center [ion binding]; other site 1163745003580 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1163745003581 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 1163745003582 motif II; other site 1163745003583 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 1163745003584 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 1163745003585 ligand binding site [chemical binding]; other site 1163745003586 active site 1163745003587 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1163745003588 Aspartase; Region: Aspartase; cd01357 1163745003589 active sites [active] 1163745003590 tetramer interface [polypeptide binding]; other site 1163745003591 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1163745003592 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 1163745003593 hinge; other site 1163745003594 active site 1163745003595 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1163745003596 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1163745003597 active site 1163745003598 tetramer interface; other site 1163745003599 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1163745003600 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 1163745003601 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163745003602 catalytic residue [active] 1163745003603 YGGT family; Region: YGGT; pfam02325 1163745003604 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 1163745003605 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163745003606 active site 1163745003607 HIGH motif; other site 1163745003608 nucleotide binding site [chemical binding]; other site 1163745003609 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163745003610 active site 1163745003611 KMSKS motif; other site 1163745003612 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1163745003613 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 1163745003614 Ligand Binding Site [chemical binding]; other site 1163745003615 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1163745003616 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163745003617 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 1163745003618 FeS/SAM binding site; other site 1163745003619 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1163745003620 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163745003621 active site 1163745003622 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1163745003623 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163745003624 catalytic residue [active] 1163745003625 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1163745003626 tetramer interfaces [polypeptide binding]; other site 1163745003627 binuclear metal-binding site [ion binding]; other site 1163745003628 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1163745003629 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1163745003630 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163745003631 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163745003632 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1163745003633 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163745003634 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 1163745003635 nucleotide binding site/active site [active] 1163745003636 HIT family signature motif; other site 1163745003637 catalytic residue [active] 1163745003638 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1163745003639 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1163745003640 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163745003641 active site 1163745003642 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1163745003643 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163745003644 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 1163745003645 RNA binding surface [nucleotide binding]; other site 1163745003646 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163745003647 active site 1163745003648 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 1163745003649 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 1163745003650 Interdomain contacts; other site 1163745003651 Cytokine receptor motif; other site 1163745003652 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 1163745003653 Interdomain contacts; other site 1163745003654 Cytokine receptor motif; other site 1163745003655 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 1163745003656 Interdomain contacts; other site 1163745003657 Cytokine receptor motif; other site 1163745003658 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1163745003659 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 1163745003660 S-adenosylmethionine binding site [chemical binding]; other site 1163745003661 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163745003662 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163745003663 Walker A/P-loop; other site 1163745003664 ATP binding site [chemical binding]; other site 1163745003665 Q-loop/lid; other site 1163745003666 ABC transporter signature motif; other site 1163745003667 Walker B; other site 1163745003668 D-loop; other site 1163745003669 H-loop/switch region; other site 1163745003670 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1163745003671 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1163745003672 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163745003673 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163745003674 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1163745003675 Predicted permease [General function prediction only]; Region: COG2056 1163745003676 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1163745003677 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1163745003678 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1163745003679 putative active site; other site 1163745003680 catalytic triad [active] 1163745003681 putative dimer interface [polypeptide binding]; other site 1163745003682 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1163745003683 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 1163745003684 putative ATP binding site [chemical binding]; other site 1163745003685 putative substrate interface [chemical binding]; other site 1163745003686 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 1163745003687 flagellar capping protein; Validated; Region: fliD; PRK08453 1163745003688 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1163745003689 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1163745003690 flagellar protein FlaG; Provisional; Region: PRK08452 1163745003691 phosphodiesterase; Provisional; Region: PRK12704 1163745003692 KH domain; Region: KH_1; pfam00013 1163745003693 nucleic acid binding region [nucleotide binding]; other site 1163745003694 G-X-X-G motif; other site 1163745003695 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163745003696 Zn2+ binding site [ion binding]; other site 1163745003697 Mg2+ binding site [ion binding]; other site 1163745003698 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1163745003699 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1163745003700 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 1163745003701 P loop; other site 1163745003702 GTP binding site [chemical binding]; other site 1163745003703 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1163745003704 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 1163745003705 FeS/SAM binding site; other site 1163745003706 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1163745003707 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1163745003708 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1163745003709 GTP binding site; other site 1163745003710 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1163745003711 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1163745003712 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1163745003713 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 1163745003714 substrate binding site [chemical binding]; other site 1163745003715 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1163745003716 substrate binding site [chemical binding]; other site 1163745003717 ligand binding site [chemical binding]; other site 1163745003718 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 1163745003719 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003720 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1163745003721 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 1163745003722 active site 1163745003723 metal binding site [ion binding]; metal-binding site 1163745003724 Nitronate monooxygenase; Region: NMO; pfam03060 1163745003725 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 1163745003726 FMN binding site [chemical binding]; other site 1163745003727 substrate binding site [chemical binding]; other site 1163745003728 putative catalytic residue [active] 1163745003729 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1163745003730 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1163745003731 active site 1163745003732 HIGH motif; other site 1163745003733 dimer interface [polypeptide binding]; other site 1163745003734 KMSKS motif; other site 1163745003735 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 1163745003736 RNA binding surface [nucleotide binding]; other site 1163745003737 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1163745003738 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163745003739 Zn2+ binding site [ion binding]; other site 1163745003740 Mg2+ binding site [ion binding]; other site 1163745003741 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163745003742 synthetase active site [active] 1163745003743 NTP binding site [chemical binding]; other site 1163745003744 metal binding site [ion binding]; metal-binding site 1163745003745 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 1163745003746 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 1163745003747 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 1163745003748 putative nucleotide binding site [chemical binding]; other site 1163745003749 uridine monophosphate binding site [chemical binding]; other site 1163745003750 homohexameric interface [polypeptide binding]; other site 1163745003751 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1163745003752 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 1163745003753 inhibitor-cofactor binding pocket; inhibition site 1163745003754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745003755 catalytic residue [active] 1163745003756 SurA N-terminal domain; Region: SurA_N_3; cl07813 1163745003757 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1163745003758 cell division protein FtsA; Region: ftsA; TIGR01174 1163745003759 Cell division protein FtsA; Region: FtsA; smart00842 1163745003760 Cell division protein FtsA; Region: FtsA; pfam14450 1163745003761 cell division protein FtsZ; Validated; Region: PRK09330 1163745003762 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 1163745003763 nucleotide binding site [chemical binding]; other site 1163745003764 SulA interaction site; other site 1163745003765 potential frameshift: common BLAST hit: gi|336453254|ref|YP_004607720.1| HAD-superfamily phosphatase 1163745003766 potential frameshift: common BLAST hit: gi|308185128|ref|YP_003929261.1| topoisomerase I 1163745003767 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1163745003768 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1163745003769 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 1163745003770 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1163745003771 substrate-cofactor binding pocket; other site 1163745003772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745003773 catalytic residue [active] 1163745003774 Uncharacterized conserved protein [Function unknown]; Region: COG4866 1163745003775 Chorismate mutase type II; Region: CM_2; smart00830 1163745003776 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1163745003777 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1163745003778 active site 1163745003779 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163745003780 substrate binding site [chemical binding]; other site 1163745003781 catalytic residues [active] 1163745003782 dimer interface [polypeptide binding]; other site 1163745003783 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 1163745003784 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1163745003785 hypothetical protein; Provisional; Region: PRK04081 1163745003786 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1163745003787 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163745003788 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1163745003789 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1163745003790 Ligand binding site; other site 1163745003791 oligomer interface; other site 1163745003792 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1163745003793 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1163745003794 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163745003795 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745003796 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 1163745003797 active site 1 [active] 1163745003798 dimer interface [polypeptide binding]; other site 1163745003799 hexamer interface [polypeptide binding]; other site 1163745003800 active site 2 [active] 1163745003801 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 1163745003802 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163745003803 G1 box; other site 1163745003804 GTP/Mg2+ binding site [chemical binding]; other site 1163745003805 G2 box; other site 1163745003806 Switch I region; other site 1163745003807 G3 box; other site 1163745003808 Switch II region; other site 1163745003809 G4 box; other site 1163745003810 G5 box; other site 1163745003811 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 1163745003812 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1163745003813 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1163745003814 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1163745003815 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 1163745003816 inhibitor-cofactor binding pocket; inhibition site 1163745003817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745003818 catalytic residue [active] 1163745003819 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1163745003820 GTP1/OBG; Region: GTP1_OBG; pfam01018 1163745003821 Obg GTPase; Region: Obg; cd01898 1163745003822 G1 box; other site 1163745003823 GTP/Mg2+ binding site [chemical binding]; other site 1163745003824 Switch I region; other site 1163745003825 G2 box; other site 1163745003826 G3 box; other site 1163745003827 Switch II region; other site 1163745003828 G4 box; other site 1163745003829 G5 box; other site 1163745003830 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1163745003831 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163745003832 Walker A/P-loop; other site 1163745003833 ATP binding site [chemical binding]; other site 1163745003834 Q-loop/lid; other site 1163745003835 ABC transporter signature motif; other site 1163745003836 Walker B; other site 1163745003837 D-loop; other site 1163745003838 H-loop/switch region; other site 1163745003839 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1163745003840 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163745003841 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1163745003842 Walker A/P-loop; other site 1163745003843 ATP binding site [chemical binding]; other site 1163745003844 Q-loop/lid; other site 1163745003845 ABC transporter signature motif; other site 1163745003846 Walker B; other site 1163745003847 D-loop; other site 1163745003848 H-loop/switch region; other site 1163745003849 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163745003850 dipeptide transporter; Provisional; Region: PRK10913 1163745003851 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1163745003852 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 1163745003853 dimer interface [polypeptide binding]; other site 1163745003854 conserved gate region; other site 1163745003855 putative PBP binding loops; other site 1163745003856 ABC-ATPase subunit interface; other site 1163745003857 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1163745003858 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 1163745003859 dimer interface [polypeptide binding]; other site 1163745003860 conserved gate region; other site 1163745003861 putative PBP binding loops; other site 1163745003862 ABC-ATPase subunit interface; other site 1163745003863 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1163745003864 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1163745003865 peptide binding site [polypeptide binding]; other site 1163745003866 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1163745003867 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1163745003868 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 1163745003869 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163745003870 Phosphagen (guanidino) kinases; Region: phosphagen_kinases; cl02823 1163745003871 ADP binding site [chemical binding]; other site 1163745003872 substrate specificity loop; other site 1163745003873 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1163745003874 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1163745003875 active site 1163745003876 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163745003877 catalytic residues [active] 1163745003878 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1163745003879 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163745003880 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 1163745003881 putative ADP-binding pocket [chemical binding]; other site 1163745003882 Thioesterase superfamily; Region: 4HBT; pfam03061 1163745003883 potential frameshift: common BLAST hit: gi|109947189|ref|YP_664417.1| methyltransferase 1163745003884 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1163745003885 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1163745003886 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1163745003887 active site 1163745003888 HIGH motif; other site 1163745003889 KMSKS motif; other site 1163745003890 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163745003891 anticodon binding site; other site 1163745003892 tRNA binding surface [nucleotide binding]; other site 1163745003893 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 1163745003894 dimer interface [polypeptide binding]; other site 1163745003895 putative tRNA-binding site [nucleotide binding]; other site 1163745003896 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1163745003897 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 1163745003898 S-adenosylmethionine binding site [chemical binding]; other site 1163745003899 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163745003900 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163745003901 TPR repeat; Region: TPR_11; pfam13414 1163745003902 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 1163745003903 binding surface 1163745003904 TPR motif; other site 1163745003905 Sel1-like repeats; Region: SEL1; smart00671 1163745003906 Sel1-like repeats; Region: SEL1; smart00671 1163745003907 Sel1-like repeats; Region: SEL1; smart00671 1163745003908 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1163745003909 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1163745003910 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 1163745003911 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163745003912 R.HinP1I restriction endonuclease; Region: R-HINP1I; pfam11463 1163745003913 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 1163745003914 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1163745003915 cofactor binding site; other site 1163745003916 DNA binding site [nucleotide binding] 1163745003917 substrate interaction site [chemical binding]; other site 1163745003918 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1163745003919 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1163745003920 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163745003921 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1163745003922 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163745003923 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163745003924 ligand binding site [chemical binding]; other site 1163745003925 translocation protein TolB; Provisional; Region: tolB; PRK04043 1163745003926 TolB amino-terminal domain; Region: TolB_N; pfam04052 1163745003927 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163745003928 TonB C terminal; Region: TonB_2; pfam13103 1163745003929 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163745003930 TolR protein; Region: tolR; TIGR02801 1163745003931 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1163745003932 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1163745003933 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1163745003934 gamma subunit interface [polypeptide binding]; other site 1163745003935 epsilon subunit interface [polypeptide binding]; other site 1163745003936 LBP interface [polypeptide binding]; other site 1163745003937 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1163745003938 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163745003939 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 1163745003940 alpha subunit interaction interface [polypeptide binding]; other site 1163745003941 Walker A motif; other site 1163745003942 ATP binding site [chemical binding]; other site 1163745003943 Walker B motif; other site 1163745003944 inhibitor binding site; inhibition site 1163745003945 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163745003946 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1163745003947 core domain interface [polypeptide binding]; other site 1163745003948 delta subunit interface [polypeptide binding]; other site 1163745003949 epsilon subunit interface [polypeptide binding]; other site 1163745003950 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1163745003951 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163745003952 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 1163745003953 beta subunit interaction interface [polypeptide binding]; other site 1163745003954 Walker A motif; other site 1163745003955 ATP binding site [chemical binding]; other site 1163745003956 Walker B motif; other site 1163745003957 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163745003958 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 1163745003959 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 1163745003960 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 1163745003961 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1163745003962 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1163745003963 ParB-like nuclease domain; Region: ParB; smart00470 1163745003964 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163745003965 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 1163745003966 P-loop; other site 1163745003967 Magnesium ion binding site [ion binding]; other site 1163745003968 biotin--protein ligase; Provisional; Region: PRK08477 1163745003969 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1163745003970 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1163745003971 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1163745003972 putative active site [active] 1163745003973 substrate binding site [chemical binding]; other site 1163745003974 putative cosubstrate binding site; other site 1163745003975 catalytic site [active] 1163745003976 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 1163745003977 AAA domain; Region: AAA_13; pfam13166 1163745003978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163745003979 Walker B; other site 1163745003980 D-loop; other site 1163745003981 H-loop/switch region; other site 1163745003982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1163745003983 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1163745003984 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745003985 excinuclease ABC subunit B; Provisional; Region: PRK05298 1163745003986 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745003987 heat shock protein 90; Provisional; Region: PRK05218 1163745003988 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 1163745003989 ATP binding site [chemical binding]; other site 1163745003990 Mg2+ binding site [ion binding]; other site 1163745003991 G-X-G motif; other site 1163745003992 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 1163745003993 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 1163745003994 primosome assembly protein PriA; Validated; Region: PRK05580 1163745003995 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 1163745003996 ATP binding site [chemical binding]; other site 1163745003997 putative Mg++ binding site [ion binding]; other site 1163745003998 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1163745003999 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004000 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004002 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004003 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004004 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004005 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 1163745004006 cofactor binding site; other site 1163745004007 DNA binding site [nucleotide binding] 1163745004008 substrate interaction site [chemical binding]; other site 1163745004009 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 1163745004010 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1163745004011 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 1163745004012 inhibitor-cofactor binding pocket; inhibition site 1163745004013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163745004014 catalytic residue [active] 1163745004015 biotin carboxylase; Validated; Region: PRK08462 1163745004016 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163745004017 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163745004018 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163745004019 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 1163745004020 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 1163745004021 carboxyltransferase (CT) interaction site; other site 1163745004022 biotinylation site [posttranslational modification]; other site 1163745004023 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163745004024 trimer interface [polypeptide binding]; other site 1163745004025 active site 1163745004026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1163745004027 RNA methyltransferase, RsmE family; Region: TIGR00046 1163745004028 ferrochelatase; Region: hemH; TIGR00109 1163745004029 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 1163745004030 C-terminal domain interface [polypeptide binding]; other site 1163745004031 active site 1163745004032 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 1163745004033 active site 1163745004034 N-terminal domain interface [polypeptide binding]; other site 1163745004035 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 1163745004036 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163745004037 catalytic residues [active] 1163745004038 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1163745004039 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1163745004040 Fic/DOC family; Region: Fic; pfam02661 1163745004041 PemK-like protein; Region: PemK; pfam02452 1163745004042 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 1163745004043 Fic family protein [Function unknown]; Region: COG3177 1163745004044 Fic/DOC family; Region: Fic; pfam02661 1163745004045 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 1163745004046 Walker A motif; other site 1163745004047 ATP binding site [chemical binding]; other site 1163745004048 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 1163745004049 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1163745004050 Walker B motif; other site 1163745004051 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1163745004052 Toprim-like; Region: Toprim_2; pfam13155 1163745004053 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1163745004054 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1163745004055 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 1163745004056 active site 1163745004057 interdomain interaction site; other site 1163745004058 putative metal-binding site [ion binding]; other site 1163745004059 nucleotide binding site [chemical binding]; other site 1163745004060 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; cl11986 1163745004061 domain I; other site 1163745004062 DNA binding groove [nucleotide binding] 1163745004063 phosphate binding site [ion binding]; other site 1163745004064 domain II; other site 1163745004065 domain III; other site 1163745004066 nucleotide binding site [chemical binding]; other site 1163745004067 catalytic site [active] 1163745004068 domain IV; other site 1163745004069 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1163745004070 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 1163745004071 Walker A motif; other site 1163745004072 hexamer interface [polypeptide binding]; other site 1163745004073 ATP binding site [chemical binding]; other site 1163745004074 Walker B motif; other site 1163745004075 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1163745004076 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1163745004077 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163745004078 VirB7 interaction site; other site 1163745004079 VirB8 protein; Region: VirB8; cl01500 1163745004080 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1163745004081 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163745004082 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 1163745004083 Walker A motif; other site 1163745004084 ATP binding site [chemical binding]; other site 1163745004085 TrbC/VIRB2 family; Region: TrbC; cl01583 1163745004086 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 1163745004087 active site residue [active] 1163745004088 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1163745004089 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 1163745004090 active site 1163745004091 camphor resistance protein CrcB; Provisional; Region: PRK14204 1163745004092 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 1163745004093 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 1163745004094 FeS/SAM binding site; other site 1163745004095 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163745004096 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 1163745004097 putative active site [active] 1163745004098 Ap4A binding site [chemical binding]; other site 1163745004099 nudix motif; other site 1163745004100 putative metal binding site [ion binding]; other site 1163745004101 aspartate kinase; Reviewed; Region: PRK06635 1163745004102 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 1163745004103 putative nucleotide binding site [chemical binding]; other site 1163745004104 putative catalytic residues [active] 1163745004105 putative Mg ion binding site [ion binding]; other site 1163745004106 putative aspartate binding site [chemical binding]; other site 1163745004107 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 1163745004108 putative allosteric regulatory site; other site 1163745004109 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 1163745004110 putative allosteric regulatory residue; other site 1163745004111 DNA replication regulator; Region: HobA; pfam12163 1163745004112 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1163745004113 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 1163745004114 dihydropteroate synthase; Region: DHPS; TIGR01496 1163745004115 substrate binding pocket [chemical binding]; other site 1163745004116 dimer interface [polypeptide binding]; other site 1163745004117 inhibitor binding site; inhibition site 1163745004118 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1163745004119 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1163745004120 serine transporter; Region: stp; TIGR00814 1163745004121 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1163745004122 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1163745004123 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1163745004124 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 1163745004125 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004127 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004128 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004129 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004130 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163745004131 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163745004132 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163745004133 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004135 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004136 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004137 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004138 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004139 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1163745004140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163745004141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163745004142 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1163745004143 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163745004144 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1163745004145 flavodoxin FldA; Validated; Region: PRK09267 1163745004146 metal-binding heat shock protein; Provisional; Region: PRK00016 1163745004147 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1163745004148 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1163745004149 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004150 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004151 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004152 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004153 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004154 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004155 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1163745004156 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 1163745004157 active site 1163745004158 homodimer interface [polypeptide binding]; other site 1163745004159 flagellar assembly protein FliW; Provisional; Region: PRK13283 1163745004160 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1163745004161 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163745004162 active site 1163745004163 HIGH motif; other site 1163745004164 nucleotide binding site [chemical binding]; other site 1163745004165 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163745004166 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1163745004167 active site 1163745004168 KMSKS motif; other site 1163745004169 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1163745004170 anticodon binding site; other site 1163745004171 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1163745004172 signal recognition particle protein; Provisional; Region: PRK10867 1163745004173 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1163745004174 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 1163745004175 P loop; other site 1163745004176 GTP binding site [chemical binding]; other site 1163745004177 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1163745004178 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1163745004179 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1163745004180 KH domain; Region: KH_4; pfam13083 1163745004181 G-X-X-G motif; other site 1163745004182 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 1163745004183 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1163745004184 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1163745004185 EamA-like transporter family; Region: EamA; pfam00892 1163745004186 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163745004187 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004188 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 1163745004189 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 1163745004190 active site 1163745004191 metal binding site [ion binding]; metal-binding site 1163745004192 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; cl11986 1163745004193 domain I; other site 1163745004194 DNA binding groove [nucleotide binding] 1163745004195 phosphate binding site [ion binding]; other site 1163745004196 domain II; other site 1163745004197 domain III; other site 1163745004198 nucleotide binding site [chemical binding]; other site 1163745004199 catalytic site [active] 1163745004200 domain IV; other site 1163745004201 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004202 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004203 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004204 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004205 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004206 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1163745004207 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163745004208 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 1163745004209 Walker B motif; other site 1163745004210 TrbC/VIRB2 family; Region: TrbC; pfam04956 1163745004211 Toprim-like; Region: Toprim_2; pfam13155 1163745004212 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163745004213 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163745004214 putative NAD(P) binding site [chemical binding]; other site 1163745004215 putative substrate binding site [chemical binding]; other site 1163745004216 catalytic Zn binding site [ion binding]; other site 1163745004217 structural Zn binding site [ion binding]; other site 1163745004218 dimer interface [polypeptide binding]; other site 1163745004219 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163745004220 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 1163745004221 active site 1163745004222 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004223 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1163745004224 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1163745004225 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 1163745004226 4Fe-4S binding domain; Region: Fer4; pfam00037 1163745004227 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 1163745004228 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 1163745004229 dimer interface [polypeptide binding]; other site 1163745004230 PYR/PP interface [polypeptide binding]; other site 1163745004231 TPP binding site [chemical binding]; other site 1163745004232 substrate binding site [chemical binding]; other site 1163745004233 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163745004234 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 1163745004235 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 1163745004236 TPP-binding site [chemical binding]; other site 1163745004237 putative dimer interface [polypeptide binding]; other site 1163745004238 adenylosuccinate lyase; Provisional; Region: PRK08470 1163745004239 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1163745004240 tetramer interface [polypeptide binding]; other site 1163745004241 active site 1163745004242 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1163745004243 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004244 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1163745004245 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1163745004246 metal binding site [ion binding]; metal-binding site 1163745004247 dimer interface [polypeptide binding]; other site 1163745004248 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1163745004249 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163745004250 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1163745004251 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1163745004252 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163745004253 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 1163745004254 transmembrane helices; other site 1163745004255 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1163745004256 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1163745004257 1-deoxy-D-xylulose 5-phosphate reductoisomerase [Lipid metabolism]; Region: Dxr; COG0743 1163745004258 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1163745004259 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1163745004260 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1163745004261 Sporulation related domain; Region: SPOR; pfam05036 1163745004262 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1163745004263 MULE transposase domain; Region: MULE; pfam10551 1163745004264 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004266 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004267 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004268 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004269 HNH endonuclease; Region: HNH_2; pfam13391 1163745004270 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1163745004271 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 1163745004272 Walker A motif; other site 1163745004273 ATP binding site [chemical binding]; other site 1163745004274 Walker B motif; other site 1163745004275 arginine finger; other site 1163745004276 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1163745004277 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 1163745004278 oligomerization interface [polypeptide binding]; other site 1163745004279 active site 1163745004280 metal binding site [ion binding]; metal-binding site 1163745004281 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004282 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004283 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163745004284 septum formation inhibitor; Reviewed; Region: minC; PRK00556 1163745004285 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1163745004286 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 1163745004287 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1163745004288 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1163745004289 homoserine kinase; Region: thrB; TIGR00191 1163745004290 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1163745004291 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 1163745004292 translation initiation factor IF-2; Region: IF-2; TIGR00487 1163745004293 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1163745004294 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1163745004295 G1 box; other site 1163745004296 putative GEF interaction site [polypeptide binding]; other site 1163745004297 GTP/Mg2+ binding site [chemical binding]; other site 1163745004298 Switch I region; other site 1163745004299 G2 box; other site 1163745004300 G3 box; other site 1163745004301 Switch II region; other site 1163745004302 G4 box; other site 1163745004303 G5 box; other site 1163745004304 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 1163745004305 Translation-initiation factor 2; Region: IF-2; pfam11987 1163745004306 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 1163745004307 Ribosome-binding factor A; Region: RBFA; cl00542 1163745004308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 1163745004309 Sm and related proteins; Region: Sm_like; cl00259 1163745004310 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1163745004311 putative oligomer interface [polypeptide binding]; other site 1163745004312 putative RNA binding site [nucleotide binding]; other site 1163745004313 Transposase IS200 like; Region: Y1_Tnp; cl00848 1163745004314 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 1163745004315 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 1163745004316 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 1163745004317 N-terminal sub-domain of the Rel homology domain (RHD); Region: RHD-n; cl08275 1163745004318 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163745004319 HemK family putative methylases; Region: hemK_fam; TIGR00536 1163745004320 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 1163745004321 glutamate dehydrogenase; Provisional; Region: PRK09414 1163745004322 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1163745004323 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1163745004324 NAD(P) binding site [chemical binding]; other site 1163745004325 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1163745004326 substrate binding site [chemical binding]; other site 1163745004327 Helix-turn-helix domain; Region: HTH_28; pfam13518 1163745004328 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 1163745004329 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1163745004330 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163745004331 catalytic residue [active] 1163745004332 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 1163745004333 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1163745004334 trimerization site [polypeptide binding]; other site 1163745004335 active site 1163745004336 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1163745004337 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1163745004338 DNA repair protein RadA; Region: sms; TIGR00416 1163745004339 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 1163745004340 Walker A motif/ATP binding site; other site 1163745004341 ATP binding site [chemical binding]; other site 1163745004342 Walker B motif; other site 1163745004343 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163745004344 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1163745004345 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1163745004346 SelR domain; Region: SelR; pfam01641 1163745004347 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1163745004348 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1163745004349 potential frameshift: common BLAST hit: gi|190570333|ref|YP_001967638.1| R4 1163745004350 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1163745004351 Toprim-like; Region: Toprim_2; pfam13155 1163745004352 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004353 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004354 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004355 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004356 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004357 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 1163745004358 Walker A motif; other site 1163745004359 ATP binding site [chemical binding]; other site 1163745004360 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 1163745004361 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1163745004362 Walker B motif; other site 1163745004363 Fic family protein [Function unknown]; Region: COG3177 1163745004364 Fic/DOC family; Region: Fic; pfam02661 1163745004365 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; cl10015 1163745004366 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163745004367 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1163745004368 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1163745004369 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; cl17251 1163745004370 ATP binding site [chemical binding]; other site 1163745004371 putative Mg++ binding site [ion binding]; other site 1163745004372 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 1163745004373 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1163745004374 nucleotide binding region [chemical binding]; other site 1163745004375 ATP-binding site [chemical binding]; other site 1163745004376 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 1163745004377 active site 1163745004378 catalytic residues [active] 1163745004379 DNA binding site [nucleotide binding] 1163745004380 Int/Topo IB signature motif; other site 1163745004381 ParA-like protein; Provisional; Region: PHA02518 1163745004382 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 1163745004383 P-loop; other site 1163745004384 Magnesium ion binding site [ion binding]; other site 1163745004385 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 1163745004386 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004387 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1163745004388 FAD binding domain; Region: FAD_binding_4; pfam01565 1163745004389 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163745004390 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1163745004391 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 1163745004392 catalytic residue [active] 1163745004393 putative FPP diphosphate binding site; other site 1163745004394 putative FPP binding hydrophobic cleft; other site 1163745004395 dimer interface [polypeptide binding]; other site 1163745004396 putative IPP diphosphate binding site; other site 1163745004397 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1163745004398 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163745004399 Walker A/P-loop; other site 1163745004400 ATP binding site [chemical binding]; other site 1163745004401 Q-loop/lid; other site 1163745004402 ABC transporter signature motif; other site 1163745004403 Walker B; other site 1163745004404 D-loop; other site 1163745004405 H-loop/switch region; other site 1163745004406 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163745004407 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163745004408 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 1163745004409 binding surface 1163745004410 TPR motif; other site 1163745004411 Sel1-like repeats; Region: SEL1; smart00671 1163745004412 Sel1-like repeats; Region: SEL1; smart00671 1163745004413 Sel1-like repeats; Region: SEL1; smart00671 1163745004414 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1163745004415 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1163745004416 active site 1163745004417 intersubunit interface [polypeptide binding]; other site 1163745004418 catalytic residue [active] 1163745004419 phosphogluconate dehydratase; Validated; Region: PRK09054 1163745004420 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1163745004421 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1163745004422 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1163745004423 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1163745004424 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1163745004425 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 1163745004426 putative active site [active] 1163745004427 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163745004428 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163745004429 nucleotide binding site [chemical binding]; other site 1163745004430 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745004431 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 1163745004432 cofactor binding site; other site 1163745004433 DNA binding site [nucleotide binding] 1163745004434 substrate interaction site [chemical binding]; other site 1163745004435 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163745004436 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 1163745004437 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1163745004438 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 1163745004439 active site 1163745004440 dimer interface [polypeptide binding]; other site 1163745004441 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 1163745004442 dimer interface [polypeptide binding]; other site 1163745004443 active site 1163745004444 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163745004445 carbon starvation protein A; Provisional; Region: PRK15015 1163745004446 Carbon starvation protein CstA; Region: CstA; pfam02554 1163745004447 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1163745004448 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1163745004449 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 1163745004450 putative PBP binding loops; other site 1163745004451 dimer interface [polypeptide binding]; other site 1163745004452 ABC-ATPase subunit interface; other site 1163745004453 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 1163745004454 dimer interface [polypeptide binding]; other site 1163745004455 conserved gate region; other site 1163745004456 putative PBP binding loops; other site 1163745004457 ABC-ATPase subunit interface; other site 1163745004458 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1163745004459 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1163745004460 Walker A/P-loop; other site 1163745004461 ATP binding site [chemical binding]; other site 1163745004462 Q-loop/lid; other site 1163745004463 ABC transporter signature motif; other site 1163745004464 Walker B; other site 1163745004465 D-loop; other site 1163745004466 H-loop/switch region; other site 1163745004467 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163745004468 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 1163745004469 substrate binding pocket [chemical binding]; other site 1163745004470 membrane-bound complex binding site; other site 1163745004471 hinge residues; other site 1163745004472 Sel1 repeat; Region: Sel1; cl02723 1163745004473 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1163745004474 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 1163745004475 putative substrate translocation pore; other site 1163745004476 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1163745004477 Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction endonuclease R.Hpy188I, and similar proteins; Region: GIY-YIG_EndoII_Hpy188I_like; cd10436 1163745004478 GIY-YIG motif/motif A; other site 1163745004479 DNA binding site [nucleotide binding] 1163745004480 active site 1163745004481 catalytic site [active] 1163745004482 metal binding site [ion binding]; metal-binding site 1163745004483 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 1163745004484 S-adenosylmethionine binding site [chemical binding]; other site 1163745004485 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 1163745004486 dimerization interface [polypeptide binding]; other site 1163745004487 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1163745004488 ATP binding site [chemical binding]; other site 1163745004489 Acylphosphatase; Region: Acylphosphatase; pfam00708 1163745004490 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 1163745004491 HypF finger; Region: zf-HYPF; pfam07503 1163745004492 HypF finger; Region: zf-HYPF; pfam07503 1163745004493 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1163745004494 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 1163745004495 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1163745004496 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163745004497 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163745004498 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745004499 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 1163745004500 cofactor binding site; other site 1163745004501 DNA binding site [nucleotide binding] 1163745004502 substrate interaction site [chemical binding]; other site 1163745004503 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 1163745004504 potential frameshift: common BLAST hit: gi|210134247|ref|YP_002300686.1| restriction endonuclease 1163745004505 UGMP family protein; Validated; Region: PRK09604 1163745004506 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1163745004507 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1163745004508 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1163745004509 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163745004510 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163745004511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1163745004512 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 1163745004513 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163745004514 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 1163745004515 DNA binding site [nucleotide binding] 1163745004516 substrate interaction site [chemical binding]; other site 1163745004517 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 1163745004518 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1163745004519 cofactor binding site; other site 1163745004520 DNA binding site [nucleotide binding] 1163745004521 substrate interaction site [chemical binding]; other site 1163745004522 HNH endonuclease; Region: HNH_2; pfam13391 1163745004523 hypothetical protein; Provisional; Region: PRK10236 1163745004524 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1163745004525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1163745004526 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004528 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004529 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004530 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004531 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 1163745004532 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1163745004533 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 1163745004534 Initiator Replication protein; Region: Rep_3; pfam01051 1163745004535 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1163745004536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163745004537 Probable transposase; Region: OrfB_IS605; pfam01385 1163745004538 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163745004539 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163745004540 Initiator Replication protein; Region: Rep_3; pfam01051 1163745004541 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713