-- dump date 20140619_113443 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1163743000001 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 1163743000002 putative RNA binding site [nucleotide binding]; other site 1163743000003 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 1163743000004 homopentamer interface [polypeptide binding]; other site 1163743000005 active site 1163743000006 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1163743000007 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1163743000008 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 1163743000009 active site clefts [active] 1163743000010 zinc binding site [ion binding]; other site 1163743000011 dimer interface [polypeptide binding]; other site 1163743000012 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 1163743000013 active site 1163743000014 dimer interface [polypeptide binding]; other site 1163743000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1163743000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1163743000017 active site 1163743000018 ATP-binding site [chemical binding]; other site 1163743000019 pantoate-binding site; other site 1163743000020 HXXH motif; other site 1163743000021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1163743000023 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 1163743000024 ring oligomerisation interface [polypeptide binding]; other site 1163743000025 ATP/Mg binding site [chemical binding]; other site 1163743000026 stacking interactions; other site 1163743000027 hinge regions; other site 1163743000028 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 1163743000029 oligomerisation interface [polypeptide binding]; other site 1163743000030 mobile loop; other site 1163743000031 roof hairpin; other site 1163743000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 1163743000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1163743000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1163743000035 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 1163743000036 active site 1163743000037 metal binding site [ion binding]; metal-binding site 1163743000038 interdomain interaction site; other site 1163743000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1163743000040 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 1163743000041 Ligand Binding Site [chemical binding]; other site 1163743000042 TrbC/VIRB2 family; Region: TrbC; cl01583 1163743000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1163743000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163743000045 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 1163743000046 Walker A motif; other site 1163743000047 ATP binding site [chemical binding]; other site 1163743000048 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 1163743000049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 1163743000050 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 1163743000051 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163743000052 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 1163743000053 active site 1163743000054 phosphorylation site [posttranslational modification] 1163743000055 intermolecular recognition site; other site 1163743000056 dimerization interface [polypeptide binding]; other site 1163743000057 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1163743000058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1163743000059 dimer interface [polypeptide binding]; other site 1163743000060 active site 1163743000061 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163743000062 catalytic residues [active] 1163743000063 substrate binding site [chemical binding]; other site 1163743000064 lipid A 1-phosphatase; Reviewed; Region: PRK09597 1163743000065 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163743000066 active site 1163743000067 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 1163743000068 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1163743000069 Sulfatase; Region: Sulfatase; pfam00884 1163743000070 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000071 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 1163743000072 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1163743000073 dimer interface [polypeptide binding]; other site 1163743000074 active site 1163743000075 citrylCoA binding site [chemical binding]; other site 1163743000076 NADH binding [chemical binding]; other site 1163743000077 cationic pore residues; other site 1163743000078 oxalacetate/citrate binding site [chemical binding]; other site 1163743000079 coenzyme A binding site [chemical binding]; other site 1163743000080 catalytic triad [active] 1163743000081 isocitrate dehydrogenase; Validated; Region: PRK07362 1163743000082 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1163743000083 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 1163743000084 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 1163743000085 AAA domain; Region: AAA_26; pfam13500 1163743000086 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 1163743000087 Ligand Binding Site [chemical binding]; other site 1163743000088 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1163743000089 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1163743000090 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 1163743000091 Walker A motif; other site 1163743000092 ATP binding site [chemical binding]; other site 1163743000093 Walker B motif; other site 1163743000094 arginine finger; other site 1163743000095 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 1163743000096 Walker A motif; other site 1163743000097 ATP binding site [chemical binding]; other site 1163743000098 Walker B motif; other site 1163743000099 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163743000100 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1163743000101 tetramerization interface [polypeptide binding]; other site 1163743000102 active site 1163743000103 hypothetical protein; Provisional; Region: PRK03762 1163743000104 PDZ domain; Region: PDZ_2; pfam13180 1163743000105 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1163743000106 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 1163743000107 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1163743000108 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 1163743000109 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163743000110 VirB7 interaction site; other site 1163743000111 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1163743000112 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1163743000113 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1163743000114 Substrate binding site; other site 1163743000115 Cupin domain; Region: Cupin_2; cl17218 1163743000116 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 1163743000117 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1163743000118 NADP-binding site; other site 1163743000119 homotetramer interface [polypeptide binding]; other site 1163743000120 substrate binding site [chemical binding]; other site 1163743000121 homodimer interface [polypeptide binding]; other site 1163743000122 active site 1163743000123 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1163743000124 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1163743000125 NADP binding site [chemical binding]; other site 1163743000126 active site 1163743000127 putative substrate binding site [chemical binding]; other site 1163743000128 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 1163743000129 dimerization interface [polypeptide binding]; other site 1163743000130 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1163743000131 ATP binding site [chemical binding]; other site 1163743000132 Acylphosphatase; Region: Acylphosphatase; pfam00708 1163743000133 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 1163743000134 HypF finger; Region: zf-HYPF; pfam07503 1163743000135 HypF finger; Region: zf-HYPF; pfam07503 1163743000136 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1163743000137 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 1163743000138 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1163743000139 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163743000140 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743000141 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1163743000142 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 1163743000143 cofactor binding site; other site 1163743000144 DNA binding site [nucleotide binding] 1163743000145 substrate interaction site [chemical binding]; other site 1163743000146 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 1163743000147 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1163743000148 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1163743000149 Na binding site [ion binding]; other site 1163743000150 Proline dehydrogenase; Region: Pro_dh; pfam01619 1163743000151 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1163743000152 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1163743000153 Glutamate binding site [chemical binding]; other site 1163743000154 NAD binding site [chemical binding]; other site 1163743000155 catalytic residues [active] 1163743000156 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 1163743000157 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 1163743000158 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 1163743000159 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163743000160 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163743000161 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1163743000162 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1163743000163 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1163743000164 G1 box; other site 1163743000165 GTP/Mg2+ binding site [chemical binding]; other site 1163743000166 G2 box; other site 1163743000167 Switch I region; other site 1163743000168 G3 box; other site 1163743000169 Switch II region; other site 1163743000170 G4 box; other site 1163743000171 G5 box; other site 1163743000172 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1163743000173 UreF; Region: UreF; pfam01730 1163743000174 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1163743000175 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 1163743000176 dimer interface [polypeptide binding]; other site 1163743000177 catalytic residues [active] 1163743000178 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1163743000179 urease subunit beta; Provisional; Region: ureB; PRK13985 1163743000180 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 1163743000181 subunit interactions [polypeptide binding]; other site 1163743000182 active site 1163743000183 flap region; other site 1163743000184 urease subunit alpha; Provisional; Region: PRK13986 1163743000185 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 1163743000186 alpha-gamma subunit interface [polypeptide binding]; other site 1163743000187 beta-gamma subunit interface [polypeptide binding]; other site 1163743000188 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 1163743000189 gamma-beta subunit interface [polypeptide binding]; other site 1163743000190 alpha-beta subunit interface [polypeptide binding]; other site 1163743000191 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1163743000192 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 1163743000193 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 1163743000194 active site 1163743000195 substrate binding site [chemical binding]; other site 1163743000196 metal binding site [ion binding]; metal-binding site 1163743000197 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1163743000198 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1163743000199 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163743000200 RF-1 domain; Region: RF-1; pfam00472 1163743000201 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000202 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163743000203 dimer interface [polypeptide binding]; other site 1163743000204 putative CheW interface [polypeptide binding]; other site 1163743000205 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1163743000206 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 1163743000207 23S rRNA interface [nucleotide binding]; other site 1163743000208 L3 interface [polypeptide binding]; other site 1163743000209 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1163743000210 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1163743000211 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 1163743000212 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1163743000213 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1163743000214 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1163743000215 NlpC/P60 family; Region: NLPC_P60; cl17555 1163743000216 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1163743000217 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1163743000218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163743000219 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1163743000220 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 1163743000221 DNA binding residues [nucleotide binding] 1163743000222 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1163743000223 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1163743000224 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1163743000225 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1163743000226 DpnII restriction endonuclease; Region: DpnII; pfam04556 1163743000227 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163743000228 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743000229 potential frameshift: common BLAST hit: gi|298736963|ref|YP_003729493.1| putative alpha(1,2)fucosyltransferase 1163743000230 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 1163743000231 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 1163743000232 NAD binding site [chemical binding]; other site 1163743000233 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1163743000234 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 1163743000235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743000236 catalytic residue [active] 1163743000237 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1163743000238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163743000239 dimer interface [polypeptide binding]; other site 1163743000240 putative CheW interface [polypeptide binding]; other site 1163743000241 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 1163743000242 Ligand Binding Site [chemical binding]; other site 1163743000243 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000244 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1163743000245 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1163743000246 metal-binding site 1163743000247 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 1163743000248 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1163743000249 dimerization interface [polypeptide binding]; other site 1163743000250 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1163743000251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163743000252 dimer interface [polypeptide binding]; other site 1163743000253 putative CheW interface [polypeptide binding]; other site 1163743000254 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1163743000255 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1163743000256 active site 1163743000257 metal binding site [ion binding]; metal-binding site 1163743000258 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1163743000259 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1163743000260 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 1163743000261 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1163743000262 homodimer interface [polypeptide binding]; other site 1163743000263 substrate-cofactor binding pocket; other site 1163743000264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743000265 catalytic residue [active] 1163743000266 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1163743000267 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1163743000268 dimer interface [polypeptide binding]; other site 1163743000269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743000270 catalytic residue [active] 1163743000271 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1163743000272 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 1163743000273 nucleotide binding site [chemical binding]; other site 1163743000274 NEF interaction site [polypeptide binding]; other site 1163743000275 SBD interface [polypeptide binding]; other site 1163743000276 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1163743000277 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 1163743000278 dimer interface [polypeptide binding]; other site 1163743000279 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1163743000280 heat-inducible transcription repressor; Provisional; Region: PRK03911 1163743000281 hypothetical protein; Provisional; Region: PRK05834 1163743000282 intersubunit interface [polypeptide binding]; other site 1163743000283 active site 1163743000284 Zn2+ binding site [ion binding]; other site 1163743000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1163743000286 flagellin B; Provisional; Region: PRK13588 1163743000287 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163743000288 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163743000289 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163743000290 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163743000291 DNA topoisomerase I; Validated; Region: PRK05582 1163743000292 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 1163743000293 active site 1163743000294 interdomain interaction site; other site 1163743000295 putative metal-binding site [ion binding]; other site 1163743000296 nucleotide binding site [chemical binding]; other site 1163743000297 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 1163743000298 domain I; other site 1163743000299 DNA binding groove [nucleotide binding] 1163743000300 phosphate binding site [ion binding]; other site 1163743000301 domain II; other site 1163743000302 domain III; other site 1163743000303 nucleotide binding site [chemical binding]; other site 1163743000304 catalytic site [active] 1163743000305 domain IV; other site 1163743000306 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163743000307 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163743000308 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1163743000309 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 1163743000310 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 1163743000311 FeS/SAM binding site; other site 1163743000312 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 1163743000313 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 1163743000314 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1163743000315 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1163743000316 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1163743000317 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1163743000318 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 1163743000319 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1163743000320 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 1163743000321 active site 1163743000322 dimer interface [polypeptide binding]; other site 1163743000323 motif 1; other site 1163743000324 motif 2; other site 1163743000325 motif 3; other site 1163743000326 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 1163743000327 anticodon binding site; other site 1163743000328 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1163743000329 translation initiation factor IF-3; Region: infC; TIGR00168 1163743000330 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1163743000331 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1163743000332 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1163743000333 23S rRNA binding site [nucleotide binding]; other site 1163743000334 L21 binding site [polypeptide binding]; other site 1163743000335 L13 binding site [polypeptide binding]; other site 1163743000336 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000337 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163743000338 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1163743000339 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1163743000340 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1163743000341 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1163743000342 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1163743000343 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 1163743000344 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163743000345 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 1163743000346 catalytic triad [active] 1163743000347 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1163743000348 iron-sulfur cluster-binding protein; Region: TIGR00273 1163743000349 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1163743000350 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1163743000351 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163743000352 Cysteine-rich domain; Region: CCG; pfam02754 1163743000353 Cysteine-rich domain; Region: CCG; pfam02754 1163743000354 L-lactate transport; Region: lctP; TIGR00795 1163743000355 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1163743000356 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1163743000357 L-lactate transport; Region: lctP; TIGR00795 1163743000358 DNA glycosylase MutY; Provisional; Region: PRK13910 1163743000359 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163743000360 minor groove reading motif; other site 1163743000361 helix-hairpin-helix signature motif; other site 1163743000362 substrate binding pocket [chemical binding]; other site 1163743000363 active site 1163743000364 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1163743000365 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163743000366 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 1163743000367 transmembrane helices; other site 1163743000368 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 1163743000369 Low-spin heme binding site [chemical binding]; other site 1163743000370 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1163743000371 D-pathway; other site 1163743000372 Putative water exit pathway; other site 1163743000373 Binuclear center (active site) [active] 1163743000374 K-pathway; other site 1163743000375 Putative proton exit pathway; other site 1163743000376 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1163743000377 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 1163743000378 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 1163743000379 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1163743000380 Cytochrome c; Region: Cytochrom_C; pfam00034 1163743000381 Cytochrome c; Region: Cytochrom_C; pfam00034 1163743000382 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 1163743000383 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 1163743000384 recombinase A; Provisional; Region: recA; PRK09354 1163743000385 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 1163743000386 hexamer interface [polypeptide binding]; other site 1163743000387 Walker A motif; other site 1163743000388 ATP binding site [chemical binding]; other site 1163743000389 Walker B motif; other site 1163743000390 enolase; Provisional; Region: eno; PRK00077 1163743000391 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 1163743000392 dimer interface [polypeptide binding]; other site 1163743000393 metal binding site [ion binding]; metal-binding site 1163743000394 substrate binding pocket [chemical binding]; other site 1163743000395 AMIN domain; Region: AMIN; pfam11741 1163743000396 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1163743000397 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 1163743000398 ADP binding site [chemical binding]; other site 1163743000399 magnesium binding site [ion binding]; other site 1163743000400 putative shikimate binding site; other site 1163743000401 Cache domain; Region: Cache_1; pfam02743 1163743000402 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743000403 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 1163743000404 Ligand binding site; other site 1163743000405 metal-binding site 1163743000406 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743000407 Sel1-like repeats; Region: SEL1; smart00671 1163743000408 Sel1-like repeats; Region: SEL1; smart00671 1163743000409 Sel1-like repeats; Region: SEL1; smart00671 1163743000410 Sel1 repeat; Region: Sel1; cl02723 1163743000411 Sel1-like repeats; Region: SEL1; smart00671 1163743000412 Sel1-like repeats; Region: SEL1; smart00671 1163743000413 hypothetical protein; Provisional; Region: PRK12378 1163743000414 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 1163743000415 dimer interface [polypeptide binding]; other site 1163743000416 active site 1163743000417 Schiff base residues; other site 1163743000418 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163743000419 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1163743000420 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 1163743000421 dimer interface [polypeptide binding]; other site 1163743000422 phosphorylation site [posttranslational modification] 1163743000423 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 1163743000424 ATP binding site [chemical binding]; other site 1163743000425 Mg2+ binding site [ion binding]; other site 1163743000426 G-X-G motif; other site 1163743000427 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163743000428 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 1163743000429 active site 1163743000430 phosphorylation site [posttranslational modification] 1163743000431 intermolecular recognition site; other site 1163743000432 dimerization interface [polypeptide binding]; other site 1163743000433 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 1163743000434 DNA binding site [nucleotide binding] 1163743000435 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 1163743000436 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1163743000437 Peptidase family U32; Region: Peptidase_U32; pfam01136 1163743000438 peptide chain release factor 2; Region: prfB; TIGR00020 1163743000439 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1163743000440 RF-1 domain; Region: RF-1; pfam00472 1163743000441 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1163743000442 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 1163743000443 dimer interface [polypeptide binding]; other site 1163743000444 putative functional site; other site 1163743000445 putative MPT binding site; other site 1163743000446 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 1163743000447 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 1163743000448 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1163743000449 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1163743000450 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 1163743000451 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1163743000452 intersubunit interface [polypeptide binding]; other site 1163743000453 active site 1163743000454 zinc binding site [ion binding]; other site 1163743000455 Na+ binding site [ion binding]; other site 1163743000456 elongation factor P; Validated; Region: PRK00529 1163743000457 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1163743000458 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 1163743000459 RNA binding site [nucleotide binding]; other site 1163743000460 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 1163743000461 RNA binding site [nucleotide binding]; other site 1163743000462 pseudaminic acid synthase; Region: PseI; TIGR03586 1163743000463 NeuB family; Region: NeuB; pfam03102 1163743000464 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1163743000465 NeuB binding interface [polypeptide binding]; other site 1163743000466 putative substrate binding site [chemical binding]; other site 1163743000467 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163743000468 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163743000469 Walker A/P-loop; other site 1163743000470 ATP binding site [chemical binding]; other site 1163743000471 Q-loop/lid; other site 1163743000472 ABC transporter signature motif; other site 1163743000473 Walker B; other site 1163743000474 D-loop; other site 1163743000475 H-loop/switch region; other site 1163743000476 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 1163743000477 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 1163743000478 active site 1163743000479 catalytic triad [active] 1163743000480 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1163743000481 Colicin V production protein; Region: Colicin_V; pfam02674 1163743000482 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1163743000483 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 1163743000484 dimer interface [polypeptide binding]; other site 1163743000485 putative anticodon binding site; other site 1163743000486 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 1163743000487 motif 1; other site 1163743000488 active site 1163743000489 motif 2; other site 1163743000490 motif 3; other site 1163743000491 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 1163743000492 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 1163743000493 dimer interface [polypeptide binding]; other site 1163743000494 active site 1163743000495 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1163743000496 folate binding site [chemical binding]; other site 1163743000497 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cd00525 1163743000498 nucleotide binding site [chemical binding]; other site 1163743000499 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 1163743000500 TIGR00645 family protein; Region: HI0507 1163743000501 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1163743000502 putative active site [active] 1163743000503 catalytic site [active] 1163743000504 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1163743000505 PLD-like domain; Region: PLDc_2; pfam13091 1163743000506 putative active site [active] 1163743000507 catalytic site [active] 1163743000508 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 1163743000509 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1163743000510 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 1163743000511 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 1163743000512 L-aspartate oxidase; Provisional; Region: PRK06175 1163743000513 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1163743000514 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 1163743000515 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 1163743000516 Iron-sulfur protein interface; other site 1163743000517 proximal heme binding site [chemical binding]; other site 1163743000518 distal heme binding site [chemical binding]; other site 1163743000519 dimer interface [polypeptide binding]; other site 1163743000520 triosephosphate isomerase; Provisional; Region: PRK14567 1163743000521 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 1163743000522 substrate binding site [chemical binding]; other site 1163743000523 dimer interface [polypeptide binding]; other site 1163743000524 catalytic triad [active] 1163743000525 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 1163743000526 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1163743000527 NAD binding site [chemical binding]; other site 1163743000528 homotetramer interface [polypeptide binding]; other site 1163743000529 homodimer interface [polypeptide binding]; other site 1163743000530 substrate binding site [chemical binding]; other site 1163743000531 active site 1163743000532 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 1163743000533 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1163743000534 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 1163743000535 trimer interface [polypeptide binding]; other site 1163743000536 active site 1163743000537 UDP-GlcNAc binding site [chemical binding]; other site 1163743000538 lipid binding site [chemical binding]; lipid-binding site 1163743000539 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1163743000540 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1163743000541 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1163743000542 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1163743000543 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 1163743000544 active site 1163743000545 multimer interface [polypeptide binding]; other site 1163743000546 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1163743000547 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 1163743000548 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 1163743000549 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 1163743000550 dimer interface [polypeptide binding]; other site 1163743000551 active site 1163743000552 CoA binding pocket [chemical binding]; other site 1163743000553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743000554 AAA domain; Region: AAA_21; pfam13304 1163743000555 Walker A/P-loop; other site 1163743000556 ATP binding site [chemical binding]; other site 1163743000557 AAA domain; Region: AAA_21; pfam13304 1163743000558 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1163743000559 Walker B; other site 1163743000560 D-loop; other site 1163743000561 H-loop/switch region; other site 1163743000562 antiporter inner membrane protein; Provisional; Region: PRK11670 1163743000563 Domain of unknown function DUF59; Region: DUF59; cl00941 1163743000564 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 1163743000565 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743000566 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 1163743000567 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743000568 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 1163743000569 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743000570 heat shock protein 90; Provisional; Region: PRK05218 1163743000571 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 1163743000572 ATP binding site [chemical binding]; other site 1163743000573 Mg2+ binding site [ion binding]; other site 1163743000574 G-X-G motif; other site 1163743000575 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743000576 Sel1-like repeats; Region: SEL1; smart00671 1163743000577 Sel1-like repeats; Region: SEL1; smart00671 1163743000578 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 1163743000579 TPR motif; other site 1163743000580 binding surface 1163743000581 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1163743000582 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1163743000583 metal binding site [ion binding]; metal-binding site 1163743000584 dimer interface [polypeptide binding]; other site 1163743000585 glucose-inhibited division protein A; Region: gidA; TIGR00136 1163743000586 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163743000587 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1163743000588 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1163743000589 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1163743000590 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 1163743000591 transmembrane helices; other site 1163743000592 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1163743000593 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1163743000594 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 1163743000595 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1163743000596 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1163743000597 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1163743000598 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1163743000599 substrate binding site [chemical binding]; other site 1163743000600 Helix-turn-helix domain; Region: HTH_28; pfam13518 1163743000601 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 1163743000602 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1163743000603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163743000604 catalytic residue [active] 1163743000605 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 1163743000606 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1163743000607 trimerization site [polypeptide binding]; other site 1163743000608 active site 1163743000609 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1163743000610 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1163743000611 DNA repair protein RadA; Region: sms; TIGR00416 1163743000612 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 1163743000613 Walker A motif/ATP binding site; other site 1163743000614 ATP binding site [chemical binding]; other site 1163743000615 Walker B motif; other site 1163743000616 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163743000617 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 1163743000618 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1163743000619 SelR domain; Region: SelR; pfam01641 1163743000620 Predicted permeases [General function prediction only]; Region: COG0730 1163743000621 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000622 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1163743000623 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1163743000624 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1163743000625 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000626 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1163743000627 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1163743000628 Ligand binding site; other site 1163743000629 oligomer interface; other site 1163743000630 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1163743000631 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1163743000632 hypothetical protein; Provisional; Region: PRK04081 1163743000633 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1163743000634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1163743000635 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743000636 Sel1-like repeats; Region: SEL1; smart00671 1163743000637 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 1163743000638 binding surface 1163743000639 TPR motif; other site 1163743000640 Sel1-like repeats; Region: SEL1; smart00671 1163743000641 Sel1-like repeats; Region: SEL1; smart00671 1163743000642 Cytochrome c; Region: Cytochrom_C; cl11414 1163743000643 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 1163743000644 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 1163743000645 domain interfaces; other site 1163743000646 active site 1163743000647 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 1163743000648 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 1163743000649 dimer interface [polypeptide binding]; other site 1163743000650 motif 1; other site 1163743000651 active site 1163743000652 motif 2; other site 1163743000653 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 1163743000654 putative deacylase active site [active] 1163743000655 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 1163743000656 active site 1163743000657 motif 3; other site 1163743000658 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 1163743000659 anticodon binding site; other site 1163743000660 glutamyl-tRNA reductase; Region: hemA; TIGR01035 1163743000661 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1163743000662 tRNA; other site 1163743000663 putative tRNA binding site [nucleotide binding]; other site 1163743000664 putative NADP binding site [chemical binding]; other site 1163743000665 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1163743000666 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163743000667 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163743000668 substrate binding pocket [chemical binding]; other site 1163743000669 chain length determination region; other site 1163743000670 substrate-Mg2+ binding site; other site 1163743000671 catalytic residues [active] 1163743000672 aspartate-rich region 1; other site 1163743000673 active site lid residues [active] 1163743000674 aspartate-rich region 2; other site 1163743000675 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 1163743000676 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1163743000677 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1163743000678 dimerization interface [polypeptide binding]; other site 1163743000679 DPS ferroxidase diiron center [ion binding]; other site 1163743000680 ion pore; other site 1163743000681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163743000682 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 1163743000683 dimer interface [polypeptide binding]; other site 1163743000684 phosphorylation site [posttranslational modification] 1163743000685 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 1163743000686 ATP binding site [chemical binding]; other site 1163743000687 Mg2+ binding site [ion binding]; other site 1163743000688 G-X-G motif; other site 1163743000689 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1163743000690 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1163743000691 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1163743000692 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 1163743000693 ATP binding site [chemical binding]; other site 1163743000694 Mg++ binding site [ion binding]; other site 1163743000695 motif III; other site 1163743000696 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 1163743000697 nucleotide binding region [chemical binding]; other site 1163743000698 ATP-binding site [chemical binding]; other site 1163743000699 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1163743000700 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1163743000701 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 1163743000702 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1163743000703 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163743000704 Walker A/P-loop; other site 1163743000705 ATP binding site [chemical binding]; other site 1163743000706 Q-loop/lid; other site 1163743000707 ABC transporter signature motif; other site 1163743000708 Walker B; other site 1163743000709 D-loop; other site 1163743000710 H-loop/switch region; other site 1163743000711 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163743000712 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163743000713 Walker A/P-loop; other site 1163743000714 ATP binding site [chemical binding]; other site 1163743000715 Q-loop/lid; other site 1163743000716 ABC transporter signature motif; other site 1163743000717 Walker B; other site 1163743000718 D-loop; other site 1163743000719 H-loop/switch region; other site 1163743000720 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1163743000721 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1163743000722 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 1163743000723 dimer interface [polypeptide binding]; other site 1163743000724 conserved gate region; other site 1163743000725 putative PBP binding loops; other site 1163743000726 ABC-ATPase subunit interface; other site 1163743000727 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000728 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000729 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1163743000730 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 1163743000731 GDP-binding site [chemical binding]; other site 1163743000732 ACT binding site; other site 1163743000733 IMP binding site; other site 1163743000734 Flagellar FliJ protein; Region: FliJ; pfam02050 1163743000735 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1163743000736 RIP metalloprotease RseP; Region: TIGR00054 1163743000737 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 1163743000738 active site 1163743000739 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 1163743000740 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1163743000741 putative substrate binding region [chemical binding]; other site 1163743000742 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 1163743000743 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 1163743000744 generic binding surface II; other site 1163743000745 generic binding surface I; other site 1163743000746 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163743000747 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743000748 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743000749 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163743000750 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743000751 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1163743000752 Clp amino terminal domain; Region: Clp_N; pfam02861 1163743000753 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 1163743000754 Walker A motif; other site 1163743000755 ATP binding site [chemical binding]; other site 1163743000756 Walker B motif; other site 1163743000757 arginine finger; other site 1163743000758 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 1163743000759 Walker A motif; other site 1163743000760 ATP binding site [chemical binding]; other site 1163743000761 Walker B motif; other site 1163743000762 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1163743000763 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1163743000764 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 1163743000765 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 1163743000766 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 1163743000767 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 1163743000768 active site 1163743000769 chlorohydrolase; Provisional; Region: PRK08418 1163743000770 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 1163743000771 active site 1163743000772 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163743000773 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 1163743000774 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 1163743000775 FeS/SAM binding site; other site 1163743000776 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1163743000777 putative acyl-acceptor binding pocket; other site 1163743000778 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1163743000779 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1163743000780 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1163743000781 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1163743000782 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163743000783 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 1163743000784 putative active site [active] 1163743000785 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1163743000786 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1163743000787 putative acyl-acceptor binding pocket; other site 1163743000788 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1163743000789 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1163743000790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 1163743000791 TrkA-C domain; Region: TrkA_C; pfam02080 1163743000792 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1163743000793 active site 1163743000794 dimer interface [polypeptide binding]; other site 1163743000795 metal binding site [ion binding]; metal-binding site 1163743000796 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163743000797 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163743000798 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 1163743000799 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163743000800 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 1163743000801 FeS/SAM binding site; other site 1163743000802 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 1163743000803 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 1163743000804 Walker A motif; other site 1163743000805 ATP binding site [chemical binding]; other site 1163743000806 Walker B motif; other site 1163743000807 arginine finger; other site 1163743000808 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 1163743000809 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743000810 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743000811 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163743000812 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743000813 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163743000814 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1163743000815 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1163743000816 active site 1163743000817 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163743000818 substrate binding site [chemical binding]; other site 1163743000819 catalytic residues [active] 1163743000820 dimer interface [polypeptide binding]; other site 1163743000821 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 1163743000822 Uncharacterized conserved protein [Function unknown]; Region: COG4866 1163743000823 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1163743000824 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1163743000825 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 1163743000826 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1163743000827 substrate-cofactor binding pocket; other site 1163743000828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743000829 catalytic residue [active] 1163743000830 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 1163743000831 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1163743000832 multimer interface [polypeptide binding]; other site 1163743000833 active site 1163743000834 catalytic triad [active] 1163743000835 dimer interface [polypeptide binding]; other site 1163743000836 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 1163743000837 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163743000838 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1163743000839 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1163743000840 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1163743000841 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1163743000842 peptide binding site [polypeptide binding]; other site 1163743000843 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1163743000844 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 1163743000845 dimer interface [polypeptide binding]; other site 1163743000846 conserved gate region; other site 1163743000847 putative PBP binding loops; other site 1163743000848 ABC-ATPase subunit interface; other site 1163743000849 dipeptide transporter; Provisional; Region: PRK10913 1163743000850 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1163743000851 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 1163743000852 dimer interface [polypeptide binding]; other site 1163743000853 conserved gate region; other site 1163743000854 putative PBP binding loops; other site 1163743000855 ABC-ATPase subunit interface; other site 1163743000856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163743000857 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 1163743000858 Walker A/P-loop; other site 1163743000859 ATP binding site [chemical binding]; other site 1163743000860 Q-loop/lid; other site 1163743000861 ABC transporter signature motif; other site 1163743000862 Walker B; other site 1163743000863 D-loop; other site 1163743000864 H-loop/switch region; other site 1163743000865 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1163743000866 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1163743000867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1163743000868 Walker A/P-loop; other site 1163743000869 ATP binding site [chemical binding]; other site 1163743000870 Q-loop/lid; other site 1163743000871 ABC transporter signature motif; other site 1163743000872 Walker B; other site 1163743000873 D-loop; other site 1163743000874 H-loop/switch region; other site 1163743000875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1163743000876 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1163743000877 GTP1/OBG; Region: GTP1_OBG; pfam01018 1163743000878 Obg GTPase; Region: Obg; cd01898 1163743000879 G1 box; other site 1163743000880 GTP/Mg2+ binding site [chemical binding]; other site 1163743000881 Switch I region; other site 1163743000882 G2 box; other site 1163743000883 G3 box; other site 1163743000884 Switch II region; other site 1163743000885 G4 box; other site 1163743000886 G5 box; other site 1163743000887 Alginate lyase; Region: Alginate_lyase; pfam05426 1163743000888 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1163743000889 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 1163743000890 inhibitor-cofactor binding pocket; inhibition site 1163743000891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743000892 catalytic residue [active] 1163743000893 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 1163743000894 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1163743000895 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1163743000896 active site 1163743000897 catalytic triad [active] 1163743000898 dimer interface [polypeptide binding]; other site 1163743000899 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 1163743000900 active site 1163743000901 catalytic site [active] 1163743000902 Zn binding site [ion binding]; other site 1163743000903 tetramer interface [polypeptide binding]; other site 1163743000904 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1163743000905 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1163743000906 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1163743000907 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1163743000908 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 1163743000909 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163743000910 putative substrate translocation pore; other site 1163743000911 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 1163743000912 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1163743000913 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1163743000914 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 1163743000915 arginyl-tRNA synthetase; Region: argS; TIGR00456 1163743000916 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1163743000917 active site 1163743000918 HIGH motif; other site 1163743000919 KMSK motif region; other site 1163743000920 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163743000921 tRNA binding surface [nucleotide binding]; other site 1163743000922 anticodon binding site; other site 1163743000923 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1163743000924 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1163743000925 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 1163743000926 catalytic site [active] 1163743000927 G-X2-G-X-G-K; other site 1163743000928 nuclease NucT; Provisional; Region: PRK13912 1163743000929 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 1163743000930 putative active site [active] 1163743000931 catalytic site [active] 1163743000932 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743000933 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1163743000934 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1163743000935 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1163743000936 ligand binding site; other site 1163743000937 tetramer interface; other site 1163743000938 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 1163743000939 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 1163743000940 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1163743000941 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1163743000942 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1163743000943 NAD synthetase; Provisional; Region: PRK13980 1163743000944 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 1163743000945 homodimer interface [polypeptide binding]; other site 1163743000946 NAD binding pocket [chemical binding]; other site 1163743000947 ATP binding pocket [chemical binding]; other site 1163743000948 Mg binding site [ion binding]; other site 1163743000949 active-site loop [active] 1163743000950 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1163743000951 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1163743000952 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1163743000953 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1163743000954 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 1163743000955 Switch I; other site 1163743000956 Switch II; other site 1163743000957 cell division topological specificity factor MinE; Region: minE; TIGR01215 1163743000958 DNA protecting protein DprA; Region: dprA; TIGR00732 1163743000959 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1163743000960 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1163743000961 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743000962 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 1163743000963 binding surface 1163743000964 TPR motif; other site 1163743000965 Sel1-like repeats; Region: SEL1; smart00671 1163743000966 Sel1-like repeats; Region: SEL1; smart00671 1163743000967 conjugal transfer mating pair stabilization protein TraG; Provisional; Region: PRK13735 1163743000968 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163743000969 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163743000970 active site 1163743000971 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1163743000972 DHH family; Region: DHH; pfam01368 1163743000973 DHHA1 domain; Region: DHHA1; pfam02272 1163743000974 CTP synthetase; Validated; Region: pyrG; PRK05380 1163743000975 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 1163743000976 Catalytic site [active] 1163743000977 active site 1163743000978 UTP binding site [chemical binding]; other site 1163743000979 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1163743000980 active site 1163743000981 putative oxyanion hole; other site 1163743000982 catalytic triad [active] 1163743000983 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 1163743000984 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1163743000985 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1163743000986 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1163743000987 FliG C-terminal domain; Region: FliG_C; pfam01706 1163743000988 flagellar assembly protein H; Validated; Region: fliH; PRK06669 1163743000989 Flagellar assembly protein FliH; Region: FliH; pfam02108 1163743000990 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 1163743000991 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 1163743000992 TPP-binding site; other site 1163743000993 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 1163743000994 PYR/PP interface [polypeptide binding]; other site 1163743000995 dimer interface [polypeptide binding]; other site 1163743000996 TPP binding site [chemical binding]; other site 1163743000997 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163743000998 GTP-binding protein LepA; Provisional; Region: PRK05433 1163743000999 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1163743001000 G1 box; other site 1163743001001 putative GEF interaction site [polypeptide binding]; other site 1163743001002 GTP/Mg2+ binding site [chemical binding]; other site 1163743001003 Switch I region; other site 1163743001004 G2 box; other site 1163743001005 G3 box; other site 1163743001006 Switch II region; other site 1163743001007 G4 box; other site 1163743001008 G5 box; other site 1163743001009 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 1163743001010 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 1163743001011 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1163743001012 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1163743001013 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 1163743001014 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1163743001015 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1163743001016 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 1163743001017 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1163743001018 TspO/MBR family; Region: TspO_MBR; cl01379 1163743001019 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1163743001020 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1163743001021 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 1163743001022 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1163743001023 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 1163743001024 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 1163743001025 TPP-binding site [chemical binding]; other site 1163743001026 dimer interface [polypeptide binding]; other site 1163743001027 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 1163743001028 PYR/PP interface [polypeptide binding]; other site 1163743001029 dimer interface [polypeptide binding]; other site 1163743001030 TPP binding site [chemical binding]; other site 1163743001031 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163743001032 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1163743001033 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 1163743001034 active site 1163743001035 Riboflavin kinase; Region: Flavokinase; pfam01687 1163743001036 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 1163743001037 hemolysin TlyA family protein; Region: tly; TIGR00478 1163743001038 RNA binding surface [nucleotide binding]; other site 1163743001039 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 1163743001040 S-adenosylmethionine binding site [chemical binding]; other site 1163743001041 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1163743001042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1163743001043 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1163743001044 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743001045 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163743001046 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1163743001047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743001048 Walker A/P-loop; other site 1163743001049 ATP binding site [chemical binding]; other site 1163743001050 Q-loop/lid; other site 1163743001051 ABC transporter signature motif; other site 1163743001052 Walker B; other site 1163743001053 D-loop; other site 1163743001054 H-loop/switch region; other site 1163743001055 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163743001056 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 1163743001057 Restriction endonuclease; Region: Mrr_cat; pfam04471 1163743001058 Predicted ATPases [General function prediction only]; Region: COG1106 1163743001059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743001060 Walker A/P-loop; other site 1163743001061 ATP binding site [chemical binding]; other site 1163743001062 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1163743001063 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 1163743001064 active site 1163743001065 Zn binding site [ion binding]; other site 1163743001066 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 1163743001067 metal-binding site [ion binding] 1163743001068 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 1163743001069 metal-binding site [ion binding] 1163743001070 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1163743001071 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163743001072 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 1163743001073 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163743001074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1163743001075 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 1163743001076 FtsH Extracellular; Region: FtsH_ext; pfam06480 1163743001077 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1163743001078 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 1163743001079 Walker A motif; other site 1163743001080 ATP binding site [chemical binding]; other site 1163743001081 Walker B motif; other site 1163743001082 arginine finger; other site 1163743001083 Peptidase family M41; Region: Peptidase_M41; pfam01434 1163743001084 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 1163743001085 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 1163743001086 S-adenosylmethionine binding site [chemical binding]; other site 1163743001087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163743001088 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 1163743001089 active site 1163743001090 phosphorylation site [posttranslational modification] 1163743001091 intermolecular recognition site; other site 1163743001092 dimerization interface [polypeptide binding]; other site 1163743001093 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001094 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 1163743001095 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 1163743001096 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1163743001097 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1163743001098 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1163743001099 sec-independent translocase; Provisional; Region: PRK04098 1163743001100 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1163743001101 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 1163743001102 Walker A motif; other site 1163743001103 ATP binding site [chemical binding]; other site 1163743001104 Walker B motif; other site 1163743001105 arginine finger; other site 1163743001106 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1163743001107 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 1163743001108 oligomerization interface [polypeptide binding]; other site 1163743001109 active site 1163743001110 metal binding site [ion binding]; metal-binding site 1163743001111 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001112 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001113 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163743001114 septum formation inhibitor; Reviewed; Region: minC; PRK00556 1163743001115 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1163743001116 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 1163743001117 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1163743001118 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1163743001119 homoserine kinase; Region: thrB; TIGR00191 1163743001120 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1163743001121 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 1163743001122 putative RNA binding cleft [nucleotide binding]; other site 1163743001123 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1163743001124 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1163743001125 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1163743001126 G1 box; other site 1163743001127 putative GEF interaction site [polypeptide binding]; other site 1163743001128 GTP/Mg2+ binding site [chemical binding]; other site 1163743001129 Switch I region; other site 1163743001130 G2 box; other site 1163743001131 G3 box; other site 1163743001132 Switch II region; other site 1163743001133 G4 box; other site 1163743001134 G5 box; other site 1163743001135 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 1163743001136 Translation-initiation factor 2; Region: IF-2; pfam11987 1163743001137 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 1163743001138 Ribosome-binding factor A; Region: RBFA; cl00542 1163743001139 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 1163743001140 Sm and related proteins; Region: Sm_like; cl00259 1163743001141 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1163743001142 putative oligomer interface [polypeptide binding]; other site 1163743001143 putative RNA binding site [nucleotide binding]; other site 1163743001144 acetyl-CoA synthetase; Provisional; Region: PRK00174 1163743001145 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1163743001146 active site 1163743001147 CoA binding site [chemical binding]; other site 1163743001148 acyl-activating enzyme (AAE) consensus motif; other site 1163743001149 AMP binding site [chemical binding]; other site 1163743001150 acetate binding site [chemical binding]; other site 1163743001151 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 1163743001152 putative active site [active] 1163743001153 putative metal binding site [ion binding]; other site 1163743001154 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163743001155 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163743001156 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 1163743001157 active site 1163743001158 intermolecular recognition site; other site 1163743001159 dimerization interface [polypeptide binding]; other site 1163743001160 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 1163743001161 DNA binding site [nucleotide binding] 1163743001162 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 1163743001163 DHH family; Region: DHH; pfam01368 1163743001164 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 1163743001165 FHIPEP family; Region: FHIPEP; pfam00771 1163743001166 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 1163743001167 16S/18S rRNA binding site [nucleotide binding]; other site 1163743001168 S13e-L30e interaction site [polypeptide binding]; other site 1163743001169 25S rRNA binding site [nucleotide binding]; other site 1163743001170 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1163743001171 O-Antigen ligase; Region: Wzy_C; pfam04932 1163743001172 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1163743001173 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 1163743001174 trimer interface [polypeptide binding]; other site 1163743001175 active site 1163743001176 dimer interface [polypeptide binding]; other site 1163743001177 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1163743001178 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1163743001179 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 1163743001180 active site 1163743001181 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 1163743001182 catalytic center binding site [active] 1163743001183 ATP binding site [chemical binding]; other site 1163743001184 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1163743001185 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 1163743001186 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1163743001187 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 1163743001188 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 1163743001189 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1163743001190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1163743001191 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 1163743001192 DNA binding residues [nucleotide binding] 1163743001193 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1163743001194 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1163743001195 flagellar motor switch protein FliY; Validated; Region: PRK08432 1163743001196 flagellar motor switch protein FliN; Region: fliN; TIGR02480 1163743001197 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1163743001198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1163743001199 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1163743001200 metal binding site 2 [ion binding]; metal-binding site 1163743001201 putative DNA binding helix; other site 1163743001202 metal binding site 1 [ion binding]; metal-binding site 1163743001203 dimer interface [polypeptide binding]; other site 1163743001204 structural Zn2+ binding site [ion binding]; other site 1163743001205 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 1163743001206 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 1163743001207 Walker A motif; other site 1163743001208 ATP binding site [chemical binding]; other site 1163743001209 Walker B motif; other site 1163743001210 arginine finger; other site 1163743001211 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1163743001212 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 1163743001213 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1163743001214 DNA binding residues [nucleotide binding] 1163743001215 putative dimer interface [polypeptide binding]; other site 1163743001216 chaperone protein DnaJ; Provisional; Region: PRK14299 1163743001217 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 1163743001218 HSP70 interaction site [polypeptide binding]; other site 1163743001219 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163743001220 substrate binding site [polypeptide binding]; other site 1163743001221 dimer interface [polypeptide binding]; other site 1163743001222 5'-3' exonuclease; Provisional; Region: PRK14976 1163743001223 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 1163743001224 putative active site [active] 1163743001225 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 1163743001226 DNA binding site [nucleotide binding] 1163743001227 metal binding site [ion binding]; metal-binding site 1163743001228 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163743001229 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 1163743001230 active site 1163743001231 dimerization interface [polypeptide binding]; other site 1163743001232 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1163743001233 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1163743001234 substrate binding site; other site 1163743001235 dimer interface; other site 1163743001236 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 1163743001237 homotrimer interaction site [polypeptide binding]; other site 1163743001238 zinc binding site [ion binding]; other site 1163743001239 CDP-binding sites; other site 1163743001240 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1163743001241 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1163743001242 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 1163743001243 protein binding site [polypeptide binding]; other site 1163743001244 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 1163743001245 protein binding site [polypeptide binding]; other site 1163743001246 S-methylmethionine transporter; Provisional; Region: PRK11387 1163743001247 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 1163743001248 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 1163743001249 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 1163743001250 putative NAD(P) binding site [chemical binding]; other site 1163743001251 active site 1163743001252 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1163743001253 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1163743001254 dimer interface [polypeptide binding]; other site 1163743001255 active site 1163743001256 catalytic residue [active] 1163743001257 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163743001258 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163743001259 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163743001260 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 1163743001261 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 1163743001262 quinone interaction residues [chemical binding]; other site 1163743001263 active site 1163743001264 catalytic residues [active] 1163743001265 FMN binding site [chemical binding]; other site 1163743001266 substrate binding site [chemical binding]; other site 1163743001267 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1163743001268 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1163743001269 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1163743001270 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1163743001271 putative domain interface [polypeptide binding]; other site 1163743001272 putative active site [active] 1163743001273 catalytic site [active] 1163743001274 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1163743001275 putative active site [active] 1163743001276 putative domain interface [polypeptide binding]; other site 1163743001277 catalytic site [active] 1163743001278 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163743001279 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163743001280 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1163743001281 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163743001282 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1163743001283 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1163743001284 ATP binding site [chemical binding]; other site 1163743001285 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1163743001286 putative Mg++ binding site [ion binding]; other site 1163743001287 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1163743001288 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163743001289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 1163743001290 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1163743001291 putative metal binding site [ion binding]; other site 1163743001292 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 1163743001293 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1163743001294 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1163743001295 active site 1163743001296 Zn binding site [ion binding]; other site 1163743001297 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163743001298 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163743001299 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001300 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 1163743001301 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 1163743001302 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1163743001303 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 1163743001304 dimer interface [polypeptide binding]; other site 1163743001305 conserved gate region; other site 1163743001306 putative PBP binding loops; other site 1163743001307 ABC-ATPase subunit interface; other site 1163743001308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743001309 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1163743001310 Walker A/P-loop; other site 1163743001311 ATP binding site [chemical binding]; other site 1163743001312 Q-loop/lid; other site 1163743001313 ABC transporter signature motif; other site 1163743001314 Walker B; other site 1163743001315 D-loop; other site 1163743001316 H-loop/switch region; other site 1163743001317 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1163743001318 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163743001319 active site 1163743001320 HIGH motif; other site 1163743001321 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163743001322 active site 1163743001323 KMSKS motif; other site 1163743001324 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001325 Helix-turn-helix domain; Region: HTH_17; pfam12728 1163743001326 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1163743001327 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163743001328 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1163743001329 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163743001330 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 1163743001331 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1163743001332 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1163743001333 G1 box; other site 1163743001334 putative GEF interaction site [polypeptide binding]; other site 1163743001335 GTP/Mg2+ binding site [chemical binding]; other site 1163743001336 Switch I region; other site 1163743001337 G2 box; other site 1163743001338 G3 box; other site 1163743001339 Switch II region; other site 1163743001340 G4 box; other site 1163743001341 G5 box; other site 1163743001342 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 1163743001343 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 1163743001344 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 1163743001345 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 1163743001346 GIY-YIG motif/motif A; other site 1163743001347 DNA binding site [nucleotide binding] 1163743001348 active site 1163743001349 catalytic site [active] 1163743001350 metal binding site [ion binding]; metal-binding site 1163743001351 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 1163743001352 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 1163743001353 cofactor binding site; other site 1163743001354 DNA binding site [nucleotide binding] 1163743001355 substrate interaction site [chemical binding]; other site 1163743001356 potential frameshift: common BLAST hit: gi|254779149|ref|YP_003057254.1| non-functional type II restriction endonuclease 1163743001357 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1163743001358 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1163743001359 putative heme binding pocket [chemical binding]; other site 1163743001360 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743001361 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743001362 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163743001363 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1163743001364 LabA_like proteins; Region: LabA_like; cd06167 1163743001365 putative metal binding site [ion binding]; other site 1163743001366 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 1163743001367 active site 1163743001368 putative DNA-binding cleft [nucleotide binding]; other site 1163743001369 dimer interface [polypeptide binding]; other site 1163743001370 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1163743001371 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 1163743001372 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 1163743001373 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1163743001374 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1163743001375 tetramer interface [polypeptide binding]; other site 1163743001376 heme binding pocket [chemical binding]; other site 1163743001377 NADPH binding site [chemical binding]; other site 1163743001378 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1163743001379 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1163743001380 PhnA protein; Region: PhnA; pfam03831 1163743001381 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 1163743001382 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 1163743001383 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163743001384 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163743001385 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1163743001386 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163743001387 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 1163743001388 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 1163743001389 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1163743001390 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 1163743001391 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1163743001392 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1163743001393 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1163743001394 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163743001395 trimer interface [polypeptide binding]; other site 1163743001396 active site 1163743001397 PQQ-like domain; Region: PQQ_2; pfam13360 1163743001398 pantothenate kinase; Reviewed; Region: PRK13333 1163743001399 Uncharacterized conserved protein [Function unknown]; Region: COG2836 1163743001400 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1163743001401 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 1163743001402 active site 1163743001403 motif I; other site 1163743001404 motif II; other site 1163743001405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163743001406 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 1163743001407 NAD(P) binding site [chemical binding]; other site 1163743001408 active site 1163743001409 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 1163743001410 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 1163743001411 putative ribose interaction site [chemical binding]; other site 1163743001412 putative ADP binding site [chemical binding]; other site 1163743001413 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1163743001414 active site 1163743001415 nucleotide binding site [chemical binding]; other site 1163743001416 HIGH motif; other site 1163743001417 KMSKS motif; other site 1163743001418 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1163743001419 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 1163743001420 dimer interface [polypeptide binding]; other site 1163743001421 active site 1163743001422 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1163743001423 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 1163743001424 active site 1163743001425 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1163743001426 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743001427 Walker A/P-loop; other site 1163743001428 ATP binding site [chemical binding]; other site 1163743001429 Q-loop/lid; other site 1163743001430 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163743001431 ABC transporter; Region: ABC_tran_2; pfam12848 1163743001432 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1163743001433 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 1163743001434 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 1163743001435 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163743001436 active site 1163743001437 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 1163743001438 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1163743001439 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 1163743001440 S-adenosylmethionine binding site [chemical binding]; other site 1163743001441 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163743001442 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163743001443 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1163743001444 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163743001445 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 1163743001446 ATP binding site [chemical binding]; other site 1163743001447 putative Mg++ binding site [ion binding]; other site 1163743001448 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 1163743001449 substrate binding site [chemical binding]; other site 1163743001450 multimerization interface [polypeptide binding]; other site 1163743001451 ATP binding site [chemical binding]; other site 1163743001452 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 1163743001453 dimer interface [polypeptide binding]; other site 1163743001454 substrate binding site [chemical binding]; other site 1163743001455 ATP binding site [chemical binding]; other site 1163743001456 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 1163743001457 thiamine phosphate binding site [chemical binding]; other site 1163743001458 active site 1163743001459 pyrophosphate binding site [ion binding]; other site 1163743001460 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 1163743001461 Flavoprotein; Region: Flavoprotein; pfam02441 1163743001462 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1163743001463 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 1163743001464 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1163743001465 NAD(P) binding site [chemical binding]; other site 1163743001466 homodimer interface [polypeptide binding]; other site 1163743001467 substrate binding site [chemical binding]; other site 1163743001468 active site 1163743001469 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 1163743001470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1163743001471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 1163743001472 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 1163743001473 IHF dimer interface [polypeptide binding]; other site 1163743001474 IHF - DNA interface [nucleotide binding]; other site 1163743001475 GTP-binding protein Der; Reviewed; Region: PRK00093 1163743001476 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1163743001477 G1 box; other site 1163743001478 GTP/Mg2+ binding site [chemical binding]; other site 1163743001479 Switch I region; other site 1163743001480 G2 box; other site 1163743001481 Switch II region; other site 1163743001482 G3 box; other site 1163743001483 G4 box; other site 1163743001484 G5 box; other site 1163743001485 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1163743001486 G1 box; other site 1163743001487 GTP/Mg2+ binding site [chemical binding]; other site 1163743001488 Switch I region; other site 1163743001489 G2 box; other site 1163743001490 G3 box; other site 1163743001491 Switch II region; other site 1163743001492 G4 box; other site 1163743001493 G5 box; other site 1163743001494 spermidine synthase; Provisional; Region: speE; PRK00536 1163743001495 spermidine synthase; Provisional; Region: PRK00811 1163743001496 dephospho-CoA kinase; Region: TIGR00152 1163743001497 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 1163743001498 CoA-binding site [chemical binding]; other site 1163743001499 ATP-binding [chemical binding]; other site 1163743001500 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 1163743001501 indole acetimide hydrolase; Validated; Region: PRK07488 1163743001502 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1163743001503 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 1163743001504 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 1163743001505 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 1163743001506 active site 1163743001507 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1163743001508 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1163743001509 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 1163743001510 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 1163743001511 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1163743001512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163743001513 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163743001514 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 1163743001515 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1163743001516 catalytic residues [active] 1163743001517 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 1163743001518 homoserine dehydrogenase; Provisional; Region: PRK06349 1163743001519 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1163743001520 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1163743001521 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 1163743001522 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 1163743001523 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1163743001524 GIY-YIG motif/motif A; other site 1163743001525 active site 1163743001526 catalytic site [active] 1163743001527 putative DNA binding site [nucleotide binding]; other site 1163743001528 metal binding site [ion binding]; metal-binding site 1163743001529 UvrB/uvrC motif; Region: UVR; pfam02151 1163743001530 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1163743001531 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163743001532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743001533 Walker A/P-loop; other site 1163743001534 ATP binding site [chemical binding]; other site 1163743001535 Q-loop/lid; other site 1163743001536 ABC transporter signature motif; other site 1163743001537 Walker B; other site 1163743001538 D-loop; other site 1163743001539 H-loop/switch region; other site 1163743001540 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 1163743001541 dimer interface [polypeptide binding]; other site 1163743001542 conserved gate region; other site 1163743001543 ABC-ATPase subunit interface; other site 1163743001544 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1163743001545 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 1163743001546 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163743001547 ligand binding site [chemical binding]; other site 1163743001548 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1163743001549 flagellar motor protein MotA; Validated; Region: PRK08456 1163743001550 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 1163743001551 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 1163743001552 ATP binding site [chemical binding]; other site 1163743001553 substrate interface [chemical binding]; other site 1163743001554 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163743001555 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1163743001556 RNA methyltransferase, RsmD family; Region: TIGR00095 1163743001557 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1163743001558 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 1163743001559 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 1163743001560 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1163743001561 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 1163743001562 N-terminal plug; other site 1163743001563 ligand-binding site [chemical binding]; other site 1163743001564 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1163743001565 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 1163743001566 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1163743001567 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 1163743001568 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1163743001569 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 1163743001570 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 1163743001571 dimerization interface [polypeptide binding]; other site 1163743001572 active site 1163743001573 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1163743001574 MoaE interaction surface [polypeptide binding]; other site 1163743001575 MoeB interaction surface [polypeptide binding]; other site 1163743001576 thiocarboxylated glycine; other site 1163743001577 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 1163743001578 MoaE homodimer interface [polypeptide binding]; other site 1163743001579 MoaD interaction [polypeptide binding]; other site 1163743001580 active site residues [active] 1163743001581 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 1163743001582 MPT binding site; other site 1163743001583 trimer interface [polypeptide binding]; other site 1163743001584 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 1163743001585 trimer interface [polypeptide binding]; other site 1163743001586 dimer interface [polypeptide binding]; other site 1163743001587 putative active site [active] 1163743001588 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163743001589 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001590 trigger factor; Provisional; Region: tig; PRK01490 1163743001591 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163743001592 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1163743001593 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1163743001594 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1163743001595 oligomer interface [polypeptide binding]; other site 1163743001596 active site residues [active] 1163743001597 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 1163743001598 active site 1163743001599 catalytic residues [active] 1163743001600 metal binding site [ion binding]; metal-binding site 1163743001601 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1163743001602 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1163743001603 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163743001604 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1163743001605 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; cl00207 1163743001606 metal-binding site [ion binding] 1163743001607 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 1163743001608 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163743001609 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163743001610 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 1163743001611 cofactor binding site; other site 1163743001612 DNA binding site [nucleotide binding] 1163743001613 substrate interaction site [chemical binding]; other site 1163743001614 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 1163743001615 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743001616 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1163743001617 FtsX-like permease family; Region: FtsX; pfam02687 1163743001618 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1163743001619 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1163743001620 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 1163743001621 nucleotide binding region [chemical binding]; other site 1163743001622 ATP-binding site [chemical binding]; other site 1163743001623 SEC-C motif; Region: SEC-C; pfam02810 1163743001624 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1163743001625 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1163743001626 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743001627 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 1163743001628 aconitate hydratase 2; Region: acnB; TIGR00117 1163743001629 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 1163743001630 substrate binding site [chemical binding]; other site 1163743001631 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1163743001632 substrate binding site [chemical binding]; other site 1163743001633 ligand binding site [chemical binding]; other site 1163743001634 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 1163743001635 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 1163743001636 putative nucleotide binding site [chemical binding]; other site 1163743001637 uridine monophosphate binding site [chemical binding]; other site 1163743001638 homohexameric interface [polypeptide binding]; other site 1163743001639 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 1163743001640 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 1163743001641 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163743001642 Zn2+ binding site [ion binding]; other site 1163743001643 Mg2+ binding site [ion binding]; other site 1163743001644 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1163743001645 synthetase active site [active] 1163743001646 NTP binding site [chemical binding]; other site 1163743001647 metal binding site [ion binding]; metal-binding site 1163743001648 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 1163743001649 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1163743001650 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1163743001651 active site 1163743001652 HIGH motif; other site 1163743001653 dimer interface [polypeptide binding]; other site 1163743001654 KMSKS motif; other site 1163743001655 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 1163743001656 RNA binding surface [nucleotide binding]; other site 1163743001657 Nitronate monooxygenase; Region: NMO; pfam03060 1163743001658 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 1163743001659 FMN binding site [chemical binding]; other site 1163743001660 substrate binding site [chemical binding]; other site 1163743001661 putative catalytic residue [active] 1163743001662 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1163743001663 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 1163743001664 active site 1163743001665 metal binding site [ion binding]; metal-binding site 1163743001666 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 1163743001667 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1163743001668 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1163743001669 GTP binding site; other site 1163743001670 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1163743001671 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 1163743001672 FeS/SAM binding site; other site 1163743001673 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1163743001674 LabA_like proteins; Region: LabA_like; cd06167 1163743001675 putative metal binding site [ion binding]; other site 1163743001676 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1163743001677 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 1163743001678 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 1163743001679 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1163743001680 phosphodiesterase; Provisional; Region: PRK12704 1163743001681 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cd00105 1163743001682 nucleic acid binding region [nucleotide binding]; other site 1163743001683 G-X-X-G motif; other site 1163743001684 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1163743001685 Zn2+ binding site [ion binding]; other site 1163743001686 Mg2+ binding site [ion binding]; other site 1163743001687 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1163743001688 putative efflux protein, MATE family; Region: matE; TIGR00797 1163743001689 Predicted permease [General function prediction only]; Region: COG2056 1163743001690 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1163743001691 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1163743001692 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 1163743001693 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 1163743001694 putative active site; other site 1163743001695 catalytic triad [active] 1163743001696 putative dimer interface [polypeptide binding]; other site 1163743001697 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 1163743001698 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 1163743001699 putative ATP binding site [chemical binding]; other site 1163743001700 putative substrate interface [chemical binding]; other site 1163743001701 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 1163743001702 flagellar capping protein; Validated; Region: fliD; PRK08453 1163743001703 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1163743001704 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1163743001705 flagellar protein FlaG; Provisional; Region: PRK08452 1163743001706 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163743001707 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163743001708 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1163743001709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1163743001710 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1163743001711 Walker A/P-loop; other site 1163743001712 ATP binding site [chemical binding]; other site 1163743001713 Q-loop/lid; other site 1163743001714 ABC transporter signature motif; other site 1163743001715 Walker B; other site 1163743001716 D-loop; other site 1163743001717 H-loop/switch region; other site 1163743001718 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 1163743001719 S-adenosylmethionine binding site [chemical binding]; other site 1163743001720 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 1163743001721 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 1163743001722 Interdomain contacts; other site 1163743001723 Cytokine receptor motif; other site 1163743001724 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 1163743001725 Interdomain contacts; other site 1163743001726 Cytokine receptor motif; other site 1163743001727 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 1163743001728 Interdomain contacts; other site 1163743001729 Cytokine receptor motif; other site 1163743001730 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163743001731 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 1163743001732 RNA binding surface [nucleotide binding]; other site 1163743001733 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163743001734 active site 1163743001735 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1163743001736 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1163743001737 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1163743001738 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163743001739 active site 1163743001740 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 1163743001741 nucleotide binding site/active site [active] 1163743001742 HIT family signature motif; other site 1163743001743 catalytic residue [active] 1163743001744 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1163743001745 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163743001746 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1163743001747 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1163743001748 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1163743001749 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163743001750 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1163743001751 tetramer interfaces [polypeptide binding]; other site 1163743001752 binuclear metal-binding site [ion binding]; other site 1163743001753 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 1163743001754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163743001755 catalytic residue [active] 1163743001756 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 1163743001757 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163743001758 active site 1163743001759 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 1163743001760 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1163743001761 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 1163743001762 FeS/SAM binding site; other site 1163743001763 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163743001764 G1 box; other site 1163743001765 GTP/Mg2+ binding site [chemical binding]; other site 1163743001766 G2 box; other site 1163743001767 Switch I region; other site 1163743001768 G3 box; other site 1163743001769 Switch II region; other site 1163743001770 G4 box; other site 1163743001771 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1163743001772 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 1163743001773 Ligand Binding Site [chemical binding]; other site 1163743001774 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1163743001775 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 1163743001776 FMN binding site [chemical binding]; other site 1163743001777 active site 1163743001778 catalytic residues [active] 1163743001779 substrate binding site [chemical binding]; other site 1163743001780 potential frameshift: common BLAST hit: gi|308184508|ref|YP_003928641.1| outer membrane protein SabA 1163743001781 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1163743001782 active site 1163743001783 homodimer interface [polypeptide binding]; other site 1163743001784 homotetramer interface [polypeptide binding]; other site 1163743001785 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 1163743001786 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1163743001787 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001788 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163743001789 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 1163743001790 Lysine efflux permease [General function prediction only]; Region: COG1279 1163743001791 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 1163743001792 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 1163743001793 Walker A motif; other site 1163743001794 ATP binding site [chemical binding]; other site 1163743001795 Walker B motif; other site 1163743001796 arginine finger; other site 1163743001797 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1163743001798 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1163743001799 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1163743001800 Walker A/P-loop; other site 1163743001801 ATP binding site [chemical binding]; other site 1163743001802 Q-loop/lid; other site 1163743001803 ABC transporter signature motif; other site 1163743001804 Walker B; other site 1163743001805 D-loop; other site 1163743001806 H-loop/switch region; other site 1163743001807 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1163743001808 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1163743001809 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1163743001810 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1163743001811 Fic family protein [Function unknown]; Region: COG3177 1163743001812 Fic/DOC family; Region: Fic; pfam02661 1163743001813 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1163743001814 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1163743001815 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001816 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1163743001817 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1163743001818 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 1163743001819 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001820 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1163743001821 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163743001822 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1163743001823 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1163743001824 Response regulator receiver domain; Region: Response_reg; pfam00072 1163743001825 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 1163743001826 active site 1163743001827 phosphorylation site [posttranslational modification] 1163743001828 intermolecular recognition site; other site 1163743001829 dimerization interface [polypeptide binding]; other site 1163743001830 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 1163743001831 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163743001832 Walker A motif; other site 1163743001833 ATP binding site [chemical binding]; other site 1163743001834 Walker B motif; other site 1163743001835 arginine finger; other site 1163743001836 DNA gyrase subunit A; Validated; Region: PRK05560 1163743001837 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 1163743001838 CAP-like domain; other site 1163743001839 active site 1163743001840 primary dimer interface [polypeptide binding]; other site 1163743001841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001845 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001846 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1163743001847 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1163743001848 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 1163743001849 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 1163743001850 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1163743001851 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 1163743001852 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 1163743001853 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1163743001854 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1163743001855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 1163743001856 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 1163743001857 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1163743001858 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 1163743001859 putative acyltransferase; Provisional; Region: PRK05790 1163743001860 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1163743001861 dimer interface [polypeptide binding]; other site 1163743001862 active site 1163743001863 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 1163743001864 active site 1163743001865 catalytic site [active] 1163743001866 substrate binding site [chemical binding]; other site 1163743001867 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 1163743001868 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1163743001869 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1163743001870 G1 box; other site 1163743001871 GTP/Mg2+ binding site [chemical binding]; other site 1163743001872 Switch I region; other site 1163743001873 G2 box; other site 1163743001874 G3 box; other site 1163743001875 Switch II region; other site 1163743001876 G4 box; other site 1163743001877 G5 box; other site 1163743001878 Nucleoside recognition; Region: Gate; pfam07670 1163743001879 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1163743001880 Nucleoside recognition; Region: Gate; pfam07670 1163743001881 potential frameshift: common BLAST hit: gi|254779330|ref|YP_003057435.1| Iron(III) dicitrate transport protein FecA 1163743001882 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1163743001883 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 1163743001884 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1163743001885 Substrate binding site; other site 1163743001886 Mg++ binding site; other site 1163743001887 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 1163743001888 active site 1163743001889 substrate binding site [chemical binding]; other site 1163743001890 CoA binding site [chemical binding]; other site 1163743001891 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 1163743001892 ATP cone domain; Region: ATP-cone; pfam03477 1163743001893 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1163743001894 active site 1163743001895 dimer interface [polypeptide binding]; other site 1163743001896 catalytic residues [active] 1163743001897 effector binding site; other site 1163743001898 R2 peptide binding site; other site 1163743001899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1163743001900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1163743001901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1163743001902 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1163743001903 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1163743001904 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1163743001905 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 1163743001906 DNA binding site [nucleotide binding] 1163743001907 active site 1163743001908 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 1163743001909 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 1163743001910 active site 1163743001911 DNA binding site [nucleotide binding] 1163743001912 Int/Topo IB signature motif; other site 1163743001913 aspartate aminotransferase; Provisional; Region: PRK05764 1163743001914 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 1163743001915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743001916 homodimer interface [polypeptide binding]; other site 1163743001917 catalytic residue [active] 1163743001918 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743001919 Predicted helicase [General function prediction only]; Region: COG4889 1163743001920 Restriction endonuclease; Region: Mrr_cat; pfam04471 1163743001921 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 1163743001922 ATP binding site [chemical binding]; other site 1163743001923 putative Mg++ binding site [ion binding]; other site 1163743001924 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 1163743001925 nucleotide binding region [chemical binding]; other site 1163743001926 ATP-binding site [chemical binding]; other site 1163743001927 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1163743001928 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 1163743001929 Cysteine-rich domain; Region: CCG; pfam02754 1163743001930 Cysteine-rich domain; Region: CCG; pfam02754 1163743001931 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 1163743001932 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 1163743001933 FeS/SAM binding site; other site 1163743001934 HemN C-terminal domain; Region: HemN_C; pfam06969 1163743001935 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 1163743001936 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1163743001937 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1163743001938 Tetramer interface [polypeptide binding]; other site 1163743001939 active site 1163743001940 FMN-binding site [chemical binding]; other site 1163743001941 ribonuclease III; Reviewed; Region: rnc; PRK00102 1163743001942 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 1163743001943 dimerization interface [polypeptide binding]; other site 1163743001944 active site 1163743001945 metal binding site [ion binding]; metal-binding site 1163743001946 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 1163743001947 dsRNA binding site [nucleotide binding]; other site 1163743001948 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1163743001949 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163743001950 active site 1163743001951 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 1163743001952 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 1163743001953 SurA N-terminal domain; Region: SurA_N; pfam09312 1163743001954 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1163743001955 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1163743001956 GatB domain; Region: GatB_Yqey; smart00845 1163743001957 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1163743001958 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1163743001959 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1163743001960 hypothetical protein; Provisional; Region: PRK08445 1163743001961 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 1163743001962 FeS/SAM binding site; other site 1163743001963 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 1163743001964 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163743001965 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163743001966 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163743001967 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1163743001968 Surface antigen; Region: Bac_surface_Ag; pfam01103 1163743001969 hypothetical protein; Provisional; Region: PRK08444 1163743001970 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 1163743001971 FeS/SAM binding site; other site 1163743001972 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1163743001973 Ferritin-like domain; Region: Ferritin; pfam00210 1163743001974 ferroxidase diiron center [ion binding]; other site 1163743001975 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1163743001976 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 1163743001977 motif II; other site 1163743001978 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 1163743001979 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 1163743001980 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 1163743001981 putative uracil binding site [chemical binding]; other site 1163743001982 putative active site [active] 1163743001983 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1163743001984 Aspartase; Region: Aspartase; cd01357 1163743001985 active sites [active] 1163743001986 tetramer interface [polypeptide binding]; other site 1163743001987 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1163743001988 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 1163743001989 hinge; other site 1163743001990 active site 1163743001991 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1163743001992 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1163743001993 active site 1163743001994 tetramer interface; other site 1163743001995 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1163743001996 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 1163743001997 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163743001998 catalytic residue [active] 1163743001999 YGGT family; Region: YGGT; pfam02325 1163743002000 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 1163743002001 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163743002002 active site 1163743002003 HIGH motif; other site 1163743002004 nucleotide binding site [chemical binding]; other site 1163743002005 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1163743002006 active site 1163743002007 KMSKS motif; other site 1163743002008 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 1163743002009 dimer interface [polypeptide binding]; other site 1163743002010 FMN binding site [chemical binding]; other site 1163743002011 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1163743002012 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1163743002013 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1163743002014 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1163743002015 active site 1163743002016 NTP binding site [chemical binding]; other site 1163743002017 metal binding triad [ion binding]; metal-binding site 1163743002018 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1163743002019 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 1163743002020 Ligand Binding Site [chemical binding]; other site 1163743002021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002022 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 1163743002023 nickel binding site [ion binding]; other site 1163743002024 putative substrate-binding site; other site 1163743002025 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 1163743002026 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1163743002027 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 1163743002028 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1163743002029 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1163743002030 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1163743002031 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743002032 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743002033 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163743002034 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743002035 Sel1-like repeats; Region: SEL1; smart00671 1163743002036 Sel1-like repeats; Region: SEL1; smart00671 1163743002037 Sel1 repeat; Region: Sel1; cl02723 1163743002038 Sel1-like repeats; Region: SEL1; smart00671 1163743002039 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 1163743002040 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 1163743002041 putative trimer interface [polypeptide binding]; other site 1163743002042 putative CoA binding site [chemical binding]; other site 1163743002043 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1163743002044 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163743002045 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1163743002046 hypothetical protein; Provisional; Region: PRK05839 1163743002047 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 1163743002048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743002049 homodimer interface [polypeptide binding]; other site 1163743002050 catalytic residue [active] 1163743002051 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 1163743002052 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1163743002053 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163743002054 MutS2 family protein; Region: mutS2; TIGR01069 1163743002055 MutS domain III; Region: MutS_III; cl17822 1163743002056 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 1163743002057 Walker A/P-loop; other site 1163743002058 ATP binding site [chemical binding]; other site 1163743002059 Q-loop/lid; other site 1163743002060 ABC transporter signature motif; other site 1163743002061 Walker B; other site 1163743002062 D-loop; other site 1163743002063 H-loop/switch region; other site 1163743002064 Smr domain; Region: Smr; pfam01713 1163743002065 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 1163743002066 dimer interface [polypeptide binding]; other site 1163743002067 substrate binding site [chemical binding]; other site 1163743002068 metal binding sites [ion binding]; metal-binding site 1163743002069 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 1163743002070 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 1163743002071 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 1163743002072 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 1163743002073 adenylate kinase; Reviewed; Region: adk; PRK00279 1163743002074 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 1163743002075 AMP-binding site [chemical binding]; other site 1163743002076 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1163743002077 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1163743002078 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 1163743002079 dimer interface [polypeptide binding]; other site 1163743002080 anticodon binding site; other site 1163743002081 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 1163743002082 homodimer interface [polypeptide binding]; other site 1163743002083 motif 1; other site 1163743002084 active site 1163743002085 motif 2; other site 1163743002086 GAD domain; Region: GAD; pfam02938 1163743002087 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 1163743002088 active site 1163743002089 motif 3; other site 1163743002090 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 1163743002091 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163743002092 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 1163743002093 active site 1163743002094 phosphorylation site [posttranslational modification] 1163743002095 intermolecular recognition site; other site 1163743002096 dimerization interface [polypeptide binding]; other site 1163743002097 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1163743002098 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 1163743002099 nucleotide binding pocket [chemical binding]; other site 1163743002100 K-X-D-G motif; other site 1163743002101 catalytic site [active] 1163743002102 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1163743002103 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1163743002104 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 1163743002105 Dimer interface [polypeptide binding]; other site 1163743002106 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1163743002107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743002108 Walker A/P-loop; other site 1163743002109 ATP binding site [chemical binding]; other site 1163743002110 Q-loop/lid; other site 1163743002111 ABC transporter signature motif; other site 1163743002112 Walker B; other site 1163743002113 D-loop; other site 1163743002114 H-loop/switch region; other site 1163743002115 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163743002116 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002117 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002118 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002119 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002120 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163743002121 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002122 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163743002123 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002124 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 1163743002125 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163743002126 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163743002127 Outer membrane efflux protein; Region: OEP; pfam02321 1163743002128 Outer membrane efflux protein; Region: OEP; pfam02321 1163743002129 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 1163743002130 substrate binding site [chemical binding]; other site 1163743002131 active site 1163743002132 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 1163743002133 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163743002134 minor groove reading motif; other site 1163743002135 helix-hairpin-helix signature motif; other site 1163743002136 active site 1163743002137 flagellin A; Reviewed; Region: PRK12584 1163743002138 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1163743002139 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163743002140 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1163743002141 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1163743002142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743002143 ABC transporter; Region: ABC_tran; pfam00005 1163743002144 Q-loop/lid; other site 1163743002145 ABC transporter signature motif; other site 1163743002146 Walker B; other site 1163743002147 D-loop; other site 1163743002148 H-loop/switch region; other site 1163743002149 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1163743002150 dimer interface [polypeptide binding]; other site 1163743002151 putative CheW interface [polypeptide binding]; other site 1163743002152 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1163743002153 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 1163743002154 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 1163743002155 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163743002156 catalytic residue [active] 1163743002157 Transglycosylase; Region: Transgly; pfam00912 1163743002158 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1163743002159 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1163743002160 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 1163743002161 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1163743002162 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 1163743002163 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 1163743002164 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 1163743002165 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 1163743002166 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 1163743002167 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 1163743002168 TPP-binding site [chemical binding]; other site 1163743002169 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 1163743002170 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 1163743002171 dimer interface [polypeptide binding]; other site 1163743002172 PYR/PP interface [polypeptide binding]; other site 1163743002173 TPP binding site [chemical binding]; other site 1163743002174 substrate binding site [chemical binding]; other site 1163743002175 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 1163743002176 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1163743002177 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1163743002178 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1163743002179 dimerization interface [polypeptide binding]; other site 1163743002180 Protein of unknown function; Region: DUF3971; pfam13116 1163743002181 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 1163743002182 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 1163743002183 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1163743002184 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1163743002185 minor groove reading motif; other site 1163743002186 helix-hairpin-helix signature motif; other site 1163743002187 substrate binding pocket [chemical binding]; other site 1163743002188 active site 1163743002189 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1163743002190 flagellar motor switch protein; Validated; Region: PRK08433 1163743002191 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163743002192 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1163743002193 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 1163743002194 active site 1163743002195 substrate binding pocket [chemical binding]; other site 1163743002196 dimer interface [polypeptide binding]; other site 1163743002197 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 1163743002198 BNR repeat-like domain; Region: BNR_2; pfam13088 1163743002199 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1163743002200 Sulfatase; Region: Sulfatase; pfam00884 1163743002201 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 1163743002202 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1163743002203 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1163743002204 homodimer interface [polypeptide binding]; other site 1163743002205 NADP binding site [chemical binding]; other site 1163743002206 substrate binding site [chemical binding]; other site 1163743002207 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 1163743002208 signal peptidase I; Provisional; Region: PRK10861 1163743002209 Catalytic site [active] 1163743002210 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 1163743002211 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 1163743002212 Peptidase family M50; Region: Peptidase_M50; pfam02163 1163743002213 active site 1163743002214 putative substrate binding region [chemical binding]; other site 1163743002215 ribose 5-phosphate isomerase B; Region: rpiB; TIGR01120 1163743002216 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1163743002217 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163743002218 active site 1163743002219 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163743002220 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1163743002221 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 1163743002222 interface (dimer of trimers) [polypeptide binding]; other site 1163743002223 Substrate-binding/catalytic site; other site 1163743002224 Zn-binding sites [ion binding]; other site 1163743002225 GTP-binding protein YchF; Reviewed; Region: PRK09601 1163743002226 YchF GTPase; Region: YchF; cd01900 1163743002227 G1 box; other site 1163743002228 GTP/Mg2+ binding site [chemical binding]; other site 1163743002229 Switch I region; other site 1163743002230 G2 box; other site 1163743002231 Switch II region; other site 1163743002232 G3 box; other site 1163743002233 G4 box; other site 1163743002234 G5 box; other site 1163743002235 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 1163743002236 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 1163743002237 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1163743002238 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1163743002239 diaminopimelate epimerase; Region: DapF; TIGR00652 1163743002240 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163743002241 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1163743002242 Predicted membrane protein [Function unknown]; Region: COG3059 1163743002243 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1163743002244 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1163743002245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1163743002246 NAD(P) binding site [chemical binding]; other site 1163743002247 active site 1163743002248 acyl carrier protein; Provisional; Region: acpP; PRK00982 1163743002249 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 1163743002250 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 1163743002251 dimer interface [polypeptide binding]; other site 1163743002252 active site 1163743002253 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 1163743002254 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1163743002255 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1163743002256 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1163743002257 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1163743002258 Predicted methyltransferases [General function prediction only]; Region: COG0313 1163743002259 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1163743002260 putative SAM binding site [chemical binding]; other site 1163743002261 putative homodimer interface [polypeptide binding]; other site 1163743002262 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 1163743002263 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1163743002264 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 1163743002265 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 1163743002266 RNA binding site [nucleotide binding]; other site 1163743002267 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 1163743002268 multimer interface [polypeptide binding]; other site 1163743002269 Walker A motif; other site 1163743002270 ATP binding site [chemical binding]; other site 1163743002271 Walker B motif; other site 1163743002272 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1163743002273 AAA domain; Region: AAA_12; pfam13087 1163743002274 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1163743002275 potential frameshift: common BLAST hit: gi|210134750|ref|YP_002301189.1| cytotoxin-associated protein A 1163743002276 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1163743002277 AAA domain; Region: AAA_12; pfam13087 1163743002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1163743002279 GTPase [General function prediction only]; Region: Era; COG1159 1163743002280 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1163743002281 G1 box; other site 1163743002282 GTP/Mg2+ binding site [chemical binding]; other site 1163743002283 Switch I region; other site 1163743002284 G2 box; other site 1163743002285 Switch II region; other site 1163743002286 G3 box; other site 1163743002287 G4 box; other site 1163743002288 G5 box; other site 1163743002289 KH domain; Region: KH_2; pfam07650 1163743002290 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1163743002291 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 1163743002292 Walker A motif; other site 1163743002293 ATP binding site [chemical binding]; other site 1163743002294 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 1163743002295 Walker B motif; other site 1163743002296 arginine finger; other site 1163743002297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163743002298 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 1163743002299 active site 1163743002300 HslU subunit interaction site [polypeptide binding]; other site 1163743002301 ribosomal protein L9; Region: L9; TIGR00158 1163743002302 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1163743002303 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1163743002304 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743002305 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743002306 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163743002307 Uncharacterized conserved protein [Function unknown]; Region: COG3586 1163743002308 glutamine synthetase, type I; Region: GlnA; TIGR00653 1163743002309 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1163743002310 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1163743002311 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743002312 Sel1-like repeats; Region: SEL1; smart00671 1163743002313 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 1163743002314 domain III; other site 1163743002315 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 1163743002316 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 1163743002317 Walker A motif; other site 1163743002318 ATP binding site [chemical binding]; other site 1163743002319 Walker B motif; other site 1163743002320 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1163743002321 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 1163743002322 ATP binding site [chemical binding]; other site 1163743002323 Walker A motif; other site 1163743002324 hexamer interface [polypeptide binding]; other site 1163743002325 Walker B motif; other site 1163743002326 CagZ; Region: CagZ; pfam09053 1163743002327 potential frameshift: common BLAST hit: gi|210134729|ref|YP_002301168.1| cag pathogenicity island protein Y VirB10-like protein 1163743002328 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1163743002329 Protein of unknown function (DUF3807); Region: DUF3807; pfam12720 1163743002330 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1163743002331 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1163743002332 VirB7 interaction site; other site 1163743002333 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1163743002334 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 1163743002335 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 1163743002336 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1163743002337 dihydrodipicolinate reductase; Region: dapB; TIGR00036 1163743002338 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1163743002339 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1163743002340 FAD binding domain; Region: FAD_binding_4; pfam01565 1163743002341 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 1163743002342 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 1163743002343 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 1163743002344 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 1163743002345 dimer interface [polypeptide binding]; other site 1163743002346 ADP-ribose binding site [chemical binding]; other site 1163743002347 active site 1163743002348 nudix motif; other site 1163743002349 metal binding site [ion binding]; metal-binding site 1163743002350 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163743002351 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163743002352 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 1163743002353 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1163743002354 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 1163743002355 Mg2+ binding site [ion binding]; other site 1163743002356 G-X-G motif; other site 1163743002357 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 1163743002358 anchoring element; other site 1163743002359 dimer interface [polypeptide binding]; other site 1163743002360 ATP binding site [chemical binding]; other site 1163743002361 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 1163743002362 active site 1163743002363 putative metal-binding site [ion binding]; other site 1163743002364 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1163743002365 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 1163743002366 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 1163743002367 putative DNA binding surface [nucleotide binding]; other site 1163743002368 dimer interface [polypeptide binding]; other site 1163743002369 beta-clamp/translesion DNA polymerase binding surface; other site 1163743002370 beta-clamp/clamp loader binding surface; other site 1163743002371 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; cd00541 1163743002372 dimerization interface [polypeptide binding]; other site 1163743002373 substrate binding site [chemical binding]; other site 1163743002374 active site 1163743002375 calcium binding site [ion binding]; other site 1163743002376 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163743002377 Na2 binding site [ion binding]; other site 1163743002378 putative substrate binding site 1 [chemical binding]; other site 1163743002379 Na binding site 1 [ion binding]; other site 1163743002380 putative substrate binding site 2 [chemical binding]; other site 1163743002381 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1163743002382 Na2 binding site [ion binding]; other site 1163743002383 putative substrate binding site 1 [chemical binding]; other site 1163743002384 Na binding site 1 [ion binding]; other site 1163743002385 putative substrate binding site 2 [chemical binding]; other site 1163743002386 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 1163743002387 active site 1163743002388 Protein of unknown function (DUF493); Region: DUF493; pfam04359 1163743002389 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 1163743002390 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163743002391 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163743002392 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 1163743002393 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 1163743002394 Mg++ binding site [ion binding]; other site 1163743002395 putative catalytic motif [active] 1163743002396 putative substrate binding site [chemical binding]; other site 1163743002397 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163743002398 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1163743002399 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1163743002400 TrkA-N domain; Region: TrkA_N; pfam02254 1163743002401 TrkA-C domain; Region: TrkA_C; pfam02080 1163743002402 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163743002403 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 1163743002404 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 1163743002405 RuvA N terminal domain; Region: RuvA_N; pfam01330 1163743002406 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1163743002407 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1163743002408 MviN-like protein; Region: MVIN; pfam03023 1163743002409 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1163743002410 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163743002411 active site 1163743002412 HIGH motif; other site 1163743002413 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1163743002414 KMSKS motif; other site 1163743002415 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163743002416 tRNA binding surface [nucleotide binding]; other site 1163743002417 anticodon binding site; other site 1163743002418 Vacuolating cyotoxin; Region: VacA; pfam02691 1163743002419 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163743002420 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743002421 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 1163743002422 Ligand binding site; other site 1163743002423 metal-binding site 1163743002424 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1163743002425 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1163743002426 Walker A/P-loop; other site 1163743002427 ATP binding site [chemical binding]; other site 1163743002428 Q-loop/lid; other site 1163743002429 ABC transporter signature motif; other site 1163743002430 Walker B; other site 1163743002431 D-loop; other site 1163743002432 H-loop/switch region; other site 1163743002433 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 1163743002434 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1163743002435 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 1163743002436 ABC-ATPase subunit interface; other site 1163743002437 dimer interface [polypeptide binding]; other site 1163743002438 putative PBP binding regions; other site 1163743002439 short chain dehydrogenase; Validated; Region: PRK06182 1163743002440 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1163743002441 NADP binding site [chemical binding]; other site 1163743002442 active site 1163743002443 steroid binding site; other site 1163743002444 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 1163743002445 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002446 Hydrogenase formation hypA family; Region: HypD; cl12072 1163743002447 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1163743002448 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1163743002449 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 1163743002450 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 1163743002451 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1163743002452 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1163743002453 Acetokinase family; Region: Acetate_kinase; cl17229 1163743002454 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1163743002455 potential frameshift: common BLAST hit: gi|254779508|ref|YP_003057614.1| phosphotransacetylase 1163743002456 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 1163743002457 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 1163743002458 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1163743002459 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 1163743002460 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1163743002461 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1163743002462 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 1163743002463 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163743002464 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1163743002465 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 1163743002466 S-adenosylmethionine binding site [chemical binding]; other site 1163743002467 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163743002468 Part of AAA domain; Region: AAA_19; pfam13245 1163743002469 Family description; Region: UvrD_C_2; pfam13538 1163743002470 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002471 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002472 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743002473 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1163743002474 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 1163743002475 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 1163743002476 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1163743002477 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1163743002478 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163743002479 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163743002480 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1163743002481 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163743002482 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1163743002483 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 1163743002484 IMP binding site; other site 1163743002485 dimer interface [polypeptide binding]; other site 1163743002486 interdomain contacts; other site 1163743002487 partial ornithine binding site; other site 1163743002488 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1163743002489 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1163743002490 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1163743002491 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1163743002492 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163743002493 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002494 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002495 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 1163743002496 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 1163743002497 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1163743002498 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002499 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 1163743002500 active site 1 [active] 1163743002501 dimer interface [polypeptide binding]; other site 1163743002502 hexamer interface [polypeptide binding]; other site 1163743002503 active site 2 [active] 1163743002504 recombination protein RecR; Region: recR; TIGR00615 1163743002505 RecR protein; Region: RecR; pfam02132 1163743002506 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 1163743002507 putative active site [active] 1163743002508 putative metal-binding site [ion binding]; other site 1163743002509 tetramer interface [polypeptide binding]; other site 1163743002510 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 1163743002511 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1163743002512 Permutation of conserved domain; other site 1163743002513 active site 1163743002514 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163743002515 heat shock protein HtpX; Provisional; Region: PRK02870 1163743002516 GTP cyclohydrolase I; Region: folE; TIGR00063 1163743002517 GTP cyclohydrolase I; Provisional; Region: PLN03044 1163743002518 active site 1163743002519 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1163743002520 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1163743002521 substrate binding pocket [chemical binding]; other site 1163743002522 chain length determination region; other site 1163743002523 substrate-Mg2+ binding site; other site 1163743002524 catalytic residues [active] 1163743002525 aspartate-rich region 1; other site 1163743002526 active site lid residues [active] 1163743002527 aspartate-rich region 2; other site 1163743002528 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1163743002529 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1163743002530 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1163743002531 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1163743002532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1163743002533 Coenzyme A binding pocket [chemical binding]; other site 1163743002534 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1163743002535 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002536 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 1163743002537 metabolite-proton symporter; Region: 2A0106; TIGR00883 1163743002538 putative substrate translocation pore; other site 1163743002539 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743002540 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743002541 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 1163743002542 dimer interface [polypeptide binding]; other site 1163743002543 conserved gate region; other site 1163743002544 putative PBP binding loops; other site 1163743002545 ABC-ATPase subunit interface; other site 1163743002546 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163743002547 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 1163743002548 substrate binding pocket [chemical binding]; other site 1163743002549 membrane-bound complex binding site; other site 1163743002550 hinge residues; other site 1163743002551 alanine racemase; Region: alr; TIGR00492 1163743002552 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1163743002553 active site 1163743002554 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163743002555 dimer interface [polypeptide binding]; other site 1163743002556 substrate binding site [chemical binding]; other site 1163743002557 catalytic residues [active] 1163743002558 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1163743002559 amino acid carrier protein; Region: agcS; TIGR00835 1163743002560 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1163743002561 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 1163743002562 homotrimer interaction site [polypeptide binding]; other site 1163743002563 putative active site [active] 1163743002564 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1163743002565 X-domain of DnaJ-containing; Region: DnaJ-X; cl14778 1163743002566 Uncharacterized conserved protein [Function unknown]; Region: COG1576 1163743002567 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 1163743002568 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1163743002569 putative recombination protein RecO; Provisional; Region: PRK13908 1163743002570 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 1163743002571 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 1163743002572 dimer interface [polypeptide binding]; other site 1163743002573 FMN binding site [chemical binding]; other site 1163743002574 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 1163743002575 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1163743002576 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1163743002577 active site 1163743002578 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1163743002579 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1163743002580 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 1163743002581 Putative zinc ribbon domain; Region: DUF164; pfam02591 1163743002582 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 1163743002583 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1163743002584 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 1163743002585 dimer interface [polypeptide binding]; other site 1163743002586 motif 1; other site 1163743002587 active site 1163743002588 motif 2; other site 1163743002589 motif 3; other site 1163743002590 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1163743002591 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1163743002592 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1163743002593 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163743002594 Dynamin family; Region: Dynamin_N; pfam00350 1163743002595 G1 box; other site 1163743002596 GTP/Mg2+ binding site [chemical binding]; other site 1163743002597 G2 box; other site 1163743002598 Switch I region; other site 1163743002599 G3 box; other site 1163743002600 Switch II region; other site 1163743002601 G4 box; other site 1163743002602 G5 box; other site 1163743002603 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 1163743002604 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163743002605 G1 box; other site 1163743002606 GTP/Mg2+ binding site [chemical binding]; other site 1163743002607 G2 box; other site 1163743002608 Switch I region; other site 1163743002609 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1163743002610 G3 box; other site 1163743002611 Switch II region; other site 1163743002612 G4 box; other site 1163743002613 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 1163743002614 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163743002615 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163743002616 Outer membrane efflux protein; Region: OEP; pfam02321 1163743002617 Outer membrane efflux protein; Region: OEP; pfam02321 1163743002618 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 1163743002619 phosphoglyceromutase; Provisional; Region: PRK05434 1163743002620 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1163743002621 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 1163743002622 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1163743002623 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 1163743002624 inhibitor-cofactor binding pocket; inhibition site 1163743002625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743002626 catalytic residue [active] 1163743002627 SurA N-terminal domain; Region: SurA_N_3; cl07813 1163743002628 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 1163743002629 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1163743002630 cell division protein FtsA; Region: ftsA; TIGR01174 1163743002631 Cell division protein FtsA; Region: FtsA; smart00842 1163743002632 Cell division protein FtsA; Region: FtsA; pfam14450 1163743002633 cell division protein FtsZ; Validated; Region: PRK09330 1163743002634 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 1163743002635 nucleotide binding site [chemical binding]; other site 1163743002636 SulA interaction site; other site 1163743002637 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163743002638 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743002639 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743002640 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743002641 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163743002642 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1163743002643 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1163743002644 active site 1163743002645 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163743002646 catalytic residues [active] 1163743002647 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1163743002648 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1163743002649 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 1163743002650 putative ADP-binding pocket [chemical binding]; other site 1163743002651 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1163743002652 active site 2 [active] 1163743002653 active site 1 [active] 1163743002654 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1163743002655 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 1163743002656 S-adenosylmethionine binding site [chemical binding]; other site 1163743002657 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1163743002658 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1163743002659 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1163743002660 active site 1163743002661 HIGH motif; other site 1163743002662 KMSKS motif; other site 1163743002663 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1163743002664 anticodon binding site; other site 1163743002665 tRNA binding surface [nucleotide binding]; other site 1163743002666 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 1163743002667 dimer interface [polypeptide binding]; other site 1163743002668 putative tRNA-binding site [nucleotide binding]; other site 1163743002669 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1163743002670 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 1163743002671 S-adenosylmethionine binding site [chemical binding]; other site 1163743002672 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1163743002673 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1163743002674 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 1163743002675 GMP synthase; Reviewed; Region: guaA; PRK00074 1163743002676 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1163743002677 AMP/PPi binding site [chemical binding]; other site 1163743002678 candidate oxyanion hole; other site 1163743002679 catalytic triad [active] 1163743002680 potential glutamine specificity residues [chemical binding]; other site 1163743002681 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 1163743002682 ATP Binding subdomain [chemical binding]; other site 1163743002683 Ligand Binding sites [chemical binding]; other site 1163743002684 Dimerization subdomain; other site 1163743002685 potential frameshift: common BLAST hit: gi|208434943|ref|YP_002266609.1| biotin sulfoxide reductase 1163743002686 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 1163743002687 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1163743002688 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 1163743002689 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163743002690 catalytic residue [active] 1163743002691 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 1163743002692 nucleotide binding site/active site [active] 1163743002693 HIT family signature motif; other site 1163743002694 catalytic residue [active] 1163743002695 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1163743002696 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1163743002697 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 1163743002698 dimer interface [polypeptide binding]; other site 1163743002699 motif 1; other site 1163743002700 active site 1163743002701 motif 2; other site 1163743002702 motif 3; other site 1163743002703 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1163743002704 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 1163743002705 putative tRNA-binding site [nucleotide binding]; other site 1163743002706 tRNA synthetase B5 domain; Region: B5; pfam03484 1163743002707 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 1163743002708 dimer interface [polypeptide binding]; other site 1163743002709 motif 1; other site 1163743002710 motif 3; other site 1163743002711 motif 2; other site 1163743002712 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1163743002713 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 1163743002714 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1163743002715 hinge; other site 1163743002716 active site 1163743002717 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1163743002718 LytB protein; Region: LYTB; pfam02401 1163743002719 ribosomal protein S1; Region: rpsA; TIGR00717 1163743002720 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 1163743002721 RNA binding site [nucleotide binding]; other site 1163743002722 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1163743002723 RNA binding site [nucleotide binding]; other site 1163743002724 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 1163743002725 RNA binding site [nucleotide binding]; other site 1163743002726 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 1163743002727 RNA binding site [nucleotide binding]; other site 1163743002728 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 1163743002729 RNA binding site [nucleotide binding]; other site 1163743002730 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 1163743002731 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1163743002732 ligand binding site [chemical binding]; other site 1163743002733 NAD binding site [chemical binding]; other site 1163743002734 dimerization interface [polypeptide binding]; other site 1163743002735 catalytic site [active] 1163743002736 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1163743002737 putative L-serine binding site [chemical binding]; other site 1163743002738 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 1163743002739 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1163743002740 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1163743002741 catalytic residue [active] 1163743002742 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1163743002743 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1163743002744 putative active site [active] 1163743002745 putative metal binding site [ion binding]; other site 1163743002746 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1163743002747 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1163743002748 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 1163743002749 active site 1163743002750 phosphorylation site [posttranslational modification] 1163743002751 intermolecular recognition site; other site 1163743002752 dimerization interface [polypeptide binding]; other site 1163743002753 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 1163743002754 putative binding surface; other site 1163743002755 active site 1163743002756 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1163743002757 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1163743002758 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 1163743002759 ATP binding site [chemical binding]; other site 1163743002760 Mg2+ binding site [ion binding]; other site 1163743002761 G-X-G motif; other site 1163743002762 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 1163743002763 Response regulator receiver domain; Region: Response_reg; pfam00072 1163743002764 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 1163743002765 active site 1163743002766 phosphorylation site [posttranslational modification] 1163743002767 intermolecular recognition site; other site 1163743002768 dimerization interface [polypeptide binding]; other site 1163743002769 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 1163743002770 putative CheA interaction surface; other site 1163743002771 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 1163743002772 dimer interface [polypeptide binding]; other site 1163743002773 catalytic triad [active] 1163743002774 peroxidatic and resolving cysteines [active] 1163743002775 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1163743002776 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1163743002777 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1163743002778 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1163743002779 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 1163743002780 S-adenosylmethionine binding site [chemical binding]; other site 1163743002781 primosome assembly protein PriA; Validated; Region: PRK05580 1163743002782 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 1163743002783 ATP binding site [chemical binding]; other site 1163743002784 putative Mg++ binding site [ion binding]; other site 1163743002785 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1163743002786 Sporulation related domain; Region: SPOR; pfam05036 1163743002787 Peptidase family M48; Region: Peptidase_M48; pfam01435 1163743002788 HemK family putative methylases; Region: hemK_fam; TIGR00536 1163743002789 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 1163743002790 glutamate dehydrogenase; Provisional; Region: PRK09414 1163743002791 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1163743002792 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1163743002793 NAD(P) binding site [chemical binding]; other site 1163743002794 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 1163743002795 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 1163743002796 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 1163743002797 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 1163743002798 catalytic residues [active] 1163743002799 ferrochelatase; Region: hemH; TIGR00109 1163743002800 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 1163743002801 C-terminal domain interface [polypeptide binding]; other site 1163743002802 active site 1163743002803 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 1163743002804 active site 1163743002805 N-terminal domain interface [polypeptide binding]; other site 1163743002806 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1163743002807 RNA methyltransferase, RsmE family; Region: TIGR00046 1163743002808 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002809 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1163743002810 trimer interface [polypeptide binding]; other site 1163743002811 active site 1163743002812 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 1163743002813 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 1163743002814 carboxyltransferase (CT) interaction site; other site 1163743002815 biotinylation site [posttranslational modification]; other site 1163743002816 biotin carboxylase; Validated; Region: PRK08462 1163743002817 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1163743002818 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1163743002819 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1163743002820 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163743002821 potential frameshift: common BLAST hit: gi|254779640|ref|YP_003057746.1| type II restriction endonuclease 1163743002822 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1163743002823 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 1163743002824 inhibitor-cofactor binding pocket; inhibition site 1163743002825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743002826 catalytic residue [active] 1163743002827 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1163743002828 dimer interface [polypeptide binding]; other site 1163743002829 putative radical transfer pathway; other site 1163743002830 diiron center [ion binding]; other site 1163743002831 tyrosyl radical; other site 1163743002832 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 1163743002833 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 1163743002834 S-adenosylmethionine binding site [chemical binding]; other site 1163743002835 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163743002836 Predicted permeases [General function prediction only]; Region: COG0795 1163743002837 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 1163743002838 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1163743002839 dimerization interface 3.5A [polypeptide binding]; other site 1163743002840 active site 1163743002841 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 1163743002842 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1163743002843 NAD binding site [chemical binding]; other site 1163743002844 homodimer interface [polypeptide binding]; other site 1163743002845 active site 1163743002846 substrate binding site [chemical binding]; other site 1163743002847 potential protein location (hypothetical protein HPB14_05115 [Helicobacter pylori HUP-B14]) that overlaps RNA (tRNA-I) 1163743002848 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1163743002849 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1163743002850 putative NAD(P) binding site [chemical binding]; other site 1163743002851 homodimer interface [polypeptide binding]; other site 1163743002852 homotetramer interface [polypeptide binding]; other site 1163743002853 active site 1163743002854 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743002855 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 1163743002856 binding surface 1163743002857 TPR motif; other site 1163743002858 Sel1-like repeats; Region: SEL1; smart00671 1163743002859 Sel1-like repeats; Region: SEL1; smart00671 1163743002860 Sel1-like repeats; Region: SEL1; smart00671 1163743002861 Entner-Doudoroff aldolase; Region: eda; TIGR01182 1163743002862 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1163743002863 active site 1163743002864 intersubunit interface [polypeptide binding]; other site 1163743002865 catalytic residue [active] 1163743002866 phosphogluconate dehydratase; Validated; Region: PRK09054 1163743002867 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1163743002868 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 1163743002869 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1163743002870 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1163743002871 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1163743002872 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 1163743002873 putative active site [active] 1163743002874 glucokinase, proteobacterial type; Region: glk; TIGR00749 1163743002875 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1163743002876 nucleotide binding site [chemical binding]; other site 1163743002877 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1163743002878 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1163743002879 putative NAD(P) binding site [chemical binding]; other site 1163743002880 putative substrate binding site [chemical binding]; other site 1163743002881 catalytic Zn binding site [ion binding]; other site 1163743002882 structural Zn binding site [ion binding]; other site 1163743002883 dimer interface [polypeptide binding]; other site 1163743002884 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743002885 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 1163743002886 active site 1163743002887 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743002888 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 1163743002889 active site 1163743002890 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002891 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 1163743002892 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 1163743002893 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 1163743002894 4Fe-4S binding domain; Region: Fer4; pfam00037 1163743002895 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 1163743002896 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 1163743002897 dimer interface [polypeptide binding]; other site 1163743002898 PYR/PP interface [polypeptide binding]; other site 1163743002899 TPP binding site [chemical binding]; other site 1163743002900 substrate binding site [chemical binding]; other site 1163743002901 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1163743002902 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 1163743002903 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 1163743002904 TPP-binding site [chemical binding]; other site 1163743002905 putative dimer interface [polypeptide binding]; other site 1163743002906 adenylosuccinate lyase; Provisional; Region: PRK08470 1163743002907 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1163743002908 tetramer interface [polypeptide binding]; other site 1163743002909 active site 1163743002910 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 1163743002911 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743002912 excinuclease ABC subunit B; Provisional; Region: PRK05298 1163743002913 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 1163743002914 ATP binding site [chemical binding]; other site 1163743002915 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 1163743002916 putative Mg++ binding site [ion binding]; other site 1163743002917 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 1163743002918 nucleotide binding region [chemical binding]; other site 1163743002919 ATP-binding site [chemical binding]; other site 1163743002920 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1163743002921 UvrB/uvrC motif; Region: UVR; pfam02151 1163743002922 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743002923 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 1163743002924 binding surface 1163743002925 TPR motif; other site 1163743002926 Sel1-like repeats; Region: SEL1; smart00671 1163743002927 Sel1-like repeats; Region: SEL1; smart00671 1163743002928 Sel1 repeat; Region: Sel1; cl02723 1163743002929 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1163743002930 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1163743002931 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 1163743002932 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163743002933 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 1163743002934 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1163743002935 cofactor binding site; other site 1163743002936 DNA binding site [nucleotide binding] 1163743002937 substrate interaction site [chemical binding]; other site 1163743002938 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 1163743002939 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1163743002940 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1163743002941 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1163743002942 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1163743002943 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1163743002944 ligand binding site [chemical binding]; other site 1163743002945 translocation protein TolB; Provisional; Region: tolB; PRK04043 1163743002946 TolB amino-terminal domain; Region: TolB_N; pfam04052 1163743002947 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1163743002948 TonB C terminal; Region: TonB_2; pfam13103 1163743002949 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163743002950 TolR protein; Region: tolR; TIGR02801 1163743002951 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1163743002952 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 1163743002953 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1163743002954 gamma subunit interface [polypeptide binding]; other site 1163743002955 epsilon subunit interface [polypeptide binding]; other site 1163743002956 LBP interface [polypeptide binding]; other site 1163743002957 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1163743002958 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163743002959 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 1163743002960 alpha subunit interaction interface [polypeptide binding]; other site 1163743002961 Walker A motif; other site 1163743002962 ATP binding site [chemical binding]; other site 1163743002963 Walker B motif; other site 1163743002964 inhibitor binding site; inhibition site 1163743002965 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163743002966 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1163743002967 core domain interface [polypeptide binding]; other site 1163743002968 delta subunit interface [polypeptide binding]; other site 1163743002969 epsilon subunit interface [polypeptide binding]; other site 1163743002970 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1163743002971 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1163743002972 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 1163743002973 beta subunit interaction interface [polypeptide binding]; other site 1163743002974 Walker A motif; other site 1163743002975 ATP binding site [chemical binding]; other site 1163743002976 Walker B motif; other site 1163743002977 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1163743002978 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 1163743002979 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 1163743002980 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 1163743002981 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1163743002982 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1163743002983 ParB-like nuclease domain; Region: ParB; smart00470 1163743002984 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1163743002985 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 1163743002986 P-loop; other site 1163743002987 Magnesium ion binding site [ion binding]; other site 1163743002988 biotin--protein ligase; Provisional; Region: PRK08477 1163743002989 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1163743002990 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1163743002991 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1163743002992 putative active site [active] 1163743002993 substrate binding site [chemical binding]; other site 1163743002994 putative cosubstrate binding site; other site 1163743002995 catalytic site [active] 1163743002996 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 1163743002997 potential frameshift: common BLAST hit: gi|308184882|ref|YP_003929015.1| ATPase 1163743002998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 1163743002999 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 1163743003000 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1163743003001 LabA_like proteins; Region: LabA_like; cd06167 1163743003002 putative metal binding site [ion binding]; other site 1163743003003 LabA_like proteins; Region: LabA_like/DUF88; cl10034 1163743003004 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1163743003005 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1163743003006 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 1163743003007 RimM N-terminal domain; Region: RimM; pfam01782 1163743003008 PRC-barrel domain; Region: PRC; pfam05239 1163743003009 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1163743003010 KH domain; Region: KH_4; pfam13083 1163743003011 G-X-X-G motif; other site 1163743003012 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1163743003013 signal recognition particle protein; Provisional; Region: PRK10867 1163743003014 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1163743003015 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 1163743003016 P loop; other site 1163743003017 GTP binding site [chemical binding]; other site 1163743003018 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1163743003019 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1163743003020 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163743003021 active site 1163743003022 HIGH motif; other site 1163743003023 nucleotide binding site [chemical binding]; other site 1163743003024 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163743003025 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1163743003026 active site 1163743003027 KMSKS motif; other site 1163743003028 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1163743003029 anticodon binding site; other site 1163743003030 flagellar assembly protein FliW; Provisional; Region: PRK13283 1163743003031 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 1163743003032 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 1163743003033 active site 1163743003034 homodimer interface [polypeptide binding]; other site 1163743003035 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003036 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003037 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1163743003038 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1163743003039 potential frameshift: common BLAST hit: gi|254779709|ref|YP_003057815.1| cAMP-induced cell filamentation protein 1163743003040 metal-binding heat shock protein; Provisional; Region: PRK00016 1163743003041 flavodoxin FldA; Validated; Region: PRK09267 1163743003042 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1163743003043 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1163743003044 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 1163743003045 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1163743003046 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1163743003047 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1163743003048 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163743003049 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1163743003050 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 1163743003051 active site 1163743003052 dimer interface [polypeptide binding]; other site 1163743003053 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 1163743003054 dimer interface [polypeptide binding]; other site 1163743003055 active site 1163743003056 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 1163743003057 carbon starvation protein A; Provisional; Region: PRK15015 1163743003058 Carbon starvation protein CstA; Region: CstA; pfam02554 1163743003059 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1163743003060 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1163743003061 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 1163743003062 dimer interface [polypeptide binding]; other site 1163743003063 conserved gate region; other site 1163743003064 putative PBP binding loops; other site 1163743003065 ABC-ATPase subunit interface; other site 1163743003066 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 1163743003067 dimer interface [polypeptide binding]; other site 1163743003068 conserved gate region; other site 1163743003069 putative PBP binding loops; other site 1163743003070 ABC-ATPase subunit interface; other site 1163743003071 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1163743003072 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1163743003073 Walker A/P-loop; other site 1163743003074 ATP binding site [chemical binding]; other site 1163743003075 Q-loop/lid; other site 1163743003076 ABC transporter signature motif; other site 1163743003077 Walker B; other site 1163743003078 D-loop; other site 1163743003079 H-loop/switch region; other site 1163743003080 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1163743003081 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 1163743003082 substrate binding pocket [chemical binding]; other site 1163743003083 membrane-bound complex binding site; other site 1163743003084 hinge residues; other site 1163743003085 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1163743003086 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 1163743003087 putative substrate translocation pore; other site 1163743003088 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1163743003089 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003090 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 1163743003091 phosphopentomutase; Provisional; Region: PRK05362 1163743003092 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1163743003093 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1163743003094 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1163743003095 Nucleoside recognition; Region: Gate; pfam07670 1163743003096 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1163743003097 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 1163743003098 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1163743003099 putative substrate translocation pore; other site 1163743003100 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1163743003101 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 1163743003102 Ligand Binding Site [chemical binding]; other site 1163743003103 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1163743003104 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1163743003105 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1163743003106 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 1163743003107 putative arabinose transporter; Provisional; Region: PRK03545 1163743003108 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 1163743003109 putative substrate translocation pore; other site 1163743003110 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 1163743003111 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 1163743003112 active site 1163743003113 zinc binding site [ion binding]; other site 1163743003114 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 1163743003115 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 1163743003116 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1163743003117 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1163743003118 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 1163743003119 dimer interface [polypeptide binding]; other site 1163743003120 motif 1; other site 1163743003121 active site 1163743003122 motif 2; other site 1163743003123 motif 3; other site 1163743003124 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 1163743003125 anticodon binding site; other site 1163743003126 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163743003127 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 1163743003128 putative active site [active] 1163743003129 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1163743003130 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1163743003131 active site 1163743003132 catalytic tetrad [active] 1163743003133 elongation factor G; Reviewed; Region: PRK00007 1163743003134 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1163743003135 G1 box; other site 1163743003136 putative GEF interaction site [polypeptide binding]; other site 1163743003137 GTP/Mg2+ binding site [chemical binding]; other site 1163743003138 Switch I region; other site 1163743003139 G2 box; other site 1163743003140 G3 box; other site 1163743003141 Switch II region; other site 1163743003142 G4 box; other site 1163743003143 G5 box; other site 1163743003144 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 1163743003145 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 1163743003146 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 1163743003147 30S ribosomal protein S7; Validated; Region: PRK05302 1163743003148 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 1163743003149 S17 interaction site [polypeptide binding]; other site 1163743003150 S8 interaction site; other site 1163743003151 16S rRNA interaction site [nucleotide binding]; other site 1163743003152 streptomycin interaction site [chemical binding]; other site 1163743003153 23S rRNA interaction site [nucleotide binding]; other site 1163743003154 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1163743003155 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 1163743003156 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 1163743003157 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1163743003158 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 1163743003159 RPB11 interaction site [polypeptide binding]; other site 1163743003160 RPB12 interaction site [polypeptide binding]; other site 1163743003161 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 1163743003162 RPB3 interaction site [polypeptide binding]; other site 1163743003163 RPB1 interaction site [polypeptide binding]; other site 1163743003164 RPB11 interaction site [polypeptide binding]; other site 1163743003165 RPB10 interaction site [polypeptide binding]; other site 1163743003166 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1163743003167 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1163743003168 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1163743003169 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1163743003170 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163743003171 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1163743003172 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1163743003173 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1163743003174 DNA binding site [nucleotide binding] 1163743003175 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1163743003176 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 1163743003177 core dimer interface [polypeptide binding]; other site 1163743003178 peripheral dimer interface [polypeptide binding]; other site 1163743003179 L10 interface [polypeptide binding]; other site 1163743003180 L11 interface [polypeptide binding]; other site 1163743003181 putative EF-Tu interaction site [polypeptide binding]; other site 1163743003182 putative EF-G interaction site [polypeptide binding]; other site 1163743003183 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 1163743003184 23S rRNA interface [nucleotide binding]; other site 1163743003185 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1163743003186 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 1163743003187 mRNA/rRNA interface [nucleotide binding]; other site 1163743003188 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1163743003189 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 1163743003190 23S rRNA interface [nucleotide binding]; other site 1163743003191 L7/L12 interface [polypeptide binding]; other site 1163743003192 putative thiostrepton binding site; other site 1163743003193 L25 interface [polypeptide binding]; other site 1163743003194 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1163743003195 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1163743003196 putative homodimer interface [polypeptide binding]; other site 1163743003197 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1163743003198 heterodimer interface [polypeptide binding]; other site 1163743003199 homodimer interface [polypeptide binding]; other site 1163743003200 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1163743003201 elongation factor Tu; Reviewed; Region: PRK00049 1163743003202 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1163743003203 G1 box; other site 1163743003204 GEF interaction site [polypeptide binding]; other site 1163743003205 GTP/Mg2+ binding site [chemical binding]; other site 1163743003206 Switch I region; other site 1163743003207 G2 box; other site 1163743003208 G3 box; other site 1163743003209 Switch II region; other site 1163743003210 G4 box; other site 1163743003211 G5 box; other site 1163743003212 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 1163743003213 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 1163743003214 Antibiotic Binding Site [chemical binding]; other site 1163743003215 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1163743003216 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1163743003217 Walker A/P-loop; other site 1163743003218 ATP binding site [chemical binding]; other site 1163743003219 Q-loop/lid; other site 1163743003220 ABC transporter signature motif; other site 1163743003221 Walker B; other site 1163743003222 D-loop; other site 1163743003223 H-loop/switch region; other site 1163743003224 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1163743003225 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1163743003226 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 1163743003227 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 1163743003228 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 1163743003229 serine O-acetyltransferase; Region: cysE; TIGR01172 1163743003230 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1163743003231 trimer interface [polypeptide binding]; other site 1163743003232 active site 1163743003233 substrate binding site [chemical binding]; other site 1163743003234 CoA binding site [chemical binding]; other site 1163743003235 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 1163743003236 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1163743003237 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1163743003238 oligomer interface [polypeptide binding]; other site 1163743003239 RNA binding site [nucleotide binding]; other site 1163743003240 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 1163743003241 oligomer interface [polypeptide binding]; other site 1163743003242 RNA binding site [nucleotide binding]; other site 1163743003243 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 1163743003244 putative nucleic acid binding region [nucleotide binding]; other site 1163743003245 G-X-X-G motif; other site 1163743003246 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 1163743003247 RNA binding site [nucleotide binding]; other site 1163743003248 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 1163743003249 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1163743003250 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1163743003251 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1163743003252 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 1163743003253 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1163743003254 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1163743003255 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1163743003256 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1163743003257 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1163743003258 Walker A/P-loop; other site 1163743003259 ATP binding site [chemical binding]; other site 1163743003260 Q-loop/lid; other site 1163743003261 ABC transporter signature motif; other site 1163743003262 Walker B; other site 1163743003263 D-loop; other site 1163743003264 H-loop/switch region; other site 1163743003265 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 1163743003266 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1163743003267 catalytic residue [active] 1163743003268 putative FPP diphosphate binding site; other site 1163743003269 putative FPP binding hydrophobic cleft; other site 1163743003270 dimer interface [polypeptide binding]; other site 1163743003271 putative IPP diphosphate binding site; other site 1163743003272 potential frameshift: common BLAST hit: gi|208435116|ref|YP_002266782.1| D-lactate dehydrogenase 1163743003273 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 1163743003274 active site residue [active] 1163743003275 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1163743003276 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 1163743003277 active site 1163743003278 camphor resistance protein CrcB; Provisional; Region: PRK14204 1163743003279 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 1163743003280 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 1163743003281 FeS/SAM binding site; other site 1163743003282 HemN C-terminal domain; Region: HemN_C; pfam06969 1163743003283 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1163743003284 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 1163743003285 putative active site [active] 1163743003286 Ap4A binding site [chemical binding]; other site 1163743003287 nudix motif; other site 1163743003288 putative metal binding site [ion binding]; other site 1163743003289 aspartate kinase; Reviewed; Region: PRK06635 1163743003290 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 1163743003291 putative nucleotide binding site [chemical binding]; other site 1163743003292 putative catalytic residues [active] 1163743003293 putative Mg ion binding site [ion binding]; other site 1163743003294 putative aspartate binding site [chemical binding]; other site 1163743003295 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 1163743003296 putative allosteric regulatory site; other site 1163743003297 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 1163743003298 putative allosteric regulatory residue; other site 1163743003299 DNA replication regulator; Region: HobA; pfam12163 1163743003300 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1163743003301 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 1163743003302 dihydropteroate synthase; Region: DHPS; TIGR01496 1163743003303 substrate binding pocket [chemical binding]; other site 1163743003304 dimer interface [polypeptide binding]; other site 1163743003305 inhibitor binding site; inhibition site 1163743003306 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1163743003307 EamA-like transporter family; Region: EamA; pfam00892 1163743003308 EamA-like transporter family; Region: EamA; cl17759 1163743003309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 1163743003310 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 1163743003311 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 1163743003312 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1163743003313 catalytic site [active] 1163743003314 subunit interface [polypeptide binding]; other site 1163743003315 formamidase; Provisional; Region: amiF; PRK13287 1163743003316 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 1163743003317 multimer interface [polypeptide binding]; other site 1163743003318 active site 1163743003319 catalytic triad [active] 1163743003320 dimer interface [polypeptide binding]; other site 1163743003321 Maf-like protein; Reviewed; Region: PRK04056 1163743003322 putative active site [active] 1163743003323 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1163743003324 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 1163743003325 motif 1; other site 1163743003326 active site 1163743003327 motif 2; other site 1163743003328 motif 3; other site 1163743003329 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1163743003330 DHHA1 domain; Region: DHHA1; pfam02272 1163743003331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1163743003332 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003333 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1163743003334 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1163743003335 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 1163743003336 dimer interface [polypeptide binding]; other site 1163743003337 ssDNA binding site [nucleotide binding]; other site 1163743003338 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1163743003339 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1163743003340 DNA polymerase III subunit delta; Validated; Region: PRK08487 1163743003341 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1163743003342 Exoribonuclease R [Transcription]; Region: VacB; COG0557 1163743003343 RNB domain; Region: RNB; pfam00773 1163743003344 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1163743003345 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1163743003346 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1163743003347 shikimate binding site; other site 1163743003348 NAD(P) binding site [chemical binding]; other site 1163743003349 Bacterial SH3 domain; Region: SH3_3; pfam08239 1163743003350 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1163743003351 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 1163743003352 dimer interface [polypeptide binding]; other site 1163743003353 conserved gate region; other site 1163743003354 putative PBP binding loops; other site 1163743003355 ABC-ATPase subunit interface; other site 1163743003356 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1163743003357 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 1163743003358 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1163743003359 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1163743003360 active site 1163743003361 HIGH motif; other site 1163743003362 dimer interface [polypeptide binding]; other site 1163743003363 KMSKS motif; other site 1163743003364 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1163743003365 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 1163743003366 S-adenosylmethionine binding site [chemical binding]; other site 1163743003367 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1163743003368 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1163743003369 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 1163743003370 hinge region; other site 1163743003371 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1163743003372 active site 1163743003373 RDD family; Region: RDD; pfam06271 1163743003374 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 1163743003375 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1163743003376 NAD+ binding site [chemical binding]; other site 1163743003377 substrate binding site [chemical binding]; other site 1163743003378 Zn binding site [ion binding]; other site 1163743003379 NADH dehydrogenase subunit A; Validated; Region: PRK08489 1163743003380 NADH dehydrogenase subunit B; Validated; Region: PRK06411 1163743003381 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 1163743003382 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1163743003383 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1163743003384 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 1163743003385 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1163743003386 NADH dehydrogenase subunit G; Validated; Region: PRK08493 1163743003387 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 1163743003388 catalytic loop [active] 1163743003389 iron binding site [ion binding]; other site 1163743003390 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1163743003391 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 1163743003392 molybdopterin cofactor binding site; other site 1163743003393 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 1163743003394 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1163743003395 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1163743003396 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 1163743003397 4Fe-4S binding domain; Region: Fer4; cl02805 1163743003398 4Fe-4S binding domain; Region: Fer4; pfam00037 1163743003399 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 1163743003400 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1163743003401 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1163743003402 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1163743003403 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1163743003404 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163743003405 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1163743003406 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163743003407 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 1163743003408 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1163743003409 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1163743003410 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1163743003411 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 1163743003412 active site 1163743003413 substrate binding site [chemical binding]; other site 1163743003414 metal binding site [ion binding]; metal-binding site 1163743003415 Uncharacterized conserved protein [Function unknown]; Region: COG4278 1163743003416 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1163743003417 Thiamine pyrophosphokinase; Region: TPK; cd07995 1163743003418 active site 1163743003419 dimerization interface [polypeptide binding]; other site 1163743003420 thiamine binding site [chemical binding]; other site 1163743003421 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 1163743003422 thiaminase II; Region: salvage_TenA; TIGR04306 1163743003423 Uncharacterized conserved protein [Function unknown]; Region: COG2353 1163743003424 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 1163743003425 active site 1163743003426 motif I; other site 1163743003427 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1163743003428 motif II; other site 1163743003429 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1163743003430 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 1163743003431 putative active site [active] 1163743003432 anthranilate synthase component I; Provisional; Region: PRK13564 1163743003433 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1163743003434 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1163743003435 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1163743003436 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1163743003437 glutamine binding [chemical binding]; other site 1163743003438 catalytic triad [active] 1163743003439 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1163743003440 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 1163743003441 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1163743003442 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1163743003443 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 1163743003444 active site 1163743003445 ribulose/triose binding site [chemical binding]; other site 1163743003446 phosphate binding site [ion binding]; other site 1163743003447 substrate (anthranilate) binding pocket [chemical binding]; other site 1163743003448 product (indole) binding pocket [chemical binding]; other site 1163743003449 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 1163743003450 active site 1163743003451 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1163743003452 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 1163743003453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1163743003454 catalytic residue [active] 1163743003455 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1163743003456 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 1163743003457 substrate binding site [chemical binding]; other site 1163743003458 active site 1163743003459 catalytic residues [active] 1163743003460 heterodimer interface [polypeptide binding]; other site 1163743003461 Thiamine pyrophosphokinase; Region: TPK; cl08415 1163743003462 thiamine binding site [chemical binding]; other site 1163743003463 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 1163743003464 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1163743003465 alphaNTD homodimer interface [polypeptide binding]; other site 1163743003466 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 1163743003467 alphaNTD - beta interaction site [polypeptide binding]; other site 1163743003468 alphaNTD - beta' interaction site [polypeptide binding]; other site 1163743003469 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1163743003470 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1163743003471 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1163743003472 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 1163743003473 RNA binding surface [nucleotide binding]; other site 1163743003474 30S ribosomal protein S11; Validated; Region: PRK05309 1163743003475 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1163743003476 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1163743003477 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1163743003478 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 1163743003479 rRNA binding site [nucleotide binding]; other site 1163743003480 predicted 30S ribosome binding site; other site 1163743003481 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 1163743003482 active site 1163743003483 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1163743003484 SecY translocase; Region: SecY; pfam00344 1163743003485 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1163743003486 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 1163743003487 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1163743003488 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1163743003489 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 1163743003490 23S rRNA interface [nucleotide binding]; other site 1163743003491 5S rRNA interface [nucleotide binding]; other site 1163743003492 L27 interface [polypeptide binding]; other site 1163743003493 L5 interface [polypeptide binding]; other site 1163743003494 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1163743003495 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1163743003496 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1163743003497 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 1163743003498 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1163743003499 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1163743003500 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1163743003501 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1163743003502 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1163743003503 RNA binding site [nucleotide binding]; other site 1163743003504 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1163743003505 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1163743003506 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 1163743003507 putative translocon interaction site; other site 1163743003508 23S rRNA interface [nucleotide binding]; other site 1163743003509 signal recognition particle (SRP54) interaction site; other site 1163743003510 L23 interface [polypeptide binding]; other site 1163743003511 trigger factor interaction site; other site 1163743003512 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 1163743003513 23S rRNA interface [nucleotide binding]; other site 1163743003514 5S rRNA interface [nucleotide binding]; other site 1163743003515 putative antibiotic binding site [chemical binding]; other site 1163743003516 L25 interface [polypeptide binding]; other site 1163743003517 L27 interface [polypeptide binding]; other site 1163743003518 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1163743003519 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 1163743003520 G-X-X-G motif; other site 1163743003521 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1163743003522 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 1163743003523 putative translocon binding site; other site 1163743003524 protein-rRNA interface [nucleotide binding]; other site 1163743003525 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1163743003526 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1163743003527 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1163743003528 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1163743003529 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1163743003530 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1163743003531 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1163743003532 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1163743003533 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1163743003534 AAA domain; Region: AAA_14; pfam13173 1163743003535 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1163743003536 RNA/DNA hybrid binding site [nucleotide binding]; other site 1163743003537 active site 1163743003538 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1163743003539 Class II fumarases; Region: Fumarase_classII; cd01362 1163743003540 active site 1163743003541 tetramer interface [polypeptide binding]; other site 1163743003542 YtkA-like; Region: YtkA; pfam13115 1163743003543 Outer membrane efflux protein; Region: OEP; pfam02321 1163743003544 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1163743003545 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163743003546 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1163743003547 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 1163743003548 AzlC protein; Region: AzlC; cl00570 1163743003549 chaperone protein DnaJ; Provisional; Region: PRK14288 1163743003550 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 1163743003551 HSP70 interaction site [polypeptide binding]; other site 1163743003552 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1163743003553 substrate binding site [polypeptide binding]; other site 1163743003554 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1163743003555 Zn binding sites [ion binding]; other site 1163743003556 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1163743003557 dimer interface [polypeptide binding]; other site 1163743003558 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1163743003559 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 1163743003560 Ligand Binding Site [chemical binding]; other site 1163743003561 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 1163743003562 HSP70 interaction site [polypeptide binding]; other site 1163743003563 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1163743003564 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1163743003565 active site 1163743003566 (T/H)XGH motif; other site 1163743003567 nickel responsive regulator; Provisional; Region: PRK00630 1163743003568 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1163743003569 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1163743003570 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 1163743003571 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163743003572 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 1163743003573 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1163743003574 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1163743003575 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003576 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1163743003577 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1163743003578 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 1163743003579 Cl binding site [ion binding]; other site 1163743003580 oligomer interface [polypeptide binding]; other site 1163743003581 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 1163743003582 Phosphoglycerate kinase; Region: PGK; pfam00162 1163743003583 substrate binding site [chemical binding]; other site 1163743003584 hinge regions; other site 1163743003585 ADP binding site [chemical binding]; other site 1163743003586 catalytic site [active] 1163743003587 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 1163743003588 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1163743003589 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1163743003590 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1163743003591 ligand binding site [chemical binding]; other site 1163743003592 active site 1163743003593 UGI interface [polypeptide binding]; other site 1163743003594 catalytic site [active] 1163743003595 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1163743003596 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1163743003597 putative acyl-acceptor binding pocket; other site 1163743003598 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1163743003599 C-terminal peptidase (prc); Region: prc; TIGR00225 1163743003600 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 1163743003601 protein binding site [polypeptide binding]; other site 1163743003602 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1163743003603 Catalytic dyad [active] 1163743003604 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1163743003605 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003606 Predicted helicase [General function prediction only]; Region: COG4889 1163743003607 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 1163743003608 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 1163743003609 dimerization interface [polypeptide binding]; other site 1163743003610 active site 1163743003611 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 1163743003612 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 1163743003613 prenyltransferase; Reviewed; Region: ubiA; PRK12874 1163743003614 UbiA prenyltransferase family; Region: UbiA; pfam01040 1163743003615 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1163743003616 Competence protein; Region: Competence; pfam03772 1163743003617 replicative DNA helicase; Provisional; Region: PRK08506 1163743003618 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1163743003619 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 1163743003620 Walker A motif; other site 1163743003621 ATP binding site [chemical binding]; other site 1163743003622 Walker B motif; other site 1163743003623 DNA binding loops [nucleotide binding] 1163743003624 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 1163743003625 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 1163743003626 putative substrate binding site [chemical binding]; other site 1163743003627 putative ATP binding site [chemical binding]; other site 1163743003628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1163743003629 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1163743003630 dimer interface [polypeptide binding]; other site 1163743003631 phosphorylation site [posttranslational modification] 1163743003632 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 1163743003633 ATP binding site [chemical binding]; other site 1163743003634 Mg2+ binding site [ion binding]; other site 1163743003635 G-X-G motif; other site 1163743003636 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1163743003637 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 1163743003638 active site 1163743003639 phosphorylation site [posttranslational modification] 1163743003640 intermolecular recognition site; other site 1163743003641 dimerization interface [polypeptide binding]; other site 1163743003642 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 1163743003643 DNA binding site [nucleotide binding] 1163743003644 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163743003645 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003646 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003647 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 1163743003648 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1163743003649 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163743003650 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003651 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 1163743003652 DNA binding site [nucleotide binding] 1163743003653 Int/Topo IB signature motif; other site 1163743003654 active site 1163743003655 catalytic residues [active] 1163743003656 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1163743003657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1163743003658 Probable transposase; Region: OrfB_IS605; pfam01385 1163743003659 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1163743003660 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 1163743003661 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 1163743003662 DNA binding residues [nucleotide binding] 1163743003663 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 1163743003664 catalytic residues [active] 1163743003665 catalytic nucleophile [active] 1163743003666 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1163743003667 Probable transposase; Region: OrfB_IS605; pfam01385 1163743003668 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 1163743003669 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1163743003670 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 1163743003671 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 1163743003672 Toprim-like; Region: Toprim_2; pfam13155 1163743003673 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 1163743003674 rod shape-determining protein MreC; Region: MreC; pfam04085 1163743003675 rod shape-determining protein MreB; Provisional; Region: PRK13927 1163743003676 MreB and similar proteins; Region: MreB_like; cd10225 1163743003677 nucleotide binding site [chemical binding]; other site 1163743003678 Mg binding site [ion binding]; other site 1163743003679 putative protofilament interaction site [polypeptide binding]; other site 1163743003680 RodZ interaction site [polypeptide binding]; other site 1163743003681 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 1163743003682 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 1163743003683 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 1163743003684 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 1163743003685 Walker A motif; other site 1163743003686 ATP binding site [chemical binding]; other site 1163743003687 Walker B motif; other site 1163743003688 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1163743003689 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1163743003690 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 1163743003691 active site 1163743003692 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 1163743003693 flagellar assembly protein FliW; Provisional; Region: PRK13282 1163743003694 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1163743003695 ATP-dependent protease La; Region: lon; TIGR00763 1163743003696 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 1163743003697 Walker A motif; other site 1163743003698 ATP binding site [chemical binding]; other site 1163743003699 Walker B motif; other site 1163743003700 arginine finger; other site 1163743003701 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1163743003702 prephenate dehydrogenase; Validated; Region: PRK08507 1163743003703 Prephenate dehydrogenase; Region: PDH; pfam02153 1163743003704 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 1163743003705 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1163743003706 active site 1163743003707 substrate binding site [chemical binding]; other site 1163743003708 Mg2+ binding site [ion binding]; other site 1163743003709 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 1163743003710 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163743003711 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003712 DNA methylase; Region: N6_N4_Mtase; pfam01555 1163743003713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 1163743003714 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1163743003715 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 1163743003716 biotin synthase; Provisional; Region: PRK08508 1163743003717 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 1163743003718 FeS/SAM binding site; other site 1163743003719 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1163743003720 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 1163743003721 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743003722 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743003723 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743003724 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163743003725 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 1163743003726 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1163743003727 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1163743003728 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 1163743003729 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1163743003730 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 1163743003731 Ligand binding site; other site 1163743003732 metal-binding site 1163743003733 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 1163743003734 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1163743003735 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1163743003736 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 1163743003737 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 1163743003738 Walker A motif/ATP binding site; other site 1163743003739 Walker B motif; other site 1163743003740 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 1163743003741 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 1163743003742 ATP binding site [chemical binding]; other site 1163743003743 Walker A motif; other site 1163743003744 hexamer interface [polypeptide binding]; other site 1163743003745 Walker B motif; other site 1163743003746 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1163743003747 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1163743003748 active site 1163743003749 HIGH motif; other site 1163743003750 nucleotide binding site [chemical binding]; other site 1163743003751 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1163743003752 active site 1163743003753 KMSKS motif; other site 1163743003754 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1163743003755 tRNA binding surface [nucleotide binding]; other site 1163743003756 anticodon binding site; other site 1163743003757 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1163743003758 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 1163743003759 RNA binding surface [nucleotide binding]; other site 1163743003760 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 1163743003761 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 1163743003762 FeS/SAM binding site; other site 1163743003763 KpsF/GutQ family protein; Region: kpsF; TIGR00393 1163743003764 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 1163743003765 putative active site [active] 1163743003766 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 1163743003767 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1163743003768 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1163743003769 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1163743003770 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1163743003771 dimethyladenosine transferase; Region: ksgA; TIGR00755 1163743003772 S-adenosylmethionine binding site [chemical binding]; other site 1163743003773 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163743003774 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163743003775 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163743003776 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 1163743003777 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1163743003778 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1163743003779 active site 1163743003780 substrate binding site [chemical binding]; other site 1163743003781 cosubstrate binding site; other site 1163743003782 catalytic site [active] 1163743003783 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1163743003784 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1163743003785 tandem repeat interface [polypeptide binding]; other site 1163743003786 oligomer interface [polypeptide binding]; other site 1163743003787 active site residues [active] 1163743003788 TIR domain; Region: TIR_2; pfam13676 1163743003789 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 1163743003790 active site 1163743003791 carbon storage regulator; Provisional; Region: PRK00568 1163743003792 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 1163743003793 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 1163743003794 SmpB-tmRNA interface; other site 1163743003795 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1163743003796 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1163743003797 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1163743003798 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1163743003799 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 1163743003800 hypothetical protein; Provisional; Region: PRK14374 1163743003801 membrane protein insertase; Provisional; Region: PRK01318 1163743003802 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1163743003803 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1163743003804 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1163743003805 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 1163743003806 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1163743003807 GTP/Mg2+ binding site [chemical binding]; other site 1163743003808 G5 box; other site 1163743003809 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1163743003810 G1 box; other site 1163743003811 G1 box; other site 1163743003812 GTP/Mg2+ binding site [chemical binding]; other site 1163743003813 Switch I region; other site 1163743003814 Switch I region; other site 1163743003815 G2 box; other site 1163743003816 G2 box; other site 1163743003817 Switch II region; other site 1163743003818 G3 box; other site 1163743003819 G3 box; other site 1163743003820 Switch II region; other site 1163743003821 G4 box; other site 1163743003822 G5 box; other site 1163743003823 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1163743003824 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003825 LPP20 lipoprotein; Region: LPP20; pfam02169 1163743003826 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1163743003827 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 1163743003828 catalytic residues [active] 1163743003829 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1163743003830 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 1163743003831 RNA binding surface [nucleotide binding]; other site 1163743003832 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1163743003833 active site 1163743003834 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 1163743003835 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1163743003836 active site 1163743003837 PHP Thumb interface [polypeptide binding]; other site 1163743003838 metal binding site [ion binding]; metal-binding site 1163743003839 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 1163743003840 generic binding surface I; other site 1163743003841 generic binding surface II; other site 1163743003842 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1163743003843 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1163743003844 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1163743003845 mce related protein; Region: MCE; pfam02470 1163743003846 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1163743003847 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1163743003848 Walker A/P-loop; other site 1163743003849 ATP binding site [chemical binding]; other site 1163743003850 Q-loop/lid; other site 1163743003851 ABC transporter signature motif; other site 1163743003852 Walker B; other site 1163743003853 D-loop; other site 1163743003854 H-loop/switch region; other site 1163743003855 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1163743003856 conserved hypothetical integral membrane protein; Region: TIGR00056 1163743003857 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003858 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1163743003859 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 1163743003860 homodimer interface [polypeptide binding]; other site 1163743003861 substrate-cofactor binding pocket; other site 1163743003862 catalytic residue [active] 1163743003863 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003864 DNA polymerase I; Region: pola; TIGR00593 1163743003865 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1163743003866 active site 1163743003867 metal binding site 1 [ion binding]; metal-binding site 1163743003868 putative 5' ssDNA interaction site; other site 1163743003869 metal binding site 3; metal-binding site 1163743003870 metal binding site 2 [ion binding]; metal-binding site 1163743003871 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1163743003872 putative DNA binding site [nucleotide binding]; other site 1163743003873 putative metal binding site [ion binding]; other site 1163743003874 3'-5' exonuclease; Region: 35EXOc; smart00474 1163743003875 active site 1163743003876 substrate binding site [chemical binding]; other site 1163743003877 catalytic site [active] 1163743003878 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1163743003879 active site 1163743003880 DNA binding site [nucleotide binding] 1163743003881 catalytic site [active] 1163743003882 potential frameshift: common BLAST hit: gi|15646080|ref|NP_208262.1| type IIS restriction enzyme R protein (BCGIB) 1163743003883 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1163743003884 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1163743003885 thymidylate kinase; Validated; Region: tmk; PRK00698 1163743003886 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 1163743003887 TMP-binding site; other site 1163743003888 ATP-binding site [chemical binding]; other site 1163743003889 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 1163743003890 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1163743003891 active site 1163743003892 (T/H)XGH motif; other site 1163743003893 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1163743003894 Flavoprotein; Region: Flavoprotein; pfam02441 1163743003895 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 1163743003896 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 1163743003897 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1163743003898 Part of AAA domain; Region: AAA_19; pfam13245 1163743003899 Family description; Region: UvrD_C_2; pfam13538 1163743003900 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 1163743003901 binding surface 1163743003902 TPR motif; other site 1163743003903 seryl-tRNA synthetase; Provisional; Region: PRK05431 1163743003904 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1163743003905 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 1163743003906 dimer interface [polypeptide binding]; other site 1163743003907 active site 1163743003908 motif 1; other site 1163743003909 motif 2; other site 1163743003910 motif 3; other site 1163743003911 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1163743003912 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 1163743003913 active site 1163743003914 catalytic triad [active] 1163743003915 dimer interface [polypeptide binding]; other site 1163743003916 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 1163743003917 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1163743003918 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 1163743003919 S-adenosylmethionine binding site [chemical binding]; other site 1163743003920 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 1163743003921 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 1163743003922 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1163743003923 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163743003924 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1163743003925 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163743003926 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1163743003927 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1163743003928 HlyD family secretion protein; Region: HlyD_3; pfam13437 1163743003929 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1163743003930 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1163743003931 Domain of unknown function DUF21; Region: DUF21; pfam01595 1163743003932 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 1163743003933 Transporter associated domain; Region: CorC_HlyC; smart01091 1163743003934 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1163743003935 Phosphate transporter family; Region: PHO4; pfam01384 1163743003936 Phosphate transporter family; Region: PHO4; cl00396 1163743003937 NifU-like domain; Region: NifU; pfam01106 1163743003938 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 1163743003939 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163743003940 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163743003941 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 1163743003942 putative active site [active] 1163743003943 transaldolase; Provisional; Region: PRK03903 1163743003944 catalytic residue [active] 1163743003945 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 1163743003946 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1163743003947 5S rRNA interface [nucleotide binding]; other site 1163743003948 CTC domain interface [polypeptide binding]; other site 1163743003949 L16 interface [polypeptide binding]; other site 1163743003950 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 1163743003951 putative active site [active] 1163743003952 catalytic residue [active] 1163743003953 Predicted permeases [General function prediction only]; Region: COG0795 1163743003954 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1163743003955 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 1163743003956 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 1163743003957 cofactor binding site; other site 1163743003958 DNA binding site [nucleotide binding] 1163743003959 substrate interaction site [chemical binding]; other site 1163743003960 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 1163743003961 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743003962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 1163743003963 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1163743003964 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1163743003965 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 1163743003966 metal-binding site [ion binding] 1163743003967 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1163743003968 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1163743003969 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1163743003970 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 1163743003971 S-adenosylmethionine binding site [chemical binding]; other site 1163743003972 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 1163743003973 catalytic motif [active] 1163743003974 Zn binding site [ion binding]; other site 1163743003975 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 1163743003976 RibD C-terminal domain; Region: RibD_C; cl17279 1163743003977 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1163743003978 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1163743003979 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1163743003980 NAD(P) binding pocket [chemical binding]; other site 1163743003981 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1163743003982 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1163743003983 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1163743003984 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 1163743003985 FolB domain; Region: folB_dom; TIGR00526 1163743003986 active site 1163743003987 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 1163743003988 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 1163743003989 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 1163743003990 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1163743003991 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 1163743003992 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1163743003993 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 1163743003994 NusA N-terminal domain; Region: NusA_N; pfam08529 1163743003995 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 1163743003996 RNA binding site [nucleotide binding]; other site 1163743003997 homodimer interface [polypeptide binding]; other site 1163743003998 NusA-like KH domain; Region: KH_5; pfam13184 1163743003999 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 1163743004000 G-X-X-G motif; other site 1163743004001 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 1163743004002 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1163743004003 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 1163743004004 AAA domain; Region: AAA_13; pfam13166 1163743004005 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743004006 ABC transporter signature motif; other site 1163743004007 Walker B; other site 1163743004008 D-loop; other site 1163743004009 H-loop/switch region; other site 1163743004010 Restriction endonuclease [Defense mechanisms]; Region: COG3587 1163743004011 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 1163743004012 ATP binding site [chemical binding]; other site 1163743004013 putative Mg++ binding site [ion binding]; other site 1163743004014 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1163743004015 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 1163743004016 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 1163743004017 ssDNA binding site; other site 1163743004018 generic binding surface II; other site 1163743004019 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 1163743004020 ATP binding site [chemical binding]; other site 1163743004021 putative Mg++ binding site [ion binding]; other site 1163743004022 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 1163743004023 nucleotide binding region [chemical binding]; other site 1163743004024 ATP-binding site [chemical binding]; other site 1163743004025 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743004026 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1163743004027 active site 1163743004028 putative catalytic site [active] 1163743004029 DNA binding site [nucleotide binding] 1163743004030 putative phosphate binding site [ion binding]; other site 1163743004031 metal binding site A [ion binding]; metal-binding site 1163743004032 AP binding site [nucleotide binding]; other site 1163743004033 metal binding site B [ion binding]; metal-binding site 1163743004034 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1163743004035 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 1163743004036 Walker A motif; other site 1163743004037 ATP binding site [chemical binding]; other site 1163743004038 Walker B motif; other site 1163743004039 arginine finger; other site 1163743004040 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 1163743004041 DnaA box-binding interface [nucleotide binding]; other site 1163743004042 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1163743004043 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 1163743004044 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 1163743004045 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 1163743004046 glutaminase active site [active] 1163743004047 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 1163743004048 dimer interface [polypeptide binding]; other site 1163743004049 active site 1163743004050 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 1163743004051 dimer interface [polypeptide binding]; other site 1163743004052 active site 1163743004053 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 1163743004054 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1163743004055 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1163743004056 potential frameshift: common BLAST hit: gi|15612488|ref|NP_224141.1| type I restriction enzyme modification subunit 1163743004057 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 1163743004058 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1163743004059 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 1163743004060 ATP binding site [chemical binding]; other site 1163743004061 putative Mg++ binding site [ion binding]; other site 1163743004062 Protein of unknown function DUF45; Region: DUF45; pfam01863 1163743004063 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1163743004064 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 1163743004065 N-terminal plug; other site 1163743004066 ligand-binding site [chemical binding]; other site 1163743004067 Arginase family; Region: Arginase; cd09989 1163743004068 active site 1163743004069 Mn binding site [ion binding]; other site 1163743004070 oligomer interface [polypeptide binding]; other site 1163743004071 S-methylmethionine transporter; Provisional; Region: PRK11387 1163743004072 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1163743004073 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1163743004074 hexamer interface [polypeptide binding]; other site 1163743004075 ligand binding site [chemical binding]; other site 1163743004076 putative active site [active] 1163743004077 NAD(P) binding site [chemical binding]; other site 1163743004078 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743004079 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743004080 Protein of unknown function DUF262; Region: DUF262; pfam03235 1163743004081 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1163743004082 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1163743004083 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 1163743004084 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 1163743004085 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1163743004086 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1163743004087 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1163743004088 Walker A/P-loop; other site 1163743004089 ATP binding site [chemical binding]; other site 1163743004090 Q-loop/lid; other site 1163743004091 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1163743004092 ABC transporter signature motif; other site 1163743004093 Walker B; other site 1163743004094 D-loop; other site 1163743004095 H-loop/switch region; other site 1163743004096 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 1163743004097 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1163743004098 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1163743004099 Sel1-like repeats; Region: SEL1; smart00671 1163743004100 Sel1-like repeats; Region: SEL1; smart00671 1163743004101 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 1163743004102 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1163743004103 active site 1163743004104 catalytic site [active] 1163743004105 substrate binding site [chemical binding]; other site 1163743004106 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 1163743004107 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1163743004108 substrate binding site [chemical binding]; other site 1163743004109 hexamer interface [polypeptide binding]; other site 1163743004110 metal binding site [ion binding]; metal-binding site 1163743004111 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 1163743004112 active site 1163743004113 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1163743004114 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 1163743004115 Cytochrome c; Region: Cytochrom_C; pfam00034 1163743004116 Cytochrome c; Region: Cytochrom_C; cl11414 1163743004117 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1163743004118 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 1163743004119 intrachain domain interface; other site 1163743004120 interchain domain interface [polypeptide binding]; other site 1163743004121 heme bH binding site [chemical binding]; other site 1163743004122 Qi binding site; other site 1163743004123 heme bL binding site [chemical binding]; other site 1163743004124 Qo binding site; other site 1163743004125 interchain domain interface [polypeptide binding]; other site 1163743004126 intrachain domain interface; other site 1163743004127 Qi binding site; other site 1163743004128 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1163743004129 Qo binding site; other site 1163743004130 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1163743004131 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1163743004132 [2Fe-2S] cluster binding site [ion binding]; other site 1163743004133 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 1163743004134 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1163743004135 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 1163743004136 ATP binding site [chemical binding]; other site 1163743004137 putative Mg++ binding site [ion binding]; other site 1163743004138 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 1163743004139 nucleotide binding region [chemical binding]; other site 1163743004140 ATP-binding site [chemical binding]; other site 1163743004141 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1163743004142 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 1163743004143 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1163743004144 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163743004145 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163743004146 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1163743004147 Peptidase family M23; Region: Peptidase_M23; pfam01551 1163743004148 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1163743004149 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1163743004150 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1163743004151 Lipopolysaccharide-assembly; Region: LptE; pfam04390 1163743004152 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1163743004153 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163743004154 HIGH motif; other site 1163743004155 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1163743004156 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1163743004157 active site 1163743004158 KMSKS motif; other site 1163743004159 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1163743004160 tRNA binding surface [nucleotide binding]; other site 1163743004161 anticodon binding site; other site 1163743004162 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 1163743004163 Protein export membrane protein; Region: SecD_SecF; pfam02355 1163743004164 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1163743004165 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1163743004166 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1163743004167 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 1163743004168 putative recombination protein RecB; Provisional; Region: PRK13909 1163743004169 Family description; Region: UvrD_C_2; pfam13538 1163743004170 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 1163743004171 rRNA interaction site [nucleotide binding]; other site 1163743004172 S8 interaction site; other site 1163743004173 putative laminin-1 binding site; other site 1163743004174 elongation factor Ts; Provisional; Region: tsf; PRK09377 1163743004175 UBA/TS-N domain; Region: UBA; pfam00627 1163743004176 Elongation factor TS; Region: EF_TS; pfam00889 1163743004177 Elongation factor TS; Region: EF_TS; pfam00889 1163743004178 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1163743004179 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163743004180 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163743004181 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 1163743004182 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1163743004183 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163743004184 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1163743004185 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1163743004186 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 1163743004187 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1163743004188 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1163743004189 intersubunit interface [polypeptide binding]; other site 1163743004190 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1163743004191 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 1163743004192 dimer interface [polypeptide binding]; other site 1163743004193 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1163743004194 catalytic triad [active] 1163743004195 peroxidatic and resolving cysteines [active] 1163743004196 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1163743004197 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1163743004198 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1163743004199 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1163743004200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1163743004201 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1163743004202 G1 box; other site 1163743004203 GTP/Mg2+ binding site [chemical binding]; other site 1163743004204 Switch I region; other site 1163743004205 G2 box; other site 1163743004206 G3 box; other site 1163743004207 Switch II region; other site 1163743004208 G4 box; other site 1163743004209 G5 box; other site 1163743004210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 1163743004211 OstA-like protein; Region: OstA; pfam03968 1163743004212 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 1163743004213 motif II; other site 1163743004214 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1163743004215 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1163743004216 Sporulation related domain; Region: SPOR; pfam05036 1163743004217 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 1163743004218 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1163743004219 catalytic residue [active] 1163743004220 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1163743004221 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1163743004222 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1163743004223 active site 1163743004224 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 1163743004225 Lumazine binding domain; Region: Lum_binding; pfam00677 1163743004226 Lumazine binding domain; Region: Lum_binding; pfam00677 1163743004227 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 1163743004228 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1163743004229 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1163743004230 Walker A/P-loop; other site 1163743004231 ATP binding site [chemical binding]; other site 1163743004232 Q-loop/lid; other site 1163743004233 ABC transporter signature motif; other site 1163743004234 Walker B; other site 1163743004235 D-loop; other site 1163743004236 H-loop/switch region; other site 1163743004237 NIL domain; Region: NIL; pfam09383 1163743004238 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 1163743004239 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1163743004240 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 1163743004241 active site 1163743004242 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1163743004243 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 1163743004244 Mg++ binding site [ion binding]; other site 1163743004245 putative catalytic motif [active] 1163743004246 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 1163743004247 active site 1163743004248 hydrophilic channel; other site 1163743004249 dimerization interface [polypeptide binding]; other site 1163743004250 catalytic residues [active] 1163743004251 active site lid [active] 1163743004252 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1163743004253 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 1163743004254 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1163743004255 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 1163743004256 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1163743004257 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1163743004258 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1163743004259 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1163743004260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1163743004261 hypothetical protein; Provisional; Region: PRK10236 1163743004262 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1163743004263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1163743004264 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1163743004265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1163743004266 Fic family protein [Function unknown]; Region: COG3177 1163743004267 Fic/DOC family; Region: Fic; pfam02661 1163743004268 Initiator Replication protein; Region: Rep_3; pfam01051 1163743004269 Fic family protein [Function unknown]; Region: COG3177 1163743004270 Fic/DOC family; Region: Fic; pfam02661 1163743004271 Initiator Replication protein; Region: Rep_3; pfam01051