-- dump date 20140619_113814 -- class Genbank::misc_feature -- table misc_feature_note -- id note 765963000001 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 765963000002 putative RNA binding site [nucleotide binding]; other site 765963000003 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 765963000004 homopentamer interface [polypeptide binding]; other site 765963000005 active site 765963000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 765963000007 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 765963000008 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 765963000009 active site clefts [active] 765963000010 zinc binding site [ion binding]; other site 765963000011 dimer interface [polypeptide binding]; other site 765963000012 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 765963000013 active site 765963000014 dimer interface [polypeptide binding]; other site 765963000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 765963000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 765963000017 active site 765963000018 ATP-binding site [chemical binding]; other site 765963000019 pantoate-binding site; other site 765963000020 HXXH motif; other site 765963000021 potential frameshift: common BLAST hit: gi|108562434|ref|YP_626750.1| outer membrane protein HopZ 765963000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 765963000023 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 765963000024 ring oligomerisation interface [polypeptide binding]; other site 765963000025 ATP/Mg binding site [chemical binding]; other site 765963000026 stacking interactions; other site 765963000027 hinge regions; other site 765963000028 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 765963000029 oligomerisation interface [polypeptide binding]; other site 765963000030 mobile loop; other site 765963000031 roof hairpin; other site 765963000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 765963000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 765963000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 765963000035 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 765963000036 active site 765963000037 metal binding site [ion binding]; metal-binding site 765963000038 interdomain interaction site; other site 765963000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 765963000040 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 765963000041 Ligand Binding Site [chemical binding]; other site 765963000042 TrbC/VIRB2 family; Region: TrbC; cl01583 765963000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 765963000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 765963000045 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 765963000046 Walker A motif; other site 765963000047 ATP binding site [chemical binding]; other site 765963000048 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 765963000049 Walker B motif; other site 765963000050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 765963000051 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 765963000052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 765963000053 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 765963000054 active site 765963000055 phosphorylation site [posttranslational modification] 765963000056 intermolecular recognition site; other site 765963000057 dimerization interface [polypeptide binding]; other site 765963000058 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 765963000059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 765963000060 dimer interface [polypeptide binding]; other site 765963000061 active site 765963000062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 765963000063 catalytic residues [active] 765963000064 substrate binding site [chemical binding]; other site 765963000065 lipid A 1-phosphatase; Reviewed; Region: PRK09597 765963000066 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 765963000067 active site 765963000068 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 765963000069 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 765963000070 Sulfatase; Region: Sulfatase; pfam00884 765963000071 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000072 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 765963000073 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 765963000074 dimer interface [polypeptide binding]; other site 765963000075 active site 765963000076 citrylCoA binding site [chemical binding]; other site 765963000077 NADH binding [chemical binding]; other site 765963000078 cationic pore residues; other site 765963000079 oxalacetate/citrate binding site [chemical binding]; other site 765963000080 coenzyme A binding site [chemical binding]; other site 765963000081 catalytic triad [active] 765963000082 isocitrate dehydrogenase; Validated; Region: PRK07362 765963000083 isocitrate dehydrogenase; Reviewed; Region: PRK07006 765963000084 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 765963000085 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 765963000086 AAA domain; Region: AAA_26; pfam13500 765963000087 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 765963000088 Ligand Binding Site [chemical binding]; other site 765963000089 Uncharacterized conserved protein [Function unknown]; Region: COG2127 765963000090 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 765963000091 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 765963000092 Walker A motif; other site 765963000093 ATP binding site [chemical binding]; other site 765963000094 Walker B motif; other site 765963000095 arginine finger; other site 765963000096 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 765963000097 Walker A motif; other site 765963000098 ATP binding site [chemical binding]; other site 765963000099 Walker B motif; other site 765963000100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 765963000101 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 765963000102 tetramerization interface [polypeptide binding]; other site 765963000103 active site 765963000104 hypothetical protein; Provisional; Region: PRK03762 765963000105 PDZ domain; Region: PDZ_2; pfam13180 765963000106 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 765963000107 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 765963000108 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 765963000109 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 765963000110 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 765963000111 VirB7 interaction site; other site 765963000112 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 765963000113 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 765963000114 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 765963000115 Substrate binding site; other site 765963000116 Cupin domain; Region: Cupin_2; cl17218 765963000117 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 765963000118 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 765963000119 NADP-binding site; other site 765963000120 homotetramer interface [polypeptide binding]; other site 765963000121 substrate binding site [chemical binding]; other site 765963000122 homodimer interface [polypeptide binding]; other site 765963000123 active site 765963000124 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 765963000125 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 765963000126 NADP binding site [chemical binding]; other site 765963000127 active site 765963000128 putative substrate binding site [chemical binding]; other site 765963000129 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 765963000130 dimerization interface [polypeptide binding]; other site 765963000131 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 765963000132 ATP binding site [chemical binding]; other site 765963000133 Acylphosphatase; Region: Acylphosphatase; pfam00708 765963000134 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 765963000135 HypF finger; Region: zf-HYPF; pfam07503 765963000136 HypF finger; Region: zf-HYPF; pfam07503 765963000137 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 765963000138 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 765963000139 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 765963000140 potential frameshift: common BLAST hit: gi|210134245|ref|YP_002300684.1| adenine specific DNA methyltransferase 765963000141 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 765963000142 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 765963000143 DNA binding site [nucleotide binding] 765963000144 substrate interaction site [chemical binding]; other site 765963000145 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 765963000146 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 765963000147 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 765963000148 Na binding site [ion binding]; other site 765963000149 Proline dehydrogenase; Region: Pro_dh; pfam01619 765963000150 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 765963000151 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 765963000152 Glutamate binding site [chemical binding]; other site 765963000153 NAD binding site [chemical binding]; other site 765963000154 catalytic residues [active] 765963000155 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 765963000156 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 765963000157 Proteins of 100 residues with WXG; Region: WXG100; cl02005 765963000158 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 765963000159 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 765963000160 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 765963000161 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 765963000162 potential frameshift: common BLAST hit: gi|108562492|ref|YP_626808.1| ATP-binding protein 765963000163 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 765963000164 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 765963000165 G1 box; other site 765963000166 GTP/Mg2+ binding site [chemical binding]; other site 765963000167 G2 box; other site 765963000168 Switch I region; other site 765963000169 G3 box; other site 765963000170 Switch II region; other site 765963000171 G4 box; other site 765963000172 G5 box; other site 765963000173 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 765963000174 UreF; Region: UreF; pfam01730 765963000175 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 765963000176 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 765963000177 dimer interface [polypeptide binding]; other site 765963000178 catalytic residues [active] 765963000179 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 765963000180 urease subunit beta; Provisional; Region: ureB; PRK13985 765963000181 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 765963000182 subunit interactions [polypeptide binding]; other site 765963000183 active site 765963000184 flap region; other site 765963000185 urease subunit alpha; Provisional; Region: PRK13986 765963000186 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 765963000187 alpha-gamma subunit interface [polypeptide binding]; other site 765963000188 beta-gamma subunit interface [polypeptide binding]; other site 765963000189 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 765963000190 gamma-beta subunit interface [polypeptide binding]; other site 765963000191 alpha-beta subunit interface [polypeptide binding]; other site 765963000192 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 765963000193 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 765963000194 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 765963000195 active site 765963000196 substrate binding site [chemical binding]; other site 765963000197 metal binding site [ion binding]; metal-binding site 765963000198 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 765963000199 peptide chain release factor 1; Validated; Region: prfA; PRK00591 765963000200 This domain is found in peptide chain release factors; Region: PCRF; smart00937 765963000201 RF-1 domain; Region: RF-1; pfam00472 765963000202 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000203 Cache domain; Region: Cache_1; pfam02743 765963000204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 765963000205 dimer interface [polypeptide binding]; other site 765963000206 putative CheW interface [polypeptide binding]; other site 765963000207 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 765963000208 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 765963000209 23S rRNA interface [nucleotide binding]; other site 765963000210 L3 interface [polypeptide binding]; other site 765963000211 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 765963000212 Predicted dehydrogenase [General function prediction only]; Region: COG0579 765963000213 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 765963000214 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 765963000215 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 765963000216 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 765963000217 NlpC/P60 family; Region: NLPC_P60; pfam00877 765963000218 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 765963000219 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 765963000220 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765963000221 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 765963000222 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 765963000223 DNA binding residues [nucleotide binding] 765963000224 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 765963000225 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 765963000226 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 765963000227 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 765963000228 potential protein location (hypothetical protein HPPC_00460 [Helicobacter pylori PeCan4]) that overlaps RNA (tRNA-S) 765963000229 Protein of unknown function (DUF511); Region: DUF511; pfam04373 765963000230 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963000231 Methyltransferase domain; Region: Methyltransf_26; pfam13659 765963000232 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963000233 potential frameshift: common BLAST hit: gi|254778815|ref|YP_003056920.1| Alpha-1,2-fucosyltransferase 765963000234 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 765963000235 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 765963000236 putative ligand binding site [chemical binding]; other site 765963000237 putative NAD binding site [chemical binding]; other site 765963000238 catalytic site [active] 765963000239 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 765963000240 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 765963000241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963000242 catalytic residue [active] 765963000243 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 765963000244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 765963000245 dimer interface [polypeptide binding]; other site 765963000246 putative CheW interface [polypeptide binding]; other site 765963000247 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 765963000248 Ligand Binding Site [chemical binding]; other site 765963000249 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000250 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 765963000251 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 765963000252 metal-binding site 765963000253 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 765963000254 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 765963000255 dimerization interface [polypeptide binding]; other site 765963000256 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 765963000257 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 765963000258 dimer interface [polypeptide binding]; other site 765963000259 putative CheW interface [polypeptide binding]; other site 765963000260 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 765963000261 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 765963000262 active site 765963000263 metal binding site [ion binding]; metal-binding site 765963000264 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 765963000265 S-ribosylhomocysteinase; Provisional; Region: PRK02260 765963000266 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 765963000267 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 765963000268 homodimer interface [polypeptide binding]; other site 765963000269 substrate-cofactor binding pocket; other site 765963000270 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963000271 catalytic residue [active] 765963000272 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 765963000273 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 765963000274 dimer interface [polypeptide binding]; other site 765963000275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963000276 catalytic residue [active] 765963000277 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 765963000278 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 765963000279 nucleotide binding site [chemical binding]; other site 765963000280 NEF interaction site [polypeptide binding]; other site 765963000281 SBD interface [polypeptide binding]; other site 765963000282 GrpE; Region: GrpE; pfam01025 765963000283 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 765963000284 dimer interface [polypeptide binding]; other site 765963000285 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 765963000286 heat-inducible transcription repressor; Provisional; Region: PRK03911 765963000287 hypothetical protein; Provisional; Region: PRK05834 765963000288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 765963000289 flagellin B; Provisional; Region: PRK13588 765963000290 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 765963000291 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 765963000292 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 765963000293 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 765963000294 DNA topoisomerase I; Validated; Region: PRK05582 765963000295 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 765963000296 active site 765963000297 interdomain interaction site; other site 765963000298 putative metal-binding site [ion binding]; other site 765963000299 nucleotide binding site [chemical binding]; other site 765963000300 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 765963000301 domain I; other site 765963000302 DNA binding groove [nucleotide binding] 765963000303 phosphate binding site [ion binding]; other site 765963000304 domain II; other site 765963000305 domain III; other site 765963000306 nucleotide binding site [chemical binding]; other site 765963000307 catalytic site [active] 765963000308 domain IV; other site 765963000309 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 765963000310 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 765963000311 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 765963000312 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 765963000313 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 765963000314 FeS/SAM binding site; other site 765963000315 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 765963000316 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 765963000317 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 765963000318 phosphoenolpyruvate synthase; Validated; Region: PRK06464 765963000319 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 765963000320 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 765963000321 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 765963000322 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 765963000323 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 765963000324 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 765963000325 active site 765963000326 dimer interface [polypeptide binding]; other site 765963000327 motif 1; other site 765963000328 motif 2; other site 765963000329 motif 3; other site 765963000330 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 765963000331 anticodon binding site; other site 765963000332 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 765963000333 translation initiation factor IF-3; Region: infC; TIGR00168 765963000334 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 765963000335 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 765963000336 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 765963000337 23S rRNA binding site [nucleotide binding]; other site 765963000338 L21 binding site [polypeptide binding]; other site 765963000339 L13 binding site [polypeptide binding]; other site 765963000340 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000341 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 765963000342 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 765963000343 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 765963000344 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 765963000345 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 765963000346 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 765963000347 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 765963000348 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 765963000349 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 765963000350 catalytic triad [active] 765963000351 Uncharacterized conserved protein [Function unknown]; Region: COG1556 765963000352 iron-sulfur cluster-binding protein; Region: TIGR00273 765963000353 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 765963000354 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 765963000355 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 765963000356 Cysteine-rich domain; Region: CCG; pfam02754 765963000357 Cysteine-rich domain; Region: CCG; pfam02754 765963000358 L-lactate transport; Region: lctP; TIGR00795 765963000359 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 765963000360 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 765963000361 L-lactate transport; Region: lctP; TIGR00795 765963000362 DNA glycosylase MutY; Provisional; Region: PRK13910 765963000363 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 765963000364 minor groove reading motif; other site 765963000365 helix-hairpin-helix signature motif; other site 765963000366 substrate binding pocket [chemical binding]; other site 765963000367 active site 765963000368 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 765963000369 DNA binding and oxoG recognition site [nucleotide binding] 765963000370 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 765963000371 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 765963000372 transmembrane helices; other site 765963000373 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 765963000374 Low-spin heme binding site [chemical binding]; other site 765963000375 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 765963000376 D-pathway; other site 765963000377 Putative water exit pathway; other site 765963000378 Binuclear center (active site) [active] 765963000379 K-pathway; other site 765963000380 Putative proton exit pathway; other site 765963000381 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 765963000382 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 765963000383 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 765963000384 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 765963000385 Cytochrome c; Region: Cytochrom_C; pfam00034 765963000386 Cytochrome c; Region: Cytochrom_C; pfam00034 765963000387 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 765963000388 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 765963000389 recombinase A; Provisional; Region: recA; PRK09354 765963000390 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 765963000391 hexamer interface [polypeptide binding]; other site 765963000392 Walker A motif; other site 765963000393 ATP binding site [chemical binding]; other site 765963000394 Walker B motif; other site 765963000395 enolase; Provisional; Region: eno; PRK00077 765963000396 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 765963000397 dimer interface [polypeptide binding]; other site 765963000398 metal binding site [ion binding]; metal-binding site 765963000399 substrate binding pocket [chemical binding]; other site 765963000400 AMIN domain; Region: AMIN; pfam11741 765963000401 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 765963000402 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 765963000403 ADP binding site [chemical binding]; other site 765963000404 magnesium binding site [ion binding]; other site 765963000405 putative shikimate binding site; other site 765963000406 Cache domain; Region: Cache_1; pfam02743 765963000407 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963000408 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 765963000409 Ligand binding site; other site 765963000410 metal-binding site 765963000411 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963000412 Sel1-like repeats; Region: SEL1; smart00671 765963000413 Sel1-like repeats; Region: SEL1; smart00671 765963000414 Sel1-like repeats; Region: SEL1; smart00671 765963000415 Sel1 repeat; Region: Sel1; cl02723 765963000416 Sel1-like repeats; Region: SEL1; smart00671 765963000417 Sel1-like repeats; Region: SEL1; smart00671 765963000418 hypothetical protein; Provisional; Region: PRK12378 765963000419 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 765963000420 dimer interface [polypeptide binding]; other site 765963000421 active site 765963000422 Schiff base residues; other site 765963000423 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 765963000424 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 765963000425 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 765963000426 dimer interface [polypeptide binding]; other site 765963000427 phosphorylation site [posttranslational modification] 765963000428 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 765963000429 ATP binding site [chemical binding]; other site 765963000430 Mg2+ binding site [ion binding]; other site 765963000431 G-X-G motif; other site 765963000432 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765963000433 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 765963000434 active site 765963000435 phosphorylation site [posttranslational modification] 765963000436 intermolecular recognition site; other site 765963000437 dimerization interface [polypeptide binding]; other site 765963000438 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 765963000439 DNA binding site [nucleotide binding] 765963000440 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 765963000441 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 765963000442 Peptidase family U32; Region: Peptidase_U32; pfam01136 765963000443 peptide chain release factor 2; Region: prfB; TIGR00020 765963000444 This domain is found in peptide chain release factors; Region: PCRF; smart00937 765963000445 RF-1 domain; Region: RF-1; pfam00472 765963000446 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 765963000447 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 765963000448 dimer interface [polypeptide binding]; other site 765963000449 putative functional site; other site 765963000450 putative MPT binding site; other site 765963000451 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 765963000452 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 765963000453 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 765963000454 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 765963000455 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 765963000456 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 765963000457 intersubunit interface [polypeptide binding]; other site 765963000458 active site 765963000459 zinc binding site [ion binding]; other site 765963000460 Na+ binding site [ion binding]; other site 765963000461 elongation factor P; Validated; Region: PRK00529 765963000462 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 765963000463 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 765963000464 RNA binding site [nucleotide binding]; other site 765963000465 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 765963000466 RNA binding site [nucleotide binding]; other site 765963000467 pseudaminic acid synthase; Region: PseI; TIGR03586 765963000468 NeuB family; Region: NeuB; pfam03102 765963000469 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 765963000470 NeuB binding interface [polypeptide binding]; other site 765963000471 putative substrate binding site [chemical binding]; other site 765963000472 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765963000473 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 765963000474 Walker A/P-loop; other site 765963000475 ATP binding site [chemical binding]; other site 765963000476 Q-loop/lid; other site 765963000477 ABC transporter signature motif; other site 765963000478 Walker B; other site 765963000479 D-loop; other site 765963000480 H-loop/switch region; other site 765963000481 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 765963000482 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 765963000483 active site 765963000484 catalytic triad [active] 765963000485 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 765963000486 Colicin V production protein; Region: Colicin_V; pfam02674 765963000487 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 765963000488 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 765963000489 dimer interface [polypeptide binding]; other site 765963000490 putative anticodon binding site; other site 765963000491 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 765963000492 motif 1; other site 765963000493 active site 765963000494 motif 2; other site 765963000495 motif 3; other site 765963000496 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 765963000497 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 765963000498 dimer interface [polypeptide binding]; other site 765963000499 active site 765963000500 glycine-pyridoxal phosphate binding site [chemical binding]; other site 765963000501 folate binding site [chemical binding]; other site 765963000502 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 765963000503 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 765963000504 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963000505 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963000506 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 765963000507 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 765963000508 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 765963000509 PLD-like domain; Region: PLDc_2; pfam13091 765963000510 putative active site [active] 765963000511 catalytic site [active] 765963000512 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 765963000513 PLD-like domain; Region: PLDc_2; pfam13091 765963000514 putative active site [active] 765963000515 catalytic site [active] 765963000516 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 765963000517 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 765963000518 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 765963000519 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 765963000520 L-aspartate oxidase; Provisional; Region: PRK06175 765963000521 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 765963000522 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 765963000523 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 765963000524 Iron-sulfur protein interface; other site 765963000525 proximal heme binding site [chemical binding]; other site 765963000526 distal heme binding site [chemical binding]; other site 765963000527 dimer interface [polypeptide binding]; other site 765963000528 triosephosphate isomerase; Provisional; Region: PRK14567 765963000529 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 765963000530 substrate binding site [chemical binding]; other site 765963000531 dimer interface [polypeptide binding]; other site 765963000532 catalytic triad [active] 765963000533 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 765963000534 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 765963000535 NAD binding site [chemical binding]; other site 765963000536 homotetramer interface [polypeptide binding]; other site 765963000537 homodimer interface [polypeptide binding]; other site 765963000538 substrate binding site [chemical binding]; other site 765963000539 active site 765963000540 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 765963000541 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 765963000542 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 765963000543 trimer interface [polypeptide binding]; other site 765963000544 active site 765963000545 UDP-GlcNAc binding site [chemical binding]; other site 765963000546 lipid binding site [chemical binding]; lipid-binding site 765963000547 S-adenosylmethionine synthetase; Validated; Region: PRK05250 765963000548 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 765963000549 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 765963000550 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 765963000551 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 765963000552 active site 765963000553 multimer interface [polypeptide binding]; other site 765963000554 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 765963000555 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 765963000556 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 765963000557 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 765963000558 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 765963000559 dimer interface [polypeptide binding]; other site 765963000560 active site 765963000561 CoA binding pocket [chemical binding]; other site 765963000562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963000563 Walker A/P-loop; other site 765963000564 ATP binding site [chemical binding]; other site 765963000565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963000566 Walker B; other site 765963000567 D-loop; other site 765963000568 H-loop/switch region; other site 765963000569 antiporter inner membrane protein; Provisional; Region: PRK11670 765963000570 Domain of unknown function DUF59; Region: DUF59; pfam01883 765963000571 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 765963000572 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963000573 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 765963000574 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963000575 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 765963000576 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963000577 heat shock protein 90; Provisional; Region: PRK05218 765963000578 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 765963000579 ATP binding site [chemical binding]; other site 765963000580 Mg2+ binding site [ion binding]; other site 765963000581 G-X-G motif; other site 765963000582 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963000583 Sel1-like repeats; Region: SEL1; smart00671 765963000584 Sel1-like repeats; Region: SEL1; smart00671 765963000585 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 765963000586 TPR motif; other site 765963000587 binding surface 765963000588 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 765963000589 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 765963000590 metal binding site [ion binding]; metal-binding site 765963000591 dimer interface [polypeptide binding]; other site 765963000592 glucose-inhibited division protein A; Region: gidA; TIGR00136 765963000593 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 765963000594 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 765963000595 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 765963000596 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 765963000597 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 765963000598 transmembrane helices; other site 765963000599 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 765963000600 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 765963000601 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 765963000602 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 765963000603 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 765963000604 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 765963000605 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 765963000606 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 765963000607 substrate binding site [chemical binding]; other site 765963000608 Helix-turn-helix domain; Region: HTH_28; pfam13518 765963000609 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 765963000610 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 765963000611 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 765963000612 catalytic residue [active] 765963000613 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 765963000614 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 765963000615 trimerization site [polypeptide binding]; other site 765963000616 active site 765963000617 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 765963000618 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 765963000619 DNA repair protein RadA; Region: sms; TIGR00416 765963000620 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 765963000621 Walker A motif/ATP binding site; other site 765963000622 ATP binding site [chemical binding]; other site 765963000623 Walker B motif; other site 765963000624 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 765963000625 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 765963000626 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 765963000627 SelR domain; Region: SelR; pfam01641 765963000628 Predicted permeases [General function prediction only]; Region: COG0730 765963000629 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000630 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 765963000631 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 765963000632 Sulfate transporter family; Region: Sulfate_transp; pfam00916 765963000633 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000634 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 765963000635 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 765963000636 Ligand binding site; other site 765963000637 oligomer interface; other site 765963000638 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 765963000639 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 765963000640 hypothetical protein; Provisional; Region: PRK04081 765963000641 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 765963000642 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963000643 Sel1-like repeats; Region: SEL1; smart00671 765963000644 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 765963000645 binding surface 765963000646 TPR motif; other site 765963000647 Sel1-like repeats; Region: SEL1; smart00671 765963000648 Sel1-like repeats; Region: SEL1; smart00671 765963000649 Cytochrome c; Region: Cytochrom_C; cl11414 765963000650 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 765963000651 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 765963000652 domain interfaces; other site 765963000653 active site 765963000654 prolyl-tRNA synthetase; Provisional; Region: PRK09194 765963000655 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 765963000656 dimer interface [polypeptide binding]; other site 765963000657 motif 1; other site 765963000658 active site 765963000659 motif 2; other site 765963000660 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 765963000661 putative deacylase active site [active] 765963000662 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 765963000663 active site 765963000664 motif 3; other site 765963000665 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 765963000666 anticodon binding site; other site 765963000667 glutamyl-tRNA reductase; Region: hemA; TIGR01035 765963000668 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 765963000669 tRNA; other site 765963000670 putative tRNA binding site [nucleotide binding]; other site 765963000671 putative NADP binding site [chemical binding]; other site 765963000672 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 765963000673 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 765963000674 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 765963000675 substrate binding pocket [chemical binding]; other site 765963000676 chain length determination region; other site 765963000677 substrate-Mg2+ binding site; other site 765963000678 catalytic residues [active] 765963000679 aspartate-rich region 1; other site 765963000680 active site lid residues [active] 765963000681 aspartate-rich region 2; other site 765963000682 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 765963000683 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 765963000684 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 765963000685 dimerization interface [polypeptide binding]; other site 765963000686 DPS ferroxidase diiron center [ion binding]; other site 765963000687 ion pore; other site 765963000688 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 765963000689 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 765963000690 dimer interface [polypeptide binding]; other site 765963000691 phosphorylation site [posttranslational modification] 765963000692 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 765963000693 ATP binding site [chemical binding]; other site 765963000694 Mg2+ binding site [ion binding]; other site 765963000695 G-X-G motif; other site 765963000696 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 765963000697 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 765963000698 helicase 45; Provisional; Region: PTZ00424 765963000699 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 765963000700 ATP binding site [chemical binding]; other site 765963000701 Mg++ binding site [ion binding]; other site 765963000702 motif III; other site 765963000703 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 765963000704 nucleotide binding region [chemical binding]; other site 765963000705 ATP-binding site [chemical binding]; other site 765963000706 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 765963000707 SPFH domain / Band 7 family; Region: Band_7; pfam01145 765963000708 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 765963000709 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 765963000710 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 765963000711 Walker A/P-loop; other site 765963000712 ATP binding site [chemical binding]; other site 765963000713 Q-loop/lid; other site 765963000714 ABC transporter signature motif; other site 765963000715 Walker B; other site 765963000716 D-loop; other site 765963000717 H-loop/switch region; other site 765963000718 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765963000719 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 765963000720 Walker A/P-loop; other site 765963000721 ATP binding site [chemical binding]; other site 765963000722 Q-loop/lid; other site 765963000723 ABC transporter signature motif; other site 765963000724 Walker B; other site 765963000725 D-loop; other site 765963000726 H-loop/switch region; other site 765963000727 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765963000728 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 765963000729 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 765963000730 dimer interface [polypeptide binding]; other site 765963000731 conserved gate region; other site 765963000732 putative PBP binding loops; other site 765963000733 ABC-ATPase subunit interface; other site 765963000734 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000735 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000736 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 765963000737 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 765963000738 GDP-binding site [chemical binding]; other site 765963000739 ACT binding site; other site 765963000740 IMP binding site; other site 765963000741 Uncharacterized conserved protein [Function unknown]; Region: COG3334 765963000742 RIP metalloprotease RseP; Region: TIGR00054 765963000743 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 765963000744 active site 765963000745 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 765963000746 protein binding site [polypeptide binding]; other site 765963000747 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 765963000748 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 765963000749 generic binding surface II; other site 765963000750 generic binding surface I; other site 765963000751 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963000752 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963000753 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963000754 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963000755 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963000756 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 765963000757 Clp amino terminal domain; Region: Clp_N; pfam02861 765963000758 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 765963000759 Walker A motif; other site 765963000760 ATP binding site [chemical binding]; other site 765963000761 Walker B motif; other site 765963000762 arginine finger; other site 765963000763 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 765963000764 Walker A motif; other site 765963000765 ATP binding site [chemical binding]; other site 765963000766 Walker B motif; other site 765963000767 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 765963000768 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 765963000769 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 765963000770 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 765963000771 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 765963000772 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 765963000773 active site 765963000774 chlorohydrolase; Provisional; Region: PRK08418 765963000775 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 765963000776 active site 765963000777 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 765963000778 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 765963000779 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 765963000780 FeS/SAM binding site; other site 765963000781 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 765963000782 putative acyl-acceptor binding pocket; other site 765963000783 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 765963000784 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 765963000785 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 765963000786 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 765963000787 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963000788 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 765963000789 putative active site [active] 765963000790 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 765963000791 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 765963000792 putative acyl-acceptor binding pocket; other site 765963000793 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 765963000794 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 765963000795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 765963000796 TrkA-C domain; Region: TrkA_C; pfam02080 765963000797 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 765963000798 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 765963000799 active site 765963000800 dimer interface [polypeptide binding]; other site 765963000801 metal binding site [ion binding]; metal-binding site 765963000802 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 765963000803 Mechanosensitive ion channel; Region: MS_channel; pfam00924 765963000804 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 765963000805 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 765963000806 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 765963000807 FeS/SAM binding site; other site 765963000808 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 765963000809 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 765963000810 Walker A motif; other site 765963000811 ATP binding site [chemical binding]; other site 765963000812 Walker B motif; other site 765963000813 arginine finger; other site 765963000814 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 765963000815 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963000816 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963000817 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 765963000818 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963000819 Autotransporter beta-domain; Region: Autotransporter; pfam03797 765963000820 diaminopimelate decarboxylase; Region: lysA; TIGR01048 765963000821 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 765963000822 active site 765963000823 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 765963000824 substrate binding site [chemical binding]; other site 765963000825 catalytic residues [active] 765963000826 dimer interface [polypeptide binding]; other site 765963000827 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 765963000828 Uncharacterized conserved protein [Function unknown]; Region: COG4866 765963000829 aminodeoxychorismate synthase; Provisional; Region: PRK07508 765963000830 chorismate binding enzyme; Region: Chorismate_bind; cl10555 765963000831 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 765963000832 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 765963000833 substrate-cofactor binding pocket; other site 765963000834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963000835 catalytic residue [active] 765963000836 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 765963000837 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 765963000838 multimer interface [polypeptide binding]; other site 765963000839 active site 765963000840 catalytic triad [active] 765963000841 dimer interface [polypeptide binding]; other site 765963000842 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 765963000843 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 765963000844 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 765963000845 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 765963000846 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 765963000847 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 765963000848 peptide binding site [polypeptide binding]; other site 765963000849 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 765963000850 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 765963000851 dimer interface [polypeptide binding]; other site 765963000852 conserved gate region; other site 765963000853 putative PBP binding loops; other site 765963000854 ABC-ATPase subunit interface; other site 765963000855 dipeptide transporter; Provisional; Region: PRK10913 765963000856 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 765963000857 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 765963000858 dimer interface [polypeptide binding]; other site 765963000859 conserved gate region; other site 765963000860 putative PBP binding loops; other site 765963000861 ABC-ATPase subunit interface; other site 765963000862 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 765963000863 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 765963000864 Walker A/P-loop; other site 765963000865 ATP binding site [chemical binding]; other site 765963000866 Q-loop/lid; other site 765963000867 ABC transporter signature motif; other site 765963000868 Walker B; other site 765963000869 D-loop; other site 765963000870 H-loop/switch region; other site 765963000871 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765963000872 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 765963000873 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 765963000874 Walker A/P-loop; other site 765963000875 ATP binding site [chemical binding]; other site 765963000876 Q-loop/lid; other site 765963000877 ABC transporter signature motif; other site 765963000878 Walker B; other site 765963000879 D-loop; other site 765963000880 H-loop/switch region; other site 765963000881 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 765963000882 GTPase CgtA; Reviewed; Region: obgE; PRK12299 765963000883 GTP1/OBG; Region: GTP1_OBG; pfam01018 765963000884 Obg GTPase; Region: Obg; cd01898 765963000885 G1 box; other site 765963000886 GTP/Mg2+ binding site [chemical binding]; other site 765963000887 Switch I region; other site 765963000888 G2 box; other site 765963000889 G3 box; other site 765963000890 Switch II region; other site 765963000891 G4 box; other site 765963000892 G5 box; other site 765963000893 Alginate lyase; Region: Alginate_lyase; pfam05426 765963000894 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 765963000895 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 765963000896 inhibitor-cofactor binding pocket; inhibition site 765963000897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963000898 catalytic residue [active] 765963000899 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 765963000900 Predicted amidohydrolase [General function prediction only]; Region: COG0388 765963000901 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 765963000902 active site 765963000903 catalytic triad [active] 765963000904 dimer interface [polypeptide binding]; other site 765963000905 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 765963000906 active site 765963000907 catalytic site [active] 765963000908 Zn binding site [ion binding]; other site 765963000909 tetramer interface [polypeptide binding]; other site 765963000910 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 765963000911 potential frameshift: common BLAST hit: gi|188527116|ref|YP_001909803.1| type II restriction enzyme 765963000912 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963000913 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963000914 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 765963000915 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 765963000916 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 765963000917 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 765963000918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765963000919 putative substrate translocation pore; other site 765963000920 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 765963000921 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 765963000922 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 765963000923 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 765963000924 arginyl-tRNA synthetase; Region: argS; TIGR00456 765963000925 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 765963000926 active site 765963000927 HIGH motif; other site 765963000928 KMSK motif region; other site 765963000929 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 765963000930 tRNA binding surface [nucleotide binding]; other site 765963000931 anticodon binding site; other site 765963000932 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 765963000933 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 765963000934 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 765963000935 catalytic site [active] 765963000936 G-X2-G-X-G-K; other site 765963000937 nuclease NucT; Provisional; Region: PRK13912 765963000938 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 765963000939 putative active site [active] 765963000940 catalytic site [active] 765963000941 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963000942 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 765963000943 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 765963000944 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 765963000945 ligand binding site; other site 765963000946 tetramer interface; other site 765963000947 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 765963000948 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 765963000949 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 765963000950 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 765963000951 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 765963000952 NAD synthetase; Provisional; Region: PRK13980 765963000953 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 765963000954 homodimer interface [polypeptide binding]; other site 765963000955 NAD binding pocket [chemical binding]; other site 765963000956 ATP binding pocket [chemical binding]; other site 765963000957 Mg binding site [ion binding]; other site 765963000958 active-site loop [active] 765963000959 ketol-acid reductoisomerase; Provisional; Region: PRK05479 765963000960 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 765963000961 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 765963000962 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 765963000963 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 765963000964 Switch I; other site 765963000965 Switch II; other site 765963000966 cell division topological specificity factor MinE; Region: minE; TIGR01215 765963000967 DNA protecting protein DprA; Region: dprA; TIGR00732 765963000968 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 765963000969 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 765963000970 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963000971 Sel1-like repeats; Region: SEL1; smart00671 765963000972 Sel1-like repeats; Region: SEL1; smart00671 765963000973 Sel1-like repeats; Region: SEL1; smart00671 765963000974 Sel1-like repeats; Region: SEL1; smart00671 765963000975 chlorohydrolase; Provisional; Region: PRK07213 765963000976 catalytic residue [active] 765963000977 Phage lysozyme; Region: Phage_lysozyme; pfam00959 765963000978 Phosphatidylinositol kinase and protein kinases of the PI-3 kinase family [Signal transduction mechanisms / Cell division and chromosome partitioning / Chromatin structure and dynamics / DNA replication, recombination, and repair / Intracellular...; Region: TEL1; COG5032 765963000979 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 765963000980 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 765963000981 active site 765963000982 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 765963000983 DHH family; Region: DHH; pfam01368 765963000984 DHHA1 domain; Region: DHHA1; pfam02272 765963000985 CTP synthetase; Validated; Region: pyrG; PRK05380 765963000986 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 765963000987 Catalytic site [active] 765963000988 active site 765963000989 UTP binding site [chemical binding]; other site 765963000990 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 765963000991 active site 765963000992 putative oxyanion hole; other site 765963000993 catalytic triad [active] 765963000994 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 765963000995 active site 765963000996 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 765963000997 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 765963000998 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 765963000999 flagellar motor switch protein FliG; Region: fliG; TIGR00207 765963001000 FliG C-terminal domain; Region: FliG_C; pfam01706 765963001001 flagellar assembly protein H; Validated; Region: fliH; PRK06669 765963001002 Flagellar assembly protein FliH; Region: FliH; pfam02108 765963001003 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 765963001004 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 765963001005 TPP-binding site; other site 765963001006 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 765963001007 PYR/PP interface [polypeptide binding]; other site 765963001008 dimer interface [polypeptide binding]; other site 765963001009 TPP binding site [chemical binding]; other site 765963001010 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 765963001011 GTP-binding protein LepA; Provisional; Region: PRK05433 765963001012 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 765963001013 G1 box; other site 765963001014 putative GEF interaction site [polypeptide binding]; other site 765963001015 GTP/Mg2+ binding site [chemical binding]; other site 765963001016 Switch I region; other site 765963001017 G2 box; other site 765963001018 G3 box; other site 765963001019 Switch II region; other site 765963001020 G4 box; other site 765963001021 G5 box; other site 765963001022 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 765963001023 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 765963001024 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 765963001025 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 765963001026 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 765963001027 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 765963001028 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 765963001029 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 765963001030 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 765963001031 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 765963001032 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 765963001033 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 765963001034 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 765963001035 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 765963001036 TPP-binding site [chemical binding]; other site 765963001037 dimer interface [polypeptide binding]; other site 765963001038 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 765963001039 PYR/PP interface [polypeptide binding]; other site 765963001040 dimer interface [polypeptide binding]; other site 765963001041 TPP binding site [chemical binding]; other site 765963001042 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 765963001043 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 765963001044 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 765963001045 active site 765963001046 Riboflavin kinase; Region: Flavokinase; smart00904 765963001047 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 765963001048 hemolysin TlyA family protein; Region: tly; TIGR00478 765963001049 RNA binding surface [nucleotide binding]; other site 765963001050 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 765963001051 S-adenosylmethionine binding site [chemical binding]; other site 765963001052 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 765963001053 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 765963001054 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 765963001055 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963001056 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 765963001057 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 765963001058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963001059 Walker A/P-loop; other site 765963001060 ATP binding site [chemical binding]; other site 765963001061 Q-loop/lid; other site 765963001062 ABC transporter signature motif; other site 765963001063 Walker B; other site 765963001064 D-loop; other site 765963001065 H-loop/switch region; other site 765963001066 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 765963001067 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 765963001068 Restriction endonuclease; Region: Mrr_cat; pfam04471 765963001069 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 765963001070 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 765963001071 active site 765963001072 Zn binding site [ion binding]; other site 765963001073 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 765963001074 metal-binding site [ion binding] 765963001075 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 765963001076 metal-binding site [ion binding] 765963001077 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 765963001078 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765963001079 Soluble P-type ATPase [General function prediction only]; Region: COG4087 765963001080 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 765963001081 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 765963001082 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 765963001083 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 765963001084 Walker A motif; other site 765963001085 ATP binding site [chemical binding]; other site 765963001086 Walker B motif; other site 765963001087 arginine finger; other site 765963001088 Peptidase family M41; Region: Peptidase_M41; pfam01434 765963001089 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 765963001090 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 765963001091 S-adenosylmethionine binding site [chemical binding]; other site 765963001092 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 765963001093 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 765963001094 active site 765963001095 phosphorylation site [posttranslational modification] 765963001096 intermolecular recognition site; other site 765963001097 dimerization interface [polypeptide binding]; other site 765963001098 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001099 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 765963001100 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 765963001101 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 765963001102 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 765963001103 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 765963001104 sec-independent translocase; Provisional; Region: PRK04098 765963001105 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 765963001106 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 765963001107 Walker A motif; other site 765963001108 ATP binding site [chemical binding]; other site 765963001109 Walker B motif; other site 765963001110 arginine finger; other site 765963001111 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 765963001112 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 765963001113 oligomerization interface [polypeptide binding]; other site 765963001114 active site 765963001115 metal binding site [ion binding]; metal-binding site 765963001116 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001117 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001118 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 765963001119 septum formation inhibitor; Reviewed; Region: minC; PRK00556 765963001120 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 765963001121 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 765963001122 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 765963001123 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 765963001124 homoserine kinase; Region: thrB; TIGR00191 765963001125 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 765963001126 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 765963001127 putative RNA binding cleft [nucleotide binding]; other site 765963001128 translation initiation factor IF-2; Region: IF-2; TIGR00487 765963001129 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 765963001130 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 765963001131 G1 box; other site 765963001132 putative GEF interaction site [polypeptide binding]; other site 765963001133 GTP/Mg2+ binding site [chemical binding]; other site 765963001134 Switch I region; other site 765963001135 G2 box; other site 765963001136 G3 box; other site 765963001137 Switch II region; other site 765963001138 G4 box; other site 765963001139 G5 box; other site 765963001140 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 765963001141 Translation-initiation factor 2; Region: IF-2; pfam11987 765963001142 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 765963001143 Ribosome-binding factor A; Region: RBFA; cl00542 765963001144 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 765963001145 Sm and related proteins; Region: Sm_like; cl00259 765963001146 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 765963001147 putative oligomer interface [polypeptide binding]; other site 765963001148 putative RNA binding site [nucleotide binding]; other site 765963001149 acetyl-CoA synthetase; Provisional; Region: PRK00174 765963001150 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 765963001151 active site 765963001152 CoA binding site [chemical binding]; other site 765963001153 acyl-activating enzyme (AAE) consensus motif; other site 765963001154 AMP binding site [chemical binding]; other site 765963001155 acetate binding site [chemical binding]; other site 765963001156 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 765963001157 putative active site [active] 765963001158 putative metal binding site [ion binding]; other site 765963001159 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 765963001160 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765963001161 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 765963001162 active site 765963001163 intermolecular recognition site; other site 765963001164 dimerization interface [polypeptide binding]; other site 765963001165 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 765963001166 DNA binding site [nucleotide binding] 765963001167 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 765963001168 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 765963001169 FHIPEP family; Region: FHIPEP; pfam00771 765963001170 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 765963001171 16S/18S rRNA binding site [nucleotide binding]; other site 765963001172 S13e-L30e interaction site [polypeptide binding]; other site 765963001173 25S rRNA binding site [nucleotide binding]; other site 765963001174 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 765963001175 O-Antigen ligase; Region: Wzy_C; pfam04932 765963001176 Dehydroquinase class II; Region: DHquinase_II; pfam01220 765963001177 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 765963001178 trimer interface [polypeptide binding]; other site 765963001179 active site 765963001180 dimer interface [polypeptide binding]; other site 765963001181 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 765963001182 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 765963001183 active site 765963001184 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 765963001185 catalytic center binding site [active] 765963001186 ATP binding site [chemical binding]; other site 765963001187 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 765963001188 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 765963001189 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 765963001190 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 765963001191 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 765963001192 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 765963001193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765963001194 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 765963001195 DNA binding residues [nucleotide binding] 765963001196 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 765963001197 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 765963001198 flagellar motor switch protein FliY; Validated; Region: PRK08432 765963001199 flagellar motor switch protein FliN; Region: fliN; TIGR02480 765963001200 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 765963001201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 765963001202 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 765963001203 metal binding site 2 [ion binding]; metal-binding site 765963001204 putative DNA binding helix; other site 765963001205 metal binding site 1 [ion binding]; metal-binding site 765963001206 dimer interface [polypeptide binding]; other site 765963001207 structural Zn2+ binding site [ion binding]; other site 765963001208 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 765963001209 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 765963001210 Walker A motif; other site 765963001211 ATP binding site [chemical binding]; other site 765963001212 Walker B motif; other site 765963001213 arginine finger; other site 765963001214 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 765963001215 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 765963001216 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 765963001217 DNA binding residues [nucleotide binding] 765963001218 putative dimer interface [polypeptide binding]; other site 765963001219 chaperone protein DnaJ; Provisional; Region: PRK14299 765963001220 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 765963001221 HSP70 interaction site [polypeptide binding]; other site 765963001222 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 765963001223 substrate binding site [polypeptide binding]; other site 765963001224 dimer interface [polypeptide binding]; other site 765963001225 5'-3' exonuclease; Provisional; Region: PRK14976 765963001226 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 765963001227 putative active site [active] 765963001228 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 765963001229 putative DNA binding site [nucleotide binding]; other site 765963001230 putative metal binding site [ion binding]; other site 765963001231 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 765963001232 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 765963001233 active site 765963001234 dimerization interface [polypeptide binding]; other site 765963001235 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 765963001236 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 765963001237 substrate binding site; other site 765963001238 dimer interface; other site 765963001239 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 765963001240 homotrimer interaction site [polypeptide binding]; other site 765963001241 zinc binding site [ion binding]; other site 765963001242 CDP-binding sites; other site 765963001243 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 765963001244 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 765963001245 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 765963001246 protein binding site [polypeptide binding]; other site 765963001247 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 765963001248 S-methylmethionine transporter; Provisional; Region: PRK11387 765963001249 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 765963001250 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 765963001251 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 765963001252 putative NAD(P) binding site [chemical binding]; other site 765963001253 active site 765963001254 dihydrodipicolinate synthase; Region: dapA; TIGR00674 765963001255 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 765963001256 dimer interface [polypeptide binding]; other site 765963001257 active site 765963001258 catalytic residue [active] 765963001259 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 765963001260 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 765963001261 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 765963001262 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 765963001263 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 765963001264 quinone interaction residues [chemical binding]; other site 765963001265 active site 765963001266 catalytic residues [active] 765963001267 FMN binding site [chemical binding]; other site 765963001268 substrate binding site [chemical binding]; other site 765963001269 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 765963001270 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 765963001271 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 765963001272 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 765963001273 putative domain interface [polypeptide binding]; other site 765963001274 putative active site [active] 765963001275 catalytic site [active] 765963001276 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 765963001277 putative active site [active] 765963001278 putative domain interface [polypeptide binding]; other site 765963001279 catalytic site [active] 765963001280 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963001281 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 765963001282 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963001283 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 765963001284 Methyltransferase domain; Region: Methyltransf_26; pfam13659 765963001285 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 765963001286 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 765963001287 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 765963001288 ATP binding site [chemical binding]; other site 765963001289 putative Mg++ binding site [ion binding]; other site 765963001290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 765963001291 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 765963001292 putative metal binding site [ion binding]; other site 765963001293 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 765963001294 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 765963001295 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 765963001296 active site 765963001297 Zn binding site [ion binding]; other site 765963001298 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 765963001299 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 765963001300 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001301 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 765963001302 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 765963001303 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 765963001304 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 765963001305 dimer interface [polypeptide binding]; other site 765963001306 conserved gate region; other site 765963001307 putative PBP binding loops; other site 765963001308 ABC-ATPase subunit interface; other site 765963001309 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765963001310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963001311 Walker A/P-loop; other site 765963001312 ATP binding site [chemical binding]; other site 765963001313 Q-loop/lid; other site 765963001314 ABC transporter signature motif; other site 765963001315 Walker B; other site 765963001316 D-loop; other site 765963001317 H-loop/switch region; other site 765963001318 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 765963001319 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 765963001320 active site 765963001321 HIGH motif; other site 765963001322 nucleotide binding site [chemical binding]; other site 765963001323 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 765963001324 active site 765963001325 KMSKS motif; other site 765963001326 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001327 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 765963001328 Methyltransferase domain; Region: Methyltransf_26; pfam13659 765963001329 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 765963001330 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963001331 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 765963001332 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 765963001333 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 765963001334 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 765963001335 G1 box; other site 765963001336 putative GEF interaction site [polypeptide binding]; other site 765963001337 GTP/Mg2+ binding site [chemical binding]; other site 765963001338 Switch I region; other site 765963001339 G2 box; other site 765963001340 G3 box; other site 765963001341 Switch II region; other site 765963001342 G4 box; other site 765963001343 G5 box; other site 765963001344 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 765963001345 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 765963001346 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 765963001347 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 765963001348 DNA binding site [nucleotide binding] 765963001349 active site 765963001350 GIY-YIG motif/motif A; other site 765963001351 catalytic site [active] 765963001352 metal binding site [ion binding]; metal-binding site 765963001353 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 765963001354 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 765963001355 cofactor binding site; other site 765963001356 DNA binding site [nucleotide binding] 765963001357 substrate interaction site [chemical binding]; other site 765963001358 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 765963001359 potential frameshift: common BLAST hit: gi|254779149|ref|YP_003057254.1| putative non-functional type II restriction endonuclease 765963001360 potential frameshift: common BLAST hit: gi|254779149|ref|YP_003057254.1| putative non-functional type II restriction endonuclease 765963001361 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 765963001362 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 765963001363 putative heme binding pocket [chemical binding]; other site 765963001364 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963001365 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963001366 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001367 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963001368 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963001369 NPH3 family; Region: NPH3; pfam03000 765963001370 Cation transport protein; Region: TrkH; cl17365 765963001371 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 765963001372 TrkA-N domain; Region: TrkA_N; pfam02254 765963001373 TrkA-C domain; Region: TrkA_C; pfam02080 765963001374 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 765963001375 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 765963001376 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 765963001377 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 765963001378 Mg++ binding site [ion binding]; other site 765963001379 putative catalytic motif [active] 765963001380 putative substrate binding site [chemical binding]; other site 765963001381 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 765963001382 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765963001383 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765963001384 Protein of unknown function (DUF493); Region: DUF493; pfam04359 765963001385 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 765963001386 active site 765963001387 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 765963001388 Na2 binding site [ion binding]; other site 765963001389 putative substrate binding site 1 [chemical binding]; other site 765963001390 Na binding site 1 [ion binding]; other site 765963001391 putative substrate binding site 2 [chemical binding]; other site 765963001392 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 765963001393 Na2 binding site [ion binding]; other site 765963001394 putative substrate binding site 1 [chemical binding]; other site 765963001395 Na binding site 1 [ion binding]; other site 765963001396 putative substrate binding site 2 [chemical binding]; other site 765963001397 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 765963001398 dimerization interface [polypeptide binding]; other site 765963001399 substrate binding site [chemical binding]; other site 765963001400 active site 765963001401 calcium binding site [ion binding]; other site 765963001402 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 765963001403 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 765963001404 putative DNA binding surface [nucleotide binding]; other site 765963001405 dimer interface [polypeptide binding]; other site 765963001406 beta-clamp/translesion DNA polymerase binding surface; other site 765963001407 beta-clamp/clamp loader binding surface; other site 765963001408 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 765963001409 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 765963001410 Mg2+ binding site [ion binding]; other site 765963001411 G-X-G motif; other site 765963001412 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 765963001413 anchoring element; other site 765963001414 dimer interface [polypeptide binding]; other site 765963001415 ATP binding site [chemical binding]; other site 765963001416 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 765963001417 active site 765963001418 putative metal-binding site [ion binding]; other site 765963001419 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 765963001420 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 765963001421 Peptidase family M23; Region: Peptidase_M23; pfam01551 765963001422 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 765963001423 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 765963001424 dimer interface [polypeptide binding]; other site 765963001425 ADP-ribose binding site [chemical binding]; other site 765963001426 active site 765963001427 nudix motif; other site 765963001428 metal binding site [ion binding]; metal-binding site 765963001429 FAD binding domain; Region: FAD_binding_4; pfam01565 765963001430 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 765963001431 dihydrodipicolinate reductase; Region: dapB; TIGR00036 765963001432 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 765963001433 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 765963001434 glutamine synthetase, type I; Region: GlnA; TIGR00653 765963001435 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 765963001436 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 765963001437 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963001438 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963001439 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 765963001440 Uncharacterized conserved protein [Function unknown]; Region: COG3586 765963001441 ribosomal protein L9; Region: L9; TIGR00158 765963001442 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 765963001443 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 765963001444 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 765963001445 active site 765963001446 HslU subunit interaction site [polypeptide binding]; other site 765963001447 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 765963001448 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 765963001449 Walker A motif; other site 765963001450 ATP binding site [chemical binding]; other site 765963001451 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 765963001452 Walker B motif; other site 765963001453 arginine finger; other site 765963001454 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 765963001455 GTPase [General function prediction only]; Region: Era; COG1159 765963001456 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 765963001457 G1 box; other site 765963001458 GTP/Mg2+ binding site [chemical binding]; other site 765963001459 Switch I region; other site 765963001460 G2 box; other site 765963001461 Switch II region; other site 765963001462 G3 box; other site 765963001463 G4 box; other site 765963001464 G5 box; other site 765963001465 KH domain; Region: KH_2; pfam07650 765963001466 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 765963001467 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963001468 Sel1-like repeats; Region: SEL1; smart00671 765963001469 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 765963001470 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 765963001471 Walker A motif; other site 765963001472 ATP binding site [chemical binding]; other site 765963001473 Walker B motif; other site 765963001474 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 765963001475 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 765963001476 ATP binding site [chemical binding]; other site 765963001477 Walker A motif; other site 765963001478 hexamer interface [polypeptide binding]; other site 765963001479 Walker B motif; other site 765963001480 CagZ; Region: CagZ; pfam09053 765963001481 potential frameshift: common BLAST hit: gi|15611543|ref|NP_223194.1| cag island protein 765963001482 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 765963001483 Protein of unknown function (DUF3807); Region: DUF3807; pfam12720 765963001484 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 765963001485 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 765963001486 VirB7 interaction site; other site 765963001487 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 765963001488 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 765963001489 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 765963001490 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 765963001491 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 765963001492 CagA exotoxin; Region: CagA; pfam03507 765963001493 CagA exotoxin; Region: CagA; pfam03507 765963001494 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 765963001495 transcription termination factor Rho; Provisional; Region: rho; PRK09376 765963001496 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 765963001497 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 765963001498 RNA binding site [nucleotide binding]; other site 765963001499 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 765963001500 multimer interface [polypeptide binding]; other site 765963001501 Walker A motif; other site 765963001502 ATP binding site [chemical binding]; other site 765963001503 Walker B motif; other site 765963001504 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 765963001505 Predicted methyltransferases [General function prediction only]; Region: COG0313 765963001506 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 765963001507 putative SAM binding site [chemical binding]; other site 765963001508 putative homodimer interface [polypeptide binding]; other site 765963001509 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 765963001510 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 765963001511 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 765963001512 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 765963001513 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 765963001514 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 765963001515 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 765963001516 dimer interface [polypeptide binding]; other site 765963001517 active site 765963001518 acyl carrier protein; Provisional; Region: acpP; PRK00982 765963001519 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 765963001520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765963001521 NAD(P) binding site [chemical binding]; other site 765963001522 active site 765963001523 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 765963001524 Predicted membrane protein [Function unknown]; Region: COG3059 765963001525 diaminopimelate epimerase; Region: DapF; TIGR00652 765963001526 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 765963001527 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 765963001528 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 765963001529 Domain of unknown function DUF20; Region: UPF0118; pfam01594 765963001530 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 765963001531 GTP-binding protein YchF; Reviewed; Region: PRK09601 765963001532 YchF GTPase; Region: YchF; cd01900 765963001533 G1 box; other site 765963001534 GTP/Mg2+ binding site [chemical binding]; other site 765963001535 Switch I region; other site 765963001536 G2 box; other site 765963001537 Switch II region; other site 765963001538 G3 box; other site 765963001539 G4 box; other site 765963001540 G5 box; other site 765963001541 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 765963001542 multifunctional aminopeptidase A; Provisional; Region: PRK00913 765963001543 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 765963001544 interface (dimer of trimers) [polypeptide binding]; other site 765963001545 Substrate-binding/catalytic site; other site 765963001546 Zn-binding sites [ion binding]; other site 765963001547 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 765963001548 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 765963001549 active site 765963001550 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 765963001551 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 765963001552 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 765963001553 Peptidase family M50; Region: Peptidase_M50; pfam02163 765963001554 active site 765963001555 putative substrate binding region [chemical binding]; other site 765963001556 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 765963001557 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 765963001558 Catalytic site [active] 765963001559 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 765963001560 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 765963001561 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 765963001562 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 765963001563 homodimer interface [polypeptide binding]; other site 765963001564 NADP binding site [chemical binding]; other site 765963001565 substrate binding site [chemical binding]; other site 765963001566 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 765963001567 Sulfatase; Region: Sulfatase; pfam00884 765963001568 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 765963001569 BNR repeat-like domain; Region: BNR_2; pfam13088 765963001570 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 765963001571 active site 765963001572 substrate binding pocket [chemical binding]; other site 765963001573 dimer interface [polypeptide binding]; other site 765963001574 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 765963001575 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 765963001576 flagellar motor switch protein; Validated; Region: PRK08433 765963001577 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 765963001578 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 765963001579 minor groove reading motif; other site 765963001580 helix-hairpin-helix signature motif; other site 765963001581 substrate binding pocket [chemical binding]; other site 765963001582 active site 765963001583 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 765963001584 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 765963001585 Protein of unknown function; Region: DUF3971; pfam13116 765963001586 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 765963001587 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 765963001588 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 765963001589 dimerization interface [polypeptide binding]; other site 765963001590 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 765963001591 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 765963001592 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 765963001593 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 765963001594 dimer interface [polypeptide binding]; other site 765963001595 PYR/PP interface [polypeptide binding]; other site 765963001596 TPP binding site [chemical binding]; other site 765963001597 substrate binding site [chemical binding]; other site 765963001598 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 765963001599 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 765963001600 TPP-binding site [chemical binding]; other site 765963001601 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 765963001602 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 765963001603 potential frameshift: common BLAST hit: gi|208434512|ref|YP_002266178.1| type IIIR-M system restriction enzyme 765963001604 potential frameshift: common BLAST hit: gi|15645217|ref|NP_207387.1| type III restriction enzyme R protein (res) 765963001605 potential frameshift: common BLAST hit: gi|15645217|ref|NP_207387.1| type III restriction enzyme R protein (res) 765963001606 DNA methylase; Region: N6_N4_Mtase; cl17433 765963001607 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 765963001608 Transposase IS200 like; Region: Y1_Tnp; pfam01797 765963001609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 765963001610 Probable transposase; Region: OrfB_IS605; pfam01385 765963001611 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 765963001612 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963001613 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 765963001614 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 765963001615 Transglycosylase; Region: Transgly; pfam00912 765963001616 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 765963001617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 765963001618 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 765963001619 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 765963001620 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 765963001621 catalytic residue [active] 765963001622 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 765963001623 dimer interface [polypeptide binding]; other site 765963001624 putative CheW interface [polypeptide binding]; other site 765963001625 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 765963001626 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765963001627 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 765963001628 Walker A/P-loop; other site 765963001629 ATP binding site [chemical binding]; other site 765963001630 Q-loop/lid; other site 765963001631 ABC transporter signature motif; other site 765963001632 Walker B; other site 765963001633 D-loop; other site 765963001634 H-loop/switch region; other site 765963001635 flagellin A; Reviewed; Region: PRK12584 765963001636 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 765963001637 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 765963001638 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 765963001639 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 765963001640 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 765963001641 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 765963001642 minor groove reading motif; other site 765963001643 helix-hairpin-helix signature motif; other site 765963001644 active site 765963001645 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 765963001646 substrate binding site [chemical binding]; other site 765963001647 active site 765963001648 Outer membrane efflux protein; Region: OEP; pfam02321 765963001649 Outer membrane efflux protein; Region: OEP; pfam02321 765963001650 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 765963001651 HlyD family secretion protein; Region: HlyD_3; pfam13437 765963001652 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 765963001653 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001654 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 765963001655 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963001656 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963001657 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963001658 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963001659 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 765963001660 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963001661 Autotransporter beta-domain; Region: Autotransporter; pfam03797 765963001662 potential frameshift: common BLAST hit: gi|188527539|ref|YP_001910226.1| putative abc transporter, ATP-binding protein 765963001663 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 765963001664 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 765963001665 nucleotide binding pocket [chemical binding]; other site 765963001666 K-X-D-G motif; other site 765963001667 catalytic site [active] 765963001668 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 765963001669 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 765963001670 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 765963001671 Dimer interface [polypeptide binding]; other site 765963001672 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 765963001673 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 765963001674 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 765963001675 active site 765963001676 phosphorylation site [posttranslational modification] 765963001677 intermolecular recognition site; other site 765963001678 dimerization interface [polypeptide binding]; other site 765963001679 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 765963001680 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 765963001681 dimer interface [polypeptide binding]; other site 765963001682 anticodon binding site; other site 765963001683 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 765963001684 homodimer interface [polypeptide binding]; other site 765963001685 motif 1; other site 765963001686 active site 765963001687 motif 2; other site 765963001688 GAD domain; Region: GAD; pfam02938 765963001689 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 765963001690 active site 765963001691 motif 3; other site 765963001692 adenylate kinase; Reviewed; Region: adk; PRK00279 765963001693 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 765963001694 AMP-binding site [chemical binding]; other site 765963001695 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 765963001696 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 765963001697 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 765963001698 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 765963001699 dimer interface [polypeptide binding]; other site 765963001700 substrate binding site [chemical binding]; other site 765963001701 metal binding sites [ion binding]; metal-binding site 765963001702 MutS2 family protein; Region: mutS2; TIGR01069 765963001703 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 765963001704 Walker A/P-loop; other site 765963001705 ATP binding site [chemical binding]; other site 765963001706 Q-loop/lid; other site 765963001707 ABC transporter signature motif; other site 765963001708 Walker B; other site 765963001709 D-loop; other site 765963001710 H-loop/switch region; other site 765963001711 Smr domain; Region: Smr; pfam01713 765963001712 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 765963001713 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 765963001714 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765963001715 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765963001716 hypothetical protein; Provisional; Region: PRK05839 765963001717 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 765963001718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963001719 homodimer interface [polypeptide binding]; other site 765963001720 catalytic residue [active] 765963001721 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 765963001722 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 765963001723 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 765963001724 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 765963001725 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 765963001726 putative trimer interface [polypeptide binding]; other site 765963001727 putative CoA binding site [chemical binding]; other site 765963001728 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963001729 Sel1-like repeats; Region: SEL1; smart00671 765963001730 Sel1-like repeats; Region: SEL1; smart00671 765963001731 Sel1 repeat; Region: Sel1; cl02723 765963001732 Sel1-like repeats; Region: SEL1; smart00671 765963001733 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963001734 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963001735 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 765963001736 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 765963001737 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 765963001738 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 765963001739 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 765963001740 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 765963001741 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 765963001742 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 765963001743 nickel binding site [ion binding]; other site 765963001744 putative substrate-binding site; other site 765963001745 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001746 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 765963001747 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 765963001748 Uncharacterized conserved protein [Function unknown]; Region: COG1912 765963001749 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 765963001750 MraW methylase family; Region: Methyltransf_5; cl17771 765963001751 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001752 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 765963001753 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 765963001754 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 765963001755 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 765963001756 Response regulator receiver domain; Region: Response_reg; pfam00072 765963001757 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 765963001758 active site 765963001759 phosphorylation site [posttranslational modification] 765963001760 intermolecular recognition site; other site 765963001761 dimerization interface [polypeptide binding]; other site 765963001762 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 765963001763 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 765963001764 Walker A motif; other site 765963001765 ATP binding site [chemical binding]; other site 765963001766 Walker B motif; other site 765963001767 arginine finger; other site 765963001768 DNA gyrase subunit A; Validated; Region: PRK05560 765963001769 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 765963001770 CAP-like domain; other site 765963001771 active site 765963001772 primary dimer interface [polypeptide binding]; other site 765963001773 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001774 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001775 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001776 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001777 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001778 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765963001779 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 765963001780 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 765963001781 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 765963001782 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 765963001783 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 765963001784 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 765963001785 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 765963001786 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 765963001787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 765963001788 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 765963001789 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 765963001790 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 765963001791 putative acyltransferase; Provisional; Region: PRK05790 765963001792 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 765963001793 dimer interface [polypeptide binding]; other site 765963001794 active site 765963001795 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB [DNA replication, recombination, and repair]; Region: COG3298 765963001796 CfrBI restriction endonuclease; Region: RE_CfrBI; pfam09516 765963001797 potential frameshift: common BLAST hit: gi|108563097|ref|YP_627413.1| putative type II cytosine specific methyltransferase 765963001798 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 765963001799 active site 765963001800 catalytic site [active] 765963001801 substrate binding site [chemical binding]; other site 765963001802 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 765963001803 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 765963001804 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 765963001805 G1 box; other site 765963001806 GTP/Mg2+ binding site [chemical binding]; other site 765963001807 Switch I region; other site 765963001808 G2 box; other site 765963001809 G3 box; other site 765963001810 Switch II region; other site 765963001811 G4 box; other site 765963001812 G5 box; other site 765963001813 Nucleoside recognition; Region: Gate; pfam07670 765963001814 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 765963001815 Nucleoside recognition; Region: Gate; pfam07670 765963001816 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 765963001817 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 765963001818 N-terminal plug; other site 765963001819 ligand-binding site [chemical binding]; other site 765963001820 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 765963001821 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 765963001822 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 765963001823 Substrate binding site; other site 765963001824 Mg++ binding site; other site 765963001825 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 765963001826 active site 765963001827 substrate binding site [chemical binding]; other site 765963001828 CoA binding site [chemical binding]; other site 765963001829 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 765963001830 ATP cone domain; Region: ATP-cone; pfam03477 765963001831 Class I ribonucleotide reductase; Region: RNR_I; cd01679 765963001832 active site 765963001833 dimer interface [polypeptide binding]; other site 765963001834 catalytic residues [active] 765963001835 effector binding site; other site 765963001836 R2 peptide binding site; other site 765963001837 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 765963001838 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 765963001839 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 765963001840 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 765963001841 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 765963001842 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 765963001843 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 765963001844 DNA binding site [nucleotide binding] 765963001845 active site 765963001846 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 765963001847 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 765963001848 active site 765963001849 DNA binding site [nucleotide binding] 765963001850 Int/Topo IB signature motif; other site 765963001851 aspartate aminotransferase; Provisional; Region: PRK05764 765963001852 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 765963001853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963001854 homodimer interface [polypeptide binding]; other site 765963001855 catalytic residue [active] 765963001856 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001857 Predicted helicase [General function prediction only]; Region: COG4889 765963001858 Restriction endonuclease; Region: Mrr_cat; pfam04471 765963001859 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 765963001860 ATP binding site [chemical binding]; other site 765963001861 putative Mg++ binding site [ion binding]; other site 765963001862 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 765963001863 nucleotide binding region [chemical binding]; other site 765963001864 ATP-binding site [chemical binding]; other site 765963001865 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 765963001866 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 765963001867 Cysteine-rich domain; Region: CCG; pfam02754 765963001868 Cysteine-rich domain; Region: CCG; pfam02754 765963001869 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 765963001870 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 765963001871 HemN C-terminal domain; Region: HemN_C; pfam06969 765963001872 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 765963001873 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 765963001874 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 765963001875 Tetramer interface [polypeptide binding]; other site 765963001876 active site 765963001877 FMN-binding site [chemical binding]; other site 765963001878 ribonuclease III; Reviewed; Region: rnc; PRK00102 765963001879 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 765963001880 dimerization interface [polypeptide binding]; other site 765963001881 active site 765963001882 metal binding site [ion binding]; metal-binding site 765963001883 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 765963001884 dsRNA binding site [nucleotide binding]; other site 765963001885 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 765963001886 RNA/DNA hybrid binding site [nucleotide binding]; other site 765963001887 active site 765963001888 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 765963001889 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 765963001890 SurA N-terminal domain; Region: SurA_N; pfam09312 765963001891 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 765963001892 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 765963001893 GatB domain; Region: GatB_Yqey; smart00845 765963001894 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 765963001895 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 765963001896 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 765963001897 hypothetical protein; Provisional; Region: PRK08445 765963001898 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 765963001899 FeS/SAM binding site; other site 765963001900 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 765963001901 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 765963001902 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 765963001903 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 765963001904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 765963001905 Surface antigen; Region: Bac_surface_Ag; pfam01103 765963001906 hypothetical protein; Provisional; Region: PRK08444 765963001907 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 765963001908 FeS/SAM binding site; other site 765963001909 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 765963001910 Ferritin-like domain; Region: Ferritin; pfam00210 765963001911 ferroxidase diiron center [ion binding]; other site 765963001912 phosphoserine phosphatase SerB; Region: serB; TIGR00338 765963001913 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 765963001914 motif II; other site 765963001915 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 765963001916 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 765963001917 ligand binding site [chemical binding]; other site 765963001918 active site 765963001919 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 765963001920 Aspartase; Region: Aspartase; cd01357 765963001921 active sites [active] 765963001922 tetramer interface [polypeptide binding]; other site 765963001923 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 765963001924 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 765963001925 hinge; other site 765963001926 active site 765963001927 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 765963001928 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 765963001929 active site 765963001930 tetramer interface; other site 765963001931 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 765963001932 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 765963001933 N-acetyl-D-glucosamine binding site [chemical binding]; other site 765963001934 catalytic residue [active] 765963001935 YGGT family; Region: YGGT; pfam02325 765963001936 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 765963001937 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765963001938 active site 765963001939 HIGH motif; other site 765963001940 nucleotide binding site [chemical binding]; other site 765963001941 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 765963001942 active site 765963001943 KMSKS motif; other site 765963001944 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 765963001945 dimer interface [polypeptide binding]; other site 765963001946 FMN binding site [chemical binding]; other site 765963001947 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 765963001948 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 765963001949 active site 765963001950 NTP binding site [chemical binding]; other site 765963001951 metal binding triad [ion binding]; metal-binding site 765963001952 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 765963001953 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 765963001954 Ligand Binding Site [chemical binding]; other site 765963001955 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001956 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 765963001957 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 765963001958 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 765963001959 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 765963001960 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 765963001961 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 765963001962 Walker A/P-loop; other site 765963001963 ATP binding site [chemical binding]; other site 765963001964 Q-loop/lid; other site 765963001965 ABC transporter signature motif; other site 765963001966 Walker B; other site 765963001967 D-loop; other site 765963001968 H-loop/switch region; other site 765963001969 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 765963001970 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 765963001971 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 765963001972 Walker A motif; other site 765963001973 ATP binding site [chemical binding]; other site 765963001974 Walker B motif; other site 765963001975 arginine finger; other site 765963001976 Lysine efflux permease [General function prediction only]; Region: COG1279 765963001977 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 765963001978 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 765963001979 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001980 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 765963001981 active site 765963001982 homotetramer interface [polypeptide binding]; other site 765963001983 homodimer interface [polypeptide binding]; other site 765963001984 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 765963001985 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 765963001986 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963001987 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 765963001988 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 765963001989 FMN binding site [chemical binding]; other site 765963001990 active site 765963001991 catalytic residues [active] 765963001992 substrate binding site [chemical binding]; other site 765963001993 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 765963001994 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 765963001995 Ligand Binding Site [chemical binding]; other site 765963001996 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 765963001997 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963001998 G1 box; other site 765963001999 GTP/Mg2+ binding site [chemical binding]; other site 765963002000 G2 box; other site 765963002001 Switch I region; other site 765963002002 G3 box; other site 765963002003 Switch II region; other site 765963002004 G4 box; other site 765963002005 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 765963002006 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 765963002007 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 765963002008 FeS/SAM binding site; other site 765963002009 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 765963002010 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 765963002011 active site 765963002012 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 765963002013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 765963002014 catalytic residue [active] 765963002015 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 765963002016 tetramer interfaces [polypeptide binding]; other site 765963002017 binuclear metal-binding site [ion binding]; other site 765963002018 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 765963002019 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 765963002020 ATP-grasp domain; Region: ATP-grasp_4; cl17255 765963002021 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 765963002022 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 765963002023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765963002024 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 765963002025 nucleotide binding site/active site [active] 765963002026 HIT family signature motif; other site 765963002027 catalytic residue [active] 765963002028 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 765963002029 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 765963002030 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 765963002031 active site 765963002032 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 765963002033 Predicted GTPase [General function prediction only]; Region: COG3596 765963002034 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002035 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002036 G1 box; other site 765963002037 G1 box; other site 765963002038 GTP/Mg2+ binding site [chemical binding]; other site 765963002039 GTP/Mg2+ binding site [chemical binding]; other site 765963002040 G2 box; other site 765963002041 Switch I region; other site 765963002042 G3 box; other site 765963002043 Switch II region; other site 765963002044 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 765963002045 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 765963002046 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 765963002047 active site 765963002048 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 765963002049 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 765963002050 Interdomain contacts; other site 765963002051 Cytokine receptor motif; other site 765963002052 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 765963002053 Interdomain contacts; other site 765963002054 Cytokine receptor motif; other site 765963002055 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 765963002056 Interdomain contacts; other site 765963002057 Cytokine receptor motif; other site 765963002058 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 765963002059 S-adenosylmethionine binding site [chemical binding]; other site 765963002060 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765963002061 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 765963002062 Walker A/P-loop; other site 765963002063 ATP binding site [chemical binding]; other site 765963002064 Q-loop/lid; other site 765963002065 ABC transporter signature motif; other site 765963002066 Walker B; other site 765963002067 D-loop; other site 765963002068 H-loop/switch region; other site 765963002069 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 765963002070 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 765963002071 Peptidase family M23; Region: Peptidase_M23; pfam01551 765963002072 flagellar protein FlaG; Provisional; Region: PRK08452 765963002073 flagellar capping protein; Validated; Region: fliD; PRK08453 765963002074 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 765963002075 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 765963002076 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 765963002077 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 765963002078 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 765963002079 ATP binding site [chemical binding]; other site 765963002080 substrate interface [chemical binding]; other site 765963002081 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 765963002082 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 765963002083 putative active site; other site 765963002084 catalytic triad [active] 765963002085 putative dimer interface [polypeptide binding]; other site 765963002086 Predicted permease [General function prediction only]; Region: COG2056 765963002087 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 765963002088 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 765963002089 putative efflux protein, MATE family; Region: matE; TIGR00797 765963002090 phosphodiesterase; Provisional; Region: PRK12704 765963002091 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 765963002092 nucleic acid binding region [nucleotide binding]; other site 765963002093 G-X-X-G motif; other site 765963002094 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 765963002095 Zn2+ binding site [ion binding]; other site 765963002096 Mg2+ binding site [ion binding]; other site 765963002097 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 765963002098 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 765963002099 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 765963002100 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 765963002101 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 765963002102 Mu-like prophage protein [General function prediction only]; Region: COG3941 765963002103 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 765963002104 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 765963002105 FeS/SAM binding site; other site 765963002106 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 765963002107 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 765963002108 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 765963002109 GTP binding site; other site 765963002110 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 765963002111 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 765963002112 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 765963002113 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 765963002114 active site 765963002115 metal binding site [ion binding]; metal-binding site 765963002116 Nitronate monooxygenase; Region: NMO; pfam03060 765963002117 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 765963002118 FMN binding site [chemical binding]; other site 765963002119 substrate binding site [chemical binding]; other site 765963002120 putative catalytic residue [active] 765963002121 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 765963002122 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 765963002123 active site 765963002124 HIGH motif; other site 765963002125 dimer interface [polypeptide binding]; other site 765963002126 KMSKS motif; other site 765963002127 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 765963002128 RNA binding surface [nucleotide binding]; other site 765963002129 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 765963002130 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 765963002131 Zn2+ binding site [ion binding]; other site 765963002132 Mg2+ binding site [ion binding]; other site 765963002133 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 765963002134 synthetase active site [active] 765963002135 NTP binding site [chemical binding]; other site 765963002136 metal binding site [ion binding]; metal-binding site 765963002137 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 765963002138 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 765963002139 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 765963002140 putative nucleotide binding site [chemical binding]; other site 765963002141 uridine monophosphate binding site [chemical binding]; other site 765963002142 homohexameric interface [polypeptide binding]; other site 765963002143 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 765963002144 aconitate hydratase 2; Region: acnB; TIGR00117 765963002145 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 765963002146 substrate binding site [chemical binding]; other site 765963002147 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 765963002148 substrate binding site [chemical binding]; other site 765963002149 ligand binding site [chemical binding]; other site 765963002150 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 765963002151 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963002152 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 765963002153 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 765963002154 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 765963002155 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 765963002156 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 765963002157 nucleotide binding region [chemical binding]; other site 765963002158 ATP-binding site [chemical binding]; other site 765963002159 SEC-C motif; Region: SEC-C; pfam02810 765963002160 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 765963002161 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 765963002162 FtsX-like permease family; Region: FtsX; pfam02687 765963002163 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963002164 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963002165 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 765963002166 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963002167 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 765963002168 metal-binding site [ion binding] 765963002169 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 765963002170 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765963002171 Soluble P-type ATPase [General function prediction only]; Region: COG4087 765963002172 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 765963002173 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 765963002174 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 765963002175 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 765963002176 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 765963002177 active site 765963002178 catalytic residues [active] 765963002179 metal binding site [ion binding]; metal-binding site 765963002180 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 765963002181 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 765963002182 oligomer interface [polypeptide binding]; other site 765963002183 active site residues [active] 765963002184 trigger factor; Provisional; Region: tig; PRK01490 765963002185 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 765963002186 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 765963002187 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002188 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 765963002189 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 765963002190 trimer interface [polypeptide binding]; other site 765963002191 dimer interface [polypeptide binding]; other site 765963002192 putative active site [active] 765963002193 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 765963002194 MPT binding site; other site 765963002195 trimer interface [polypeptide binding]; other site 765963002196 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 765963002197 MoaE homodimer interface [polypeptide binding]; other site 765963002198 MoaD interaction [polypeptide binding]; other site 765963002199 active site residues [active] 765963002200 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 765963002201 MoaE interaction surface [polypeptide binding]; other site 765963002202 MoeB interaction surface [polypeptide binding]; other site 765963002203 thiocarboxylated glycine; other site 765963002204 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 765963002205 dimerization interface [polypeptide binding]; other site 765963002206 active site 765963002207 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 765963002208 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 765963002209 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 765963002210 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 765963002211 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 765963002212 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 765963002213 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 765963002214 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 765963002215 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 765963002216 RNA methyltransferase, RsmD family; Region: TIGR00095 765963002217 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 765963002218 Uncharacterized conserved protein [Function unknown]; Region: COG1565 765963002219 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 765963002220 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 765963002221 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 765963002222 ATP binding site [chemical binding]; other site 765963002223 substrate interface [chemical binding]; other site 765963002224 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 765963002225 flagellar motor protein MotA; Validated; Region: PRK08456 765963002226 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 765963002227 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 765963002228 ligand binding site [chemical binding]; other site 765963002229 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 765963002230 DEAD-like helicases superfamily; Region: DEXDc; smart00487 765963002231 ATP binding site [chemical binding]; other site 765963002232 putative Mg++ binding site [ion binding]; other site 765963002233 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963002234 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963002235 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963002236 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963002237 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 765963002238 dimer interface [polypeptide binding]; other site 765963002239 conserved gate region; other site 765963002240 ABC-ATPase subunit interface; other site 765963002241 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 765963002242 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765963002243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963002244 Walker A/P-loop; other site 765963002245 ATP binding site [chemical binding]; other site 765963002246 Q-loop/lid; other site 765963002247 ABC transporter signature motif; other site 765963002248 Walker B; other site 765963002249 D-loop; other site 765963002250 H-loop/switch region; other site 765963002251 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 765963002252 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 765963002253 GIY-YIG motif/motif A; other site 765963002254 active site 765963002255 catalytic site [active] 765963002256 putative DNA binding site [nucleotide binding]; other site 765963002257 metal binding site [ion binding]; metal-binding site 765963002258 UvrB/uvrC motif; Region: UVR; pfam02151 765963002259 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 765963002260 homoserine dehydrogenase; Provisional; Region: PRK06349 765963002261 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 765963002262 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 765963002263 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 765963002264 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 765963002265 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 765963002266 catalytic residues [active] 765963002267 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 765963002268 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 765963002269 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 765963002270 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 765963002271 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 765963002272 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 765963002273 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 765963002274 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 765963002275 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 765963002276 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 765963002277 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 765963002278 active site 765963002279 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 765963002280 indole acetimide hydrolase; Validated; Region: PRK07488 765963002281 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 765963002282 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 765963002283 CoA-binding site [chemical binding]; other site 765963002284 spermidine synthase; Provisional; Region: speE; PRK00536 765963002285 spermidine synthase; Provisional; Region: PRK00811 765963002286 GTP-binding protein Der; Reviewed; Region: PRK00093 765963002287 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 765963002288 G1 box; other site 765963002289 GTP/Mg2+ binding site [chemical binding]; other site 765963002290 Switch I region; other site 765963002291 G2 box; other site 765963002292 Switch II region; other site 765963002293 G3 box; other site 765963002294 G4 box; other site 765963002295 G5 box; other site 765963002296 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 765963002297 G1 box; other site 765963002298 GTP/Mg2+ binding site [chemical binding]; other site 765963002299 Switch I region; other site 765963002300 G2 box; other site 765963002301 G3 box; other site 765963002302 Switch II region; other site 765963002303 G4 box; other site 765963002304 G5 box; other site 765963002305 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 765963002306 IHF dimer interface [polypeptide binding]; other site 765963002307 IHF - DNA interface [nucleotide binding]; other site 765963002308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 765963002309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 765963002310 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 765963002311 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 765963002312 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 765963002313 NAD(P) binding site [chemical binding]; other site 765963002314 homodimer interface [polypeptide binding]; other site 765963002315 substrate binding site [chemical binding]; other site 765963002316 active site 765963002317 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 765963002318 Flavoprotein; Region: Flavoprotein; pfam02441 765963002319 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 765963002320 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 765963002321 active site 765963002322 thiamine phosphate binding site [chemical binding]; other site 765963002323 pyrophosphate binding site [ion binding]; other site 765963002324 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 765963002325 dimer interface [polypeptide binding]; other site 765963002326 substrate binding site [chemical binding]; other site 765963002327 ATP binding site [chemical binding]; other site 765963002328 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 765963002329 substrate binding site [chemical binding]; other site 765963002330 multimerization interface [polypeptide binding]; other site 765963002331 ATP binding site [chemical binding]; other site 765963002332 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 765963002333 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 765963002334 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 765963002335 ATP binding site [chemical binding]; other site 765963002336 putative Mg++ binding site [ion binding]; other site 765963002337 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963002338 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 765963002339 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963002340 potential frameshift: common BLAST hit: gi|208434761|ref|YP_002266427.1| type I restriction enzyme M protein 765963002341 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 765963002342 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 765963002343 active site 765963002344 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 765963002345 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963002346 Walker A/P-loop; other site 765963002347 ATP binding site [chemical binding]; other site 765963002348 Q-loop/lid; other site 765963002349 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 765963002350 ABC transporter; Region: ABC_tran_2; pfam12848 765963002351 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 765963002352 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 765963002353 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 765963002354 active site 765963002355 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 765963002356 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 765963002357 dimer interface [polypeptide binding]; other site 765963002358 active site 765963002359 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 765963002360 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 765963002361 putative ribose interaction site [chemical binding]; other site 765963002362 putative ADP binding site [chemical binding]; other site 765963002363 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 765963002364 active site 765963002365 nucleotide binding site [chemical binding]; other site 765963002366 HIGH motif; other site 765963002367 KMSKS motif; other site 765963002368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765963002369 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 765963002370 NAD(P) binding site [chemical binding]; other site 765963002371 active site 765963002372 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 765963002373 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 765963002374 active site 765963002375 motif I; other site 765963002376 motif II; other site 765963002377 Uncharacterized conserved protein [Function unknown]; Region: COG2836 765963002378 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 765963002379 pantothenate kinase; Reviewed; Region: PRK13333 765963002380 PQQ-like domain; Region: PQQ_2; pfam13360 765963002381 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 765963002382 trimer interface [polypeptide binding]; other site 765963002383 active site 765963002384 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 765963002385 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 765963002386 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 765963002387 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 765963002388 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 765963002389 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 765963002390 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 765963002391 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 765963002392 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 765963002393 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 765963002394 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 765963002395 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 765963002396 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 765963002397 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 765963002398 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 765963002399 PhnA protein; Region: PhnA; pfam03831 765963002400 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 765963002401 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 765963002402 tetramer interface [polypeptide binding]; other site 765963002403 heme binding pocket [chemical binding]; other site 765963002404 NADPH binding site [chemical binding]; other site 765963002405 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 765963002406 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 765963002407 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 765963002408 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 765963002409 active site 765963002410 putative DNA-binding cleft [nucleotide binding]; other site 765963002411 dimer interface [polypeptide binding]; other site 765963002412 Uncharacterized conserved protein [Function unknown]; Region: COG1432 765963002413 LabA_like proteins; Region: LabA_like; cd06167 765963002414 putative metal binding site [ion binding]; other site 765963002415 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963002416 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963002417 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963002418 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 765963002419 RuvA N terminal domain; Region: RuvA_N; pfam01330 765963002420 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 765963002421 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 765963002422 MviN-like protein; Region: MVIN; pfam03023 765963002423 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 765963002424 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 765963002425 active site 765963002426 HIGH motif; other site 765963002427 Poxvirus poly(A) polymerase nucleotidyltransferase domain; Region: Pox_polyA_pol; pfam03296 765963002428 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 765963002429 KMSKS motif; other site 765963002430 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 765963002431 tRNA binding surface [nucleotide binding]; other site 765963002432 anticodon binding site; other site 765963002433 Vacuolating cyotoxin; Region: VacA; pfam02691 765963002434 Autotransporter beta-domain; Region: Autotransporter; pfam03797 765963002435 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765963002436 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 765963002437 Walker A/P-loop; other site 765963002438 ATP binding site [chemical binding]; other site 765963002439 Q-loop/lid; other site 765963002440 ABC transporter signature motif; other site 765963002441 Walker B; other site 765963002442 D-loop; other site 765963002443 H-loop/switch region; other site 765963002444 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 765963002445 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 765963002446 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 765963002447 ABC-ATPase subunit interface; other site 765963002448 dimer interface [polypeptide binding]; other site 765963002449 putative PBP binding regions; other site 765963002450 short chain dehydrogenase; Validated; Region: PRK06182 765963002451 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 765963002452 NADP binding site [chemical binding]; other site 765963002453 active site 765963002454 steroid binding site; other site 765963002455 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 765963002456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 765963002457 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002458 Hydrogenase formation hypA family; Region: HypD; cl12072 765963002459 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 765963002460 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 765963002461 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 765963002462 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 765963002463 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 765963002464 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 765963002465 Acetokinase family; Region: Acetate_kinase; cl17229 765963002466 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 765963002467 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 765963002468 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 765963002469 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 765963002470 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 765963002471 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 765963002472 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 765963002473 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 765963002474 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 765963002475 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 765963002476 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 765963002477 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 765963002478 S-adenosylmethionine binding site [chemical binding]; other site 765963002479 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 765963002480 Part of AAA domain; Region: AAA_19; pfam13245 765963002481 Family description; Region: UvrD_C_2; pfam13538 765963002482 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002483 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002484 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963002485 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 765963002486 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 765963002487 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 765963002488 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 765963002489 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 765963002490 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765963002491 ATP-grasp domain; Region: ATP-grasp_4; cl17255 765963002492 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 765963002493 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765963002494 ATP-grasp domain; Region: ATP-grasp_4; cl17255 765963002495 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 765963002496 IMP binding site; other site 765963002497 dimer interface [polypeptide binding]; other site 765963002498 interdomain contacts; other site 765963002499 partial ornithine binding site; other site 765963002500 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 765963002501 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 765963002502 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 765963002503 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 765963002504 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 765963002505 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963002506 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963002507 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 765963002508 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 765963002509 Autotransporter beta-domain; Region: Autotransporter; pfam03797 765963002510 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002511 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 765963002512 active site 1 [active] 765963002513 dimer interface [polypeptide binding]; other site 765963002514 hexamer interface [polypeptide binding]; other site 765963002515 active site 2 [active] 765963002516 recombination protein RecR; Region: recR; TIGR00615 765963002517 RecR protein; Region: RecR; pfam02132 765963002518 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 765963002519 putative active site [active] 765963002520 putative metal-binding site [ion binding]; other site 765963002521 tetramer interface [polypeptide binding]; other site 765963002522 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 765963002523 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 765963002524 Permutation of conserved domain; other site 765963002525 active site 765963002526 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 765963002527 heat shock protein HtpX; Provisional; Region: PRK02870 765963002528 GTP cyclohydrolase I; Region: folE; TIGR00063 765963002529 GTP cyclohydrolase I; Provisional; Region: PLN03044 765963002530 active site 765963002531 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 765963002532 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 765963002533 substrate binding pocket [chemical binding]; other site 765963002534 chain length determination region; other site 765963002535 substrate-Mg2+ binding site; other site 765963002536 catalytic residues [active] 765963002537 aspartate-rich region 1; other site 765963002538 active site lid residues [active] 765963002539 aspartate-rich region 2; other site 765963002540 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 765963002541 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 765963002542 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 765963002543 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 765963002544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 765963002545 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 765963002546 Coenzyme A binding pocket [chemical binding]; other site 765963002547 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002548 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 765963002549 putative substrate translocation pore; other site 765963002550 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963002551 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963002552 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 765963002553 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 765963002554 dimer interface [polypeptide binding]; other site 765963002555 conserved gate region; other site 765963002556 putative PBP binding loops; other site 765963002557 ABC-ATPase subunit interface; other site 765963002558 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 765963002559 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 765963002560 substrate binding pocket [chemical binding]; other site 765963002561 membrane-bound complex binding site; other site 765963002562 hinge residues; other site 765963002563 alanine racemase; Region: alr; TIGR00492 765963002564 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 765963002565 active site 765963002566 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 765963002567 dimer interface [polypeptide binding]; other site 765963002568 substrate binding site [chemical binding]; other site 765963002569 catalytic residues [active] 765963002570 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 765963002571 amino acid carrier protein; Region: agcS; TIGR00835 765963002572 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 765963002573 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 765963002574 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 765963002575 homotrimer interaction site [polypeptide binding]; other site 765963002576 putative active site [active] 765963002577 TRL-like protein family; Region: TRL; pfam13146 765963002578 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 765963002579 X-domain of DnaJ-containing; Region: DnaJ-X; cl14778 765963002580 Uncharacterized conserved protein [Function unknown]; Region: COG1576 765963002581 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 765963002582 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 765963002583 putative recombination protein RecO; Provisional; Region: PRK13908 765963002584 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 765963002585 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 765963002586 dimer interface [polypeptide binding]; other site 765963002587 FMN binding site [chemical binding]; other site 765963002588 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 765963002589 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 765963002590 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 765963002591 active site 765963002592 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 765963002593 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 765963002594 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 765963002595 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 765963002596 Putative zinc ribbon domain; Region: DUF164; pfam02591 765963002597 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 765963002598 Uncharacterized conserved protein [Function unknown]; Region: COG0327 765963002599 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 765963002600 dimer interface [polypeptide binding]; other site 765963002601 motif 1; other site 765963002602 active site 765963002603 motif 2; other site 765963002604 motif 3; other site 765963002605 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 765963002606 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 765963002607 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 765963002608 potential frameshift: common BLAST hit: gi|254779561|ref|YP_003057667.1| putative ATPase 765963002609 potential frameshift: common BLAST hit: gi|254779561|ref|YP_003057667.1| putative ATPase 765963002610 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 765963002611 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002612 G1 box; other site 765963002613 GTP/Mg2+ binding site [chemical binding]; other site 765963002614 G2 box; other site 765963002615 Switch I region; other site 765963002616 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002617 G3 box; other site 765963002618 Switch II region; other site 765963002619 G4 box; other site 765963002620 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 765963002621 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002622 G3 box; other site 765963002623 Switch II region; other site 765963002624 G4 box; other site 765963002625 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 765963002626 G1 box; other site 765963002627 GTP/Mg2+ binding site [chemical binding]; other site 765963002628 G2 box; other site 765963002629 Switch I region; other site 765963002630 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 765963002631 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 765963002632 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 765963002633 Peptidase family M23; Region: Peptidase_M23; pfam01551 765963002634 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 765963002635 HlyD family secretion protein; Region: HlyD_3; pfam13437 765963002636 Outer membrane efflux protein; Region: OEP; pfam02321 765963002637 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 765963002638 phosphoglyceromutase; Provisional; Region: PRK05434 765963002639 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 765963002640 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 765963002641 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 765963002642 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 765963002643 inhibitor-cofactor binding pocket; inhibition site 765963002644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963002645 catalytic residue [active] 765963002646 SurA N-terminal domain; Region: SurA_N_3; cl07813 765963002647 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 765963002648 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 765963002649 cell division protein FtsA; Region: ftsA; TIGR01174 765963002650 Cell division protein FtsA; Region: FtsA; smart00842 765963002651 Cell division protein FtsA; Region: FtsA; pfam14450 765963002652 cell division protein FtsZ; Validated; Region: PRK09330 765963002653 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 765963002654 nucleotide binding site [chemical binding]; other site 765963002655 SulA interaction site; other site 765963002656 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 765963002657 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 765963002658 Probable transposase; Region: OrfB_IS605; pfam01385 765963002659 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 765963002660 Mechanosensitive ion channel; Region: MS_channel; pfam00924 765963002661 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963002662 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963002663 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963002664 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 765963002665 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 765963002666 DHH family; Region: DHH; pfam01368 765963002667 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 765963002668 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 765963002669 active site 765963002670 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 765963002671 catalytic residues [active] 765963002672 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 765963002673 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 765963002674 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 765963002675 putative ADP-binding pocket [chemical binding]; other site 765963002676 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 765963002677 active site 2 [active] 765963002678 active site 1 [active] 765963002679 Methyltransferase domain; Region: Methyltransf_23; pfam13489 765963002680 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 765963002681 S-adenosylmethionine binding site [chemical binding]; other site 765963002682 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 765963002683 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 765963002684 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 765963002685 active site 765963002686 HIGH motif; other site 765963002687 KMSKS motif; other site 765963002688 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 765963002689 anticodon binding site; other site 765963002690 tRNA binding surface [nucleotide binding]; other site 765963002691 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 765963002692 dimer interface [polypeptide binding]; other site 765963002693 putative tRNA-binding site [nucleotide binding]; other site 765963002694 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 765963002695 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 765963002696 S-adenosylmethionine binding site [chemical binding]; other site 765963002697 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 765963002698 Mechanosensitive ion channel; Region: MS_channel; pfam00924 765963002699 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 765963002700 GMP synthase; Reviewed; Region: guaA; PRK00074 765963002701 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 765963002702 AMP/PPi binding site [chemical binding]; other site 765963002703 candidate oxyanion hole; other site 765963002704 catalytic triad [active] 765963002705 potential glutamine specificity residues [chemical binding]; other site 765963002706 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 765963002707 ATP Binding subdomain [chemical binding]; other site 765963002708 Ligand Binding sites [chemical binding]; other site 765963002709 Dimerization subdomain; other site 765963002710 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 765963002711 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 765963002712 molybdopterin cofactor binding site [chemical binding]; other site 765963002713 substrate binding site [chemical binding]; other site 765963002714 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 765963002715 molybdopterin cofactor binding site; other site 765963002716 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 765963002717 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 765963002718 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 765963002719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 765963002720 catalytic residue [active] 765963002721 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 765963002722 nucleotide binding site/active site [active] 765963002723 HIT family signature motif; other site 765963002724 catalytic residue [active] 765963002725 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 765963002726 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 765963002727 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 765963002728 dimer interface [polypeptide binding]; other site 765963002729 motif 1; other site 765963002730 active site 765963002731 motif 2; other site 765963002732 motif 3; other site 765963002733 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 765963002734 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 765963002735 putative tRNA-binding site [nucleotide binding]; other site 765963002736 tRNA synthetase B5 domain; Region: B5; pfam03484 765963002737 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 765963002738 dimer interface [polypeptide binding]; other site 765963002739 motif 1; other site 765963002740 motif 3; other site 765963002741 motif 2; other site 765963002742 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 765963002743 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 765963002744 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 765963002745 hinge; other site 765963002746 active site 765963002747 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 765963002748 LytB protein; Region: LYTB; pfam02401 765963002749 ribosomal protein S1; Region: rpsA; TIGR00717 765963002750 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 765963002751 RNA binding site [nucleotide binding]; other site 765963002752 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 765963002753 RNA binding site [nucleotide binding]; other site 765963002754 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 765963002755 RNA binding site [nucleotide binding]; other site 765963002756 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 765963002757 RNA binding site [nucleotide binding]; other site 765963002758 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 765963002759 RNA binding site [nucleotide binding]; other site 765963002760 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 765963002761 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 765963002762 ligand binding site [chemical binding]; other site 765963002763 NAD binding site [chemical binding]; other site 765963002764 dimerization interface [polypeptide binding]; other site 765963002765 catalytic site [active] 765963002766 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 765963002767 putative L-serine binding site [chemical binding]; other site 765963002768 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 765963002769 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 765963002770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 765963002771 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 765963002772 catalytic residue [active] 765963002773 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 765963002774 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 765963002775 putative active site [active] 765963002776 putative metal binding site [ion binding]; other site 765963002777 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 765963002778 putative CheA interaction surface; other site 765963002779 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 765963002780 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 765963002781 active site 765963002782 phosphorylation site [posttranslational modification] 765963002783 intermolecular recognition site; other site 765963002784 dimerization interface [polypeptide binding]; other site 765963002785 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 765963002786 putative binding surface; other site 765963002787 active site 765963002788 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 765963002789 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 765963002790 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 765963002791 ATP binding site [chemical binding]; other site 765963002792 Mg2+ binding site [ion binding]; other site 765963002793 G-X-G motif; other site 765963002794 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 765963002795 Response regulator receiver domain; Region: Response_reg; pfam00072 765963002796 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 765963002797 active site 765963002798 phosphorylation site [posttranslational modification] 765963002799 intermolecular recognition site; other site 765963002800 dimerization interface [polypeptide binding]; other site 765963002801 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 765963002802 putative CheA interaction surface; other site 765963002803 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 765963002804 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 765963002805 dimer interface [polypeptide binding]; other site 765963002806 catalytic triad [active] 765963002807 peroxidatic and resolving cysteines [active] 765963002808 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 765963002809 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 765963002810 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 765963002811 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 765963002812 S-adenosylmethionine binding site [chemical binding]; other site 765963002813 primosome assembly protein PriA; Validated; Region: PRK05580 765963002814 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 765963002815 ATP binding site [chemical binding]; other site 765963002816 putative Mg++ binding site [ion binding]; other site 765963002817 helicase superfamily c-terminal domain; Region: HELICc; smart00490 765963002818 Sporulation related domain; Region: SPOR; pfam05036 765963002819 Peptidase family M48; Region: Peptidase_M48; pfam01435 765963002820 HemK family putative methylases; Region: hemK_fam; TIGR00536 765963002821 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 765963002822 glutamate dehydrogenase; Provisional; Region: PRK09414 765963002823 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 765963002824 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 765963002825 NAD(P) binding site [chemical binding]; other site 765963002826 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 765963002827 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 765963002828 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 765963002829 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 765963002830 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 765963002831 catalytic residues [active] 765963002832 ferrochelatase; Region: hemH; TIGR00109 765963002833 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 765963002834 C-terminal domain interface [polypeptide binding]; other site 765963002835 active site 765963002836 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 765963002837 active site 765963002838 N-terminal domain interface [polypeptide binding]; other site 765963002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 765963002840 RNA methyltransferase, RsmE family; Region: TIGR00046 765963002841 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002842 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 765963002843 trimer interface [polypeptide binding]; other site 765963002844 active site 765963002845 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 765963002846 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 765963002847 carboxyltransferase (CT) interaction site; other site 765963002848 biotinylation site [posttranslational modification]; other site 765963002849 biotin carboxylase; Validated; Region: PRK08462 765963002850 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765963002851 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 765963002852 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 765963002853 Methyltransferase domain; Region: Methyltransf_26; pfam13659 765963002854 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 765963002855 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 765963002856 inhibitor-cofactor binding pocket; inhibition site 765963002857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963002858 catalytic residue [active] 765963002859 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 765963002860 dimer interface [polypeptide binding]; other site 765963002861 putative radical transfer pathway; other site 765963002862 diiron center [ion binding]; other site 765963002863 tyrosyl radical; other site 765963002864 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 765963002865 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 765963002866 S-adenosylmethionine binding site [chemical binding]; other site 765963002867 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 765963002868 Predicted permeases [General function prediction only]; Region: COG0795 765963002869 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 765963002870 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 765963002871 dimerization interface 3.5A [polypeptide binding]; other site 765963002872 active site 765963002873 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 765963002874 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 765963002875 NAD binding site [chemical binding]; other site 765963002876 homodimer interface [polypeptide binding]; other site 765963002877 active site 765963002878 substrate binding site [chemical binding]; other site 765963002879 potential protein location (hypothetical protein HPPC_05315 [Helicobacter pylori PeCan4]) that overlaps RNA (tRNA-I) 765963002880 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 765963002881 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 765963002882 putative NAD(P) binding site [chemical binding]; other site 765963002883 homodimer interface [polypeptide binding]; other site 765963002884 homotetramer interface [polypeptide binding]; other site 765963002885 active site 765963002886 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963002887 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 765963002888 binding surface 765963002889 TPR motif; other site 765963002890 Sel1-like repeats; Region: SEL1; smart00671 765963002891 Sel1 repeat; Region: Sel1; cl02723 765963002892 Sel1-like repeats; Region: SEL1; smart00671 765963002893 Entner-Doudoroff aldolase; Region: eda; TIGR01182 765963002894 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 765963002895 active site 765963002896 intersubunit interface [polypeptide binding]; other site 765963002897 catalytic residue [active] 765963002898 phosphogluconate dehydratase; Validated; Region: PRK09054 765963002899 6-phosphogluconate dehydratase; Region: edd; TIGR01196 765963002900 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 765963002901 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 765963002902 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 765963002903 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 765963002904 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 765963002905 putative active site [active] 765963002906 glucokinase, proteobacterial type; Region: glk; TIGR00749 765963002907 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 765963002908 nucleotide binding site [chemical binding]; other site 765963002909 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 765963002910 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 765963002911 putative NAD(P) binding site [chemical binding]; other site 765963002912 putative substrate binding site [chemical binding]; other site 765963002913 catalytic Zn binding site [ion binding]; other site 765963002914 structural Zn binding site [ion binding]; other site 765963002915 dimer interface [polypeptide binding]; other site 765963002916 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963002917 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 765963002918 active site 765963002919 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002920 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 765963002921 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 765963002922 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 765963002923 4Fe-4S binding domain; Region: Fer4; pfam00037 765963002924 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 765963002925 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 765963002926 dimer interface [polypeptide binding]; other site 765963002927 PYR/PP interface [polypeptide binding]; other site 765963002928 TPP binding site [chemical binding]; other site 765963002929 substrate binding site [chemical binding]; other site 765963002930 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 765963002931 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 765963002932 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 765963002933 TPP-binding site [chemical binding]; other site 765963002934 putative dimer interface [polypeptide binding]; other site 765963002935 adenylosuccinate lyase; Provisional; Region: PRK08470 765963002936 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 765963002937 tetramer interface [polypeptide binding]; other site 765963002938 active site 765963002939 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 765963002940 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963002941 excinuclease ABC subunit B; Provisional; Region: PRK05298 765963002942 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 765963002943 ATP binding site [chemical binding]; other site 765963002944 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 765963002945 putative Mg++ binding site [ion binding]; other site 765963002946 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 765963002947 nucleotide binding region [chemical binding]; other site 765963002948 ATP-binding site [chemical binding]; other site 765963002949 Ultra-violet resistance protein B; Region: UvrB; pfam12344 765963002950 UvrB/uvrC motif; Region: UVR; pfam02151 765963002951 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 765963002952 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 765963002953 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 765963002954 binding surface 765963002955 TPR motif; other site 765963002956 Sel1-like repeats; Region: SEL1; smart00671 765963002957 Sel1-like repeats; Region: SEL1; smart00671 765963002958 Sel1-like repeats; Region: SEL1; smart00671 765963002959 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 765963002960 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 765963002961 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 765963002962 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 765963002963 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 765963002964 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 765963002965 cofactor binding site; other site 765963002966 DNA binding site [nucleotide binding] 765963002967 substrate interaction site [chemical binding]; other site 765963002968 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 765963002969 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 765963002970 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 765963002971 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 765963002972 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 765963002973 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 765963002974 ligand binding site [chemical binding]; other site 765963002975 translocation protein TolB; Provisional; Region: tolB; PRK04043 765963002976 TolB amino-terminal domain; Region: TolB_N; pfam04052 765963002977 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 765963002978 TonB C terminal; Region: TonB_2; pfam13103 765963002979 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 765963002980 TolR protein; Region: tolR; TIGR02801 765963002981 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 765963002982 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 765963002983 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 765963002984 gamma subunit interface [polypeptide binding]; other site 765963002985 epsilon subunit interface [polypeptide binding]; other site 765963002986 LBP interface [polypeptide binding]; other site 765963002987 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 765963002988 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 765963002989 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 765963002990 alpha subunit interaction interface [polypeptide binding]; other site 765963002991 Walker A motif; other site 765963002992 ATP binding site [chemical binding]; other site 765963002993 Walker B motif; other site 765963002994 inhibitor binding site; inhibition site 765963002995 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 765963002996 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 765963002997 core domain interface [polypeptide binding]; other site 765963002998 delta subunit interface [polypeptide binding]; other site 765963002999 epsilon subunit interface [polypeptide binding]; other site 765963003000 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 765963003001 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 765963003002 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 765963003003 beta subunit interaction interface [polypeptide binding]; other site 765963003004 Walker A motif; other site 765963003005 ATP binding site [chemical binding]; other site 765963003006 Walker B motif; other site 765963003007 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 765963003008 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 765963003009 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 765963003010 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 765963003011 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 765963003012 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 765963003013 ParB-like nuclease domain; Region: ParB; smart00470 765963003014 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 765963003015 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 765963003016 P-loop; other site 765963003017 Magnesium ion binding site [ion binding]; other site 765963003018 biotin--protein ligase; Provisional; Region: PRK08477 765963003019 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 765963003020 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 765963003021 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 765963003022 putative active site [active] 765963003023 substrate binding site [chemical binding]; other site 765963003024 putative cosubstrate binding site; other site 765963003025 catalytic site [active] 765963003026 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 765963003027 substrate binding site [chemical binding]; other site 765963003028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 765963003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 765963003030 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 765963003031 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 765963003032 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 765963003033 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 765963003034 RimM N-terminal domain; Region: RimM; pfam01782 765963003035 PRC-barrel domain; Region: PRC; pfam05239 765963003036 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 765963003037 KH domain; Region: KH_4; pfam13083 765963003038 G-X-X-G motif; other site 765963003039 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 765963003040 signal recognition particle protein; Provisional; Region: PRK10867 765963003041 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 765963003042 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 765963003043 P loop; other site 765963003044 GTP binding site [chemical binding]; other site 765963003045 Signal peptide binding domain; Region: SRP_SPB; pfam02978 765963003046 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 765963003047 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765963003048 active site 765963003049 HIGH motif; other site 765963003050 nucleotide binding site [chemical binding]; other site 765963003051 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 765963003052 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 765963003053 active site 765963003054 KMSKS motif; other site 765963003055 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 765963003056 anticodon binding site; other site 765963003057 flagellar assembly protein FliW; Provisional; Region: PRK13283 765963003058 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 765963003059 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 765963003060 active site 765963003061 homodimer interface [polypeptide binding]; other site 765963003062 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003063 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003064 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 765963003065 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 765963003066 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 765963003067 Fic/DOC family; Region: Fic; cl00960 765963003068 metal-binding heat shock protein; Provisional; Region: PRK00016 765963003069 flavodoxin FldA; Validated; Region: PRK09267 765963003070 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 765963003071 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 765963003072 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 765963003073 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 765963003074 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 765963003075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 765963003076 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 765963003077 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 765963003078 active site 765963003079 dimer interface [polypeptide binding]; other site 765963003080 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 765963003081 dimer interface [polypeptide binding]; other site 765963003082 active site 765963003083 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 765963003084 carbon starvation protein A; Provisional; Region: PRK15015 765963003085 Carbon starvation protein CstA; Region: CstA; pfam02554 765963003086 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 765963003087 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 765963003088 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 765963003089 dimer interface [polypeptide binding]; other site 765963003090 conserved gate region; other site 765963003091 putative PBP binding loops; other site 765963003092 ABC-ATPase subunit interface; other site 765963003093 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 765963003094 dimer interface [polypeptide binding]; other site 765963003095 conserved gate region; other site 765963003096 putative PBP binding loops; other site 765963003097 ABC-ATPase subunit interface; other site 765963003098 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765963003099 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 765963003100 Walker A/P-loop; other site 765963003101 ATP binding site [chemical binding]; other site 765963003102 Q-loop/lid; other site 765963003103 ABC transporter signature motif; other site 765963003104 Walker B; other site 765963003105 D-loop; other site 765963003106 H-loop/switch region; other site 765963003107 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 765963003108 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 765963003109 substrate binding pocket [chemical binding]; other site 765963003110 membrane-bound complex binding site; other site 765963003111 hinge residues; other site 765963003112 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 765963003113 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 765963003114 putative substrate translocation pore; other site 765963003115 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 765963003116 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003117 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 765963003118 phosphopentomutase; Provisional; Region: PRK05362 765963003119 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 765963003120 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 765963003121 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 765963003122 Nucleoside recognition; Region: Gate; pfam07670 765963003123 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 765963003124 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 765963003125 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765963003126 putative substrate translocation pore; other site 765963003127 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 765963003128 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 765963003129 Ligand Binding Site [chemical binding]; other site 765963003130 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 765963003131 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 765963003132 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 765963003133 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 765963003134 putative arabinose transporter; Provisional; Region: PRK03545 765963003135 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 765963003136 putative substrate translocation pore; other site 765963003137 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 765963003138 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 765963003139 active site 765963003140 zinc binding site [ion binding]; other site 765963003141 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 765963003142 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 765963003143 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 765963003144 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 765963003145 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 765963003146 dimer interface [polypeptide binding]; other site 765963003147 motif 1; other site 765963003148 active site 765963003149 motif 2; other site 765963003150 motif 3; other site 765963003151 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 765963003152 anticodon binding site; other site 765963003153 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963003154 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 765963003155 putative active site [active] 765963003156 elongation factor G; Reviewed; Region: PRK00007 765963003157 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 765963003158 G1 box; other site 765963003159 putative GEF interaction site [polypeptide binding]; other site 765963003160 GTP/Mg2+ binding site [chemical binding]; other site 765963003161 Switch I region; other site 765963003162 G2 box; other site 765963003163 G3 box; other site 765963003164 Switch II region; other site 765963003165 G4 box; other site 765963003166 G5 box; other site 765963003167 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 765963003168 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 765963003169 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 765963003170 30S ribosomal protein S7; Validated; Region: PRK05302 765963003171 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 765963003172 S17 interaction site [polypeptide binding]; other site 765963003173 S8 interaction site; other site 765963003174 16S rRNA interaction site [nucleotide binding]; other site 765963003175 streptomycin interaction site [chemical binding]; other site 765963003176 23S rRNA interaction site [nucleotide binding]; other site 765963003177 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 765963003178 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 765963003179 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 765963003180 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 765963003181 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 765963003182 RPB11 interaction site [polypeptide binding]; other site 765963003183 RPB12 interaction site [polypeptide binding]; other site 765963003184 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 765963003185 RPB3 interaction site [polypeptide binding]; other site 765963003186 RPB1 interaction site [polypeptide binding]; other site 765963003187 RPB11 interaction site [polypeptide binding]; other site 765963003188 RPB10 interaction site [polypeptide binding]; other site 765963003189 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 765963003190 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 765963003191 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 765963003192 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 765963003193 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 765963003194 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 765963003195 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 765963003196 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 765963003197 DNA binding site [nucleotide binding] 765963003198 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 765963003199 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 765963003200 core dimer interface [polypeptide binding]; other site 765963003201 peripheral dimer interface [polypeptide binding]; other site 765963003202 L10 interface [polypeptide binding]; other site 765963003203 L11 interface [polypeptide binding]; other site 765963003204 putative EF-Tu interaction site [polypeptide binding]; other site 765963003205 putative EF-G interaction site [polypeptide binding]; other site 765963003206 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 765963003207 23S rRNA interface [nucleotide binding]; other site 765963003208 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 765963003209 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 765963003210 mRNA/rRNA interface [nucleotide binding]; other site 765963003211 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 765963003212 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 765963003213 23S rRNA interface [nucleotide binding]; other site 765963003214 L7/L12 interface [polypeptide binding]; other site 765963003215 putative thiostrepton binding site; other site 765963003216 L25 interface [polypeptide binding]; other site 765963003217 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 765963003218 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 765963003219 putative homodimer interface [polypeptide binding]; other site 765963003220 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 765963003221 heterodimer interface [polypeptide binding]; other site 765963003222 homodimer interface [polypeptide binding]; other site 765963003223 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 765963003224 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 765963003225 elongation factor Tu; Reviewed; Region: PRK00049 765963003226 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 765963003227 G1 box; other site 765963003228 GEF interaction site [polypeptide binding]; other site 765963003229 GTP/Mg2+ binding site [chemical binding]; other site 765963003230 Switch I region; other site 765963003231 G2 box; other site 765963003232 G3 box; other site 765963003233 Switch II region; other site 765963003234 G4 box; other site 765963003235 G5 box; other site 765963003236 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 765963003237 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 765963003238 Antibiotic Binding Site [chemical binding]; other site 765963003239 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 765963003240 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 765963003241 Walker A/P-loop; other site 765963003242 ATP binding site [chemical binding]; other site 765963003243 Q-loop/lid; other site 765963003244 ABC transporter signature motif; other site 765963003245 Walker B; other site 765963003246 D-loop; other site 765963003247 H-loop/switch region; other site 765963003248 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765963003249 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 765963003250 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 765963003251 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 765963003252 ICEA Protein; Region: ICEA; pfam05315 765963003253 ICEA Protein; Region: ICEA; pfam05315 765963003254 serine O-acetyltransferase; Region: cysE; TIGR01172 765963003255 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 765963003256 trimer interface [polypeptide binding]; other site 765963003257 active site 765963003258 substrate binding site [chemical binding]; other site 765963003259 CoA binding site [chemical binding]; other site 765963003260 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 765963003261 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 765963003262 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 765963003263 oligomer interface [polypeptide binding]; other site 765963003264 RNA binding site [nucleotide binding]; other site 765963003265 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 765963003266 oligomer interface [polypeptide binding]; other site 765963003267 RNA binding site [nucleotide binding]; other site 765963003268 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 765963003269 putative nucleic acid binding region [nucleotide binding]; other site 765963003270 G-X-X-G motif; other site 765963003271 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 765963003272 RNA binding site [nucleotide binding]; other site 765963003273 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 765963003274 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 765963003275 Organic solvent tolerance protein; Region: OstA_C; pfam04453 765963003276 Predicted membrane protein/domain [Function unknown]; Region: COG1714 765963003277 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 765963003278 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 765963003279 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 765963003280 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 765963003281 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 765963003282 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 765963003283 Walker A/P-loop; other site 765963003284 ATP binding site [chemical binding]; other site 765963003285 Q-loop/lid; other site 765963003286 ABC transporter signature motif; other site 765963003287 Walker B; other site 765963003288 D-loop; other site 765963003289 H-loop/switch region; other site 765963003290 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 765963003291 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 765963003292 catalytic residue [active] 765963003293 putative FPP diphosphate binding site; other site 765963003294 putative FPP binding hydrophobic cleft; other site 765963003295 dimer interface [polypeptide binding]; other site 765963003296 putative IPP diphosphate binding site; other site 765963003297 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 765963003298 FAD binding domain; Region: FAD_binding_4; pfam01565 765963003299 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 765963003300 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 765963003301 active site residue [active] 765963003302 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 765963003303 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 765963003304 active site 765963003305 camphor resistance protein CrcB; Provisional; Region: PRK14204 765963003306 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 765963003307 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 765963003308 FeS/SAM binding site; other site 765963003309 HemN C-terminal domain; Region: HemN_C; pfam06969 765963003310 Cytochrome c553 [Energy production and conversion]; Region: COG2863 765963003311 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 765963003312 putative active site [active] 765963003313 Ap4A binding site [chemical binding]; other site 765963003314 nudix motif; other site 765963003315 putative metal binding site [ion binding]; other site 765963003316 aspartate kinase; Reviewed; Region: PRK06635 765963003317 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 765963003318 putative nucleotide binding site [chemical binding]; other site 765963003319 putative catalytic residues [active] 765963003320 putative Mg ion binding site [ion binding]; other site 765963003321 putative aspartate binding site [chemical binding]; other site 765963003322 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 765963003323 putative allosteric regulatory site; other site 765963003324 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 765963003325 putative allosteric regulatory residue; other site 765963003326 DNA replication regulator; Region: HobA; pfam12163 765963003327 DNA polymerase III subunit delta'; Validated; Region: PRK08485 765963003328 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 765963003329 dihydropteroate synthase; Region: DHPS; TIGR01496 765963003330 substrate binding pocket [chemical binding]; other site 765963003331 dimer interface [polypeptide binding]; other site 765963003332 inhibitor binding site; inhibition site 765963003333 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 765963003334 EamA-like transporter family; Region: EamA; pfam00892 765963003335 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 765963003336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 765963003337 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 765963003338 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 765963003339 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 765963003340 catalytic site [active] 765963003341 subunit interface [polypeptide binding]; other site 765963003342 formamidase; Provisional; Region: amiF; PRK13287 765963003343 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 765963003344 multimer interface [polypeptide binding]; other site 765963003345 active site 765963003346 catalytic triad [active] 765963003347 dimer interface [polypeptide binding]; other site 765963003348 Maf-like protein; Reviewed; Region: PRK04056 765963003349 putative active site [active] 765963003350 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 765963003351 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 765963003352 motif 1; other site 765963003353 active site 765963003354 motif 2; other site 765963003355 motif 3; other site 765963003356 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 765963003357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 765963003358 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003359 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 765963003360 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 765963003361 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 765963003362 dimer interface [polypeptide binding]; other site 765963003363 ssDNA binding site [nucleotide binding]; other site 765963003364 tetramer (dimer of dimers) interface [polypeptide binding]; other site 765963003365 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 765963003366 DNA polymerase III subunit delta; Validated; Region: PRK08487 765963003367 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 765963003368 Exoribonuclease R [Transcription]; Region: VacB; COG0557 765963003369 RNB domain; Region: RNB; pfam00773 765963003370 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 765963003371 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 765963003372 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 765963003373 shikimate binding site; other site 765963003374 NAD(P) binding site [chemical binding]; other site 765963003375 Bacterial SH3 domain; Region: SH3_3; pfam08239 765963003376 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 765963003377 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 765963003378 dimer interface [polypeptide binding]; other site 765963003379 conserved gate region; other site 765963003380 putative PBP binding loops; other site 765963003381 ABC-ATPase subunit interface; other site 765963003382 potential frameshift: common BLAST hit: gi|210135411|ref|YP_002301850.1| oligopeptide ABC transporter periplasmic oligopeptide-binding 765963003383 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 765963003384 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 765963003385 active site 765963003386 HIGH motif; other site 765963003387 dimer interface [polypeptide binding]; other site 765963003388 KMSKS motif; other site 765963003389 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 765963003390 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 765963003391 S-adenosylmethionine binding site [chemical binding]; other site 765963003392 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 765963003393 ribosome recycling factor; Reviewed; Region: frr; PRK00083 765963003394 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 765963003395 hinge region; other site 765963003396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 765963003397 active site 765963003398 RDD family; Region: RDD; pfam06271 765963003399 NAD-dependent deacetylase; Provisional; Region: PRK00481 765963003400 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 765963003401 NAD+ binding site [chemical binding]; other site 765963003402 substrate binding site [chemical binding]; other site 765963003403 Zn binding site [ion binding]; other site 765963003404 NADH dehydrogenase subunit A; Validated; Region: PRK08489 765963003405 NADH dehydrogenase subunit B; Validated; Region: PRK06411 765963003406 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 765963003407 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 765963003408 NADH dehydrogenase subunit D; Validated; Region: PRK06075 765963003409 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 765963003410 NADH dehydrogenase subunit G; Validated; Region: PRK08493 765963003411 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 765963003412 catalytic loop [active] 765963003413 iron binding site [ion binding]; other site 765963003414 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 765963003415 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 765963003416 molybdopterin cofactor binding site; other site 765963003417 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 765963003418 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 765963003419 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 765963003420 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 765963003421 4Fe-4S binding domain; Region: Fer4; cl02805 765963003422 4Fe-4S binding domain; Region: Fer4; pfam00037 765963003423 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 765963003424 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 765963003425 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 765963003426 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 765963003427 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 765963003428 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 765963003429 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 765963003430 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 765963003431 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 765963003432 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 765963003433 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 765963003434 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 765963003435 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 765963003436 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 765963003437 active site 765963003438 substrate binding site [chemical binding]; other site 765963003439 metal binding site [ion binding]; metal-binding site 765963003440 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 765963003441 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 765963003442 substrate binding site [chemical binding]; other site 765963003443 active site 765963003444 catalytic residues [active] 765963003445 heterodimer interface [polypeptide binding]; other site 765963003446 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 765963003447 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 765963003448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 765963003449 catalytic residue [active] 765963003450 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 765963003451 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 765963003452 active site 765963003453 ribulose/triose binding site [chemical binding]; other site 765963003454 phosphate binding site [ion binding]; other site 765963003455 substrate (anthranilate) binding pocket [chemical binding]; other site 765963003456 product (indole) binding pocket [chemical binding]; other site 765963003457 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 765963003458 active site 765963003459 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 765963003460 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 765963003461 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 765963003462 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 765963003463 Glutamine amidotransferase class-I; Region: GATase; pfam00117 765963003464 glutamine binding [chemical binding]; other site 765963003465 catalytic triad [active] 765963003466 anthranilate synthase component I, proteobacterial subset; Region: trpE_proteo; TIGR00565 765963003467 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 765963003468 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 765963003469 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963003470 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 765963003471 putative active site [active] 765963003472 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 765963003473 active site 765963003474 motif I; other site 765963003475 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 765963003476 motif II; other site 765963003477 Uncharacterized conserved protein [Function unknown]; Region: COG2353 765963003478 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 765963003479 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 765963003480 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 765963003481 Thiamine pyrophosphokinase; Region: TPK; cd07995 765963003482 active site 765963003483 dimerization interface [polypeptide binding]; other site 765963003484 thiamine binding site [chemical binding]; other site 765963003485 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 765963003486 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 765963003487 alphaNTD homodimer interface [polypeptide binding]; other site 765963003488 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 765963003489 alphaNTD - beta interaction site [polypeptide binding]; other site 765963003490 alphaNTD - beta' interaction site [polypeptide binding]; other site 765963003491 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 765963003492 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 765963003493 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 765963003494 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 765963003495 RNA binding surface [nucleotide binding]; other site 765963003496 30S ribosomal protein S11; Validated; Region: PRK05309 765963003497 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 765963003498 30S ribosomal protein S13; Region: bact_S13; TIGR03631 765963003499 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 765963003500 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 765963003501 rRNA binding site [nucleotide binding]; other site 765963003502 predicted 30S ribosome binding site; other site 765963003503 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 765963003504 active site 765963003505 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 765963003506 SecY translocase; Region: SecY; pfam00344 765963003507 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 765963003508 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 765963003509 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 765963003510 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 765963003511 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 765963003512 23S rRNA interface [nucleotide binding]; other site 765963003513 5S rRNA interface [nucleotide binding]; other site 765963003514 L27 interface [polypeptide binding]; other site 765963003515 L5 interface [polypeptide binding]; other site 765963003516 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 765963003517 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 765963003518 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 765963003519 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 765963003520 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 765963003521 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 765963003522 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 765963003523 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 765963003524 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 765963003525 RNA binding site [nucleotide binding]; other site 765963003526 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 765963003527 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 765963003528 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 765963003529 putative translocon interaction site; other site 765963003530 23S rRNA interface [nucleotide binding]; other site 765963003531 signal recognition particle (SRP54) interaction site; other site 765963003532 L23 interface [polypeptide binding]; other site 765963003533 trigger factor interaction site; other site 765963003534 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 765963003535 23S rRNA interface [nucleotide binding]; other site 765963003536 5S rRNA interface [nucleotide binding]; other site 765963003537 putative antibiotic binding site [chemical binding]; other site 765963003538 L25 interface [polypeptide binding]; other site 765963003539 L27 interface [polypeptide binding]; other site 765963003540 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 765963003541 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 765963003542 G-X-X-G motif; other site 765963003543 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 765963003544 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 765963003545 putative translocon binding site; other site 765963003546 protein-rRNA interface [nucleotide binding]; other site 765963003547 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 765963003548 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 765963003549 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 765963003550 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 765963003551 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 765963003552 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 765963003553 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 765963003554 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 765963003555 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 765963003556 AAA domain; Region: AAA_14; pfam13173 765963003557 Helix-turn-helix domain; Region: HTH_36; pfam13730 765963003558 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 765963003559 RNA/DNA hybrid binding site [nucleotide binding]; other site 765963003560 active site 765963003561 fumarate hydratase; Reviewed; Region: fumC; PRK00485 765963003562 Class II fumarases; Region: Fumarase_classII; cd01362 765963003563 active site 765963003564 tetramer interface [polypeptide binding]; other site 765963003565 YtkA-like; Region: YtkA; pfam13115 765963003566 Outer membrane efflux protein; Region: OEP; pfam02321 765963003567 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 765963003568 HlyD family secretion protein; Region: HlyD_3; pfam13437 765963003569 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 765963003570 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 765963003571 AzlC protein; Region: AzlC; cl00570 765963003572 chaperone protein DnaJ; Provisional; Region: PRK14288 765963003573 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 765963003574 HSP70 interaction site [polypeptide binding]; other site 765963003575 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 765963003576 substrate binding site [polypeptide binding]; other site 765963003577 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 765963003578 Zn binding sites [ion binding]; other site 765963003579 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 765963003580 dimer interface [polypeptide binding]; other site 765963003581 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 765963003582 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 765963003583 Ligand Binding Site [chemical binding]; other site 765963003584 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 765963003585 HSP70 interaction site [polypeptide binding]; other site 765963003586 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 765963003587 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 765963003588 active site 765963003589 (T/H)XGH motif; other site 765963003590 nickel responsive regulator; Provisional; Region: PRK00630 765963003591 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 765963003592 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 765963003593 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 765963003594 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 765963003595 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 765963003596 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 765963003597 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 765963003598 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003599 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 765963003600 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 765963003601 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 765963003602 Cl binding site [ion binding]; other site 765963003603 oligomer interface [polypeptide binding]; other site 765963003604 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 765963003605 Phosphoglycerate kinase; Region: PGK; pfam00162 765963003606 substrate binding site [chemical binding]; other site 765963003607 hinge regions; other site 765963003608 ADP binding site [chemical binding]; other site 765963003609 catalytic site [active] 765963003610 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 765963003611 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 765963003612 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 765963003613 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 765963003614 ligand binding site [chemical binding]; other site 765963003615 active site 765963003616 UGI interface [polypeptide binding]; other site 765963003617 catalytic site [active] 765963003618 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 765963003619 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 765963003620 putative acyl-acceptor binding pocket; other site 765963003621 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 765963003622 C-terminal peptidase (prc); Region: prc; TIGR00225 765963003623 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 765963003624 protein binding site [polypeptide binding]; other site 765963003625 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 765963003626 Catalytic dyad [active] 765963003627 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963003628 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 765963003629 Predicted helicase [General function prediction only]; Region: COG4889 765963003630 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 765963003631 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 765963003632 dimerization interface [polypeptide binding]; other site 765963003633 active site 765963003634 Quinolinate synthetase A protein; Region: NadA; cl00420 765963003635 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 765963003636 prenyltransferase; Reviewed; Region: ubiA; PRK12874 765963003637 UbiA prenyltransferase family; Region: UbiA; pfam01040 765963003638 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 765963003639 Competence protein; Region: Competence; pfam03772 765963003640 replicative DNA helicase; Provisional; Region: PRK08506 765963003641 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 765963003642 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 765963003643 Walker A motif; other site 765963003644 ATP binding site [chemical binding]; other site 765963003645 Walker B motif; other site 765963003646 DNA binding loops [nucleotide binding] 765963003647 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 765963003648 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 765963003649 putative substrate binding site [chemical binding]; other site 765963003650 putative ATP binding site [chemical binding]; other site 765963003651 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 765963003652 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 765963003653 dimer interface [polypeptide binding]; other site 765963003654 phosphorylation site [posttranslational modification] 765963003655 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 765963003656 ATP binding site [chemical binding]; other site 765963003657 Mg2+ binding site [ion binding]; other site 765963003658 G-X-G motif; other site 765963003659 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765963003660 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 765963003661 active site 765963003662 phosphorylation site [posttranslational modification] 765963003663 intermolecular recognition site; other site 765963003664 dimerization interface [polypeptide binding]; other site 765963003665 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 765963003666 DNA binding site [nucleotide binding] 765963003667 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963003668 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963003669 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 765963003670 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963003671 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963003672 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 765963003673 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963003674 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 765963003675 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 765963003676 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 765963003677 rod shape-determining protein MreC; Region: MreC; pfam04085 765963003678 rod shape-determining protein MreB; Provisional; Region: PRK13927 765963003679 MreB and similar proteins; Region: MreB_like; cd10225 765963003680 nucleotide binding site [chemical binding]; other site 765963003681 Mg binding site [ion binding]; other site 765963003682 putative protofilament interaction site [polypeptide binding]; other site 765963003683 RodZ interaction site [polypeptide binding]; other site 765963003684 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 765963003685 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 765963003686 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 765963003687 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 765963003688 Walker A motif; other site 765963003689 ATP binding site [chemical binding]; other site 765963003690 Walker B motif; other site 765963003691 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 765963003692 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 765963003693 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 765963003694 active site 765963003695 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 765963003696 flagellar assembly protein FliW; Provisional; Region: PRK13282 765963003697 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 765963003698 ATP-dependent protease La; Region: lon; TIGR00763 765963003699 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 765963003700 Walker A motif; other site 765963003701 ATP binding site [chemical binding]; other site 765963003702 Walker B motif; other site 765963003703 arginine finger; other site 765963003704 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 765963003705 prephenate dehydrogenase; Validated; Region: PRK08507 765963003706 Prephenate dehydrogenase; Region: PDH; pfam02153 765963003707 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 765963003708 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 765963003709 active site 765963003710 substrate binding site [chemical binding]; other site 765963003711 Mg2+ binding site [ion binding]; other site 765963003712 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 765963003713 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963003714 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963003715 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963003716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 765963003717 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 765963003718 ATP binding site [chemical binding]; other site 765963003719 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 765963003720 putative Mg++ binding site [ion binding]; other site 765963003721 biotin synthase; Provisional; Region: PRK08508 765963003722 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 765963003723 FeS/SAM binding site; other site 765963003724 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 765963003725 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 765963003726 Uncharacterized conserved protein [Function unknown]; Region: COG1479 765963003727 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963003728 Protein of unknown function DUF262; Region: DUF262; pfam03235 765963003729 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 765963003730 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 765963003731 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 765963003732 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 765963003733 IPP transferase; Region: IPPT; pfam01715 765963003734 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963003735 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 765963003736 Ligand binding site; other site 765963003737 metal-binding site 765963003738 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 765963003739 DNA binding site [nucleotide binding] 765963003740 substrate interaction site [chemical binding]; other site 765963003741 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 765963003742 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 765963003743 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 765963003744 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 765963003745 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 765963003746 Walker A motif/ATP binding site; other site 765963003747 Walker B motif; other site 765963003748 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 765963003749 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 765963003750 ATP binding site [chemical binding]; other site 765963003751 Walker A motif; other site 765963003752 hexamer interface [polypeptide binding]; other site 765963003753 Walker B motif; other site 765963003754 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 765963003755 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765963003756 active site 765963003757 HIGH motif; other site 765963003758 nucleotide binding site [chemical binding]; other site 765963003759 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 765963003760 active site 765963003761 KMSKS motif; other site 765963003762 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 765963003763 tRNA binding surface [nucleotide binding]; other site 765963003764 anticodon binding site; other site 765963003765 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 765963003766 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 765963003767 RNA binding surface [nucleotide binding]; other site 765963003768 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 765963003769 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 765963003770 FeS/SAM binding site; other site 765963003771 KpsF/GutQ family protein; Region: kpsF; TIGR00393 765963003772 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 765963003773 putative active site [active] 765963003774 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 765963003775 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 765963003776 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 765963003777 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 765963003778 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 765963003779 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 765963003780 S-adenosylmethionine binding site [chemical binding]; other site 765963003781 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963003782 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 765963003783 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963003784 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 765963003785 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 765963003786 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 765963003787 active site 765963003788 substrate binding site [chemical binding]; other site 765963003789 cosubstrate binding site; other site 765963003790 catalytic site [active] 765963003791 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 765963003792 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 765963003793 tandem repeat interface [polypeptide binding]; other site 765963003794 oligomer interface [polypeptide binding]; other site 765963003795 active site residues [active] 765963003796 TIR domain; Region: TIR_2; pfam13676 765963003797 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 765963003798 active site 765963003799 carbon storage regulator; Provisional; Region: PRK00568 765963003800 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 765963003801 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 765963003802 SmpB-tmRNA interface; other site 765963003803 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 765963003804 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 765963003805 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 765963003806 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 765963003807 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 765963003808 hypothetical protein; Provisional; Region: PRK14374 765963003809 membrane protein insertase; Provisional; Region: PRK01318 765963003810 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 765963003811 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 765963003812 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 765963003813 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 765963003814 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 765963003815 GTP/Mg2+ binding site [chemical binding]; other site 765963003816 G4 box; other site 765963003817 G5 box; other site 765963003818 trmE is a tRNA modification GTPase; Region: trmE; cd04164 765963003819 G1 box; other site 765963003820 G1 box; other site 765963003821 GTP/Mg2+ binding site [chemical binding]; other site 765963003822 Switch I region; other site 765963003823 Switch I region; other site 765963003824 G2 box; other site 765963003825 G2 box; other site 765963003826 Switch II region; other site 765963003827 G3 box; other site 765963003828 G3 box; other site 765963003829 Switch II region; other site 765963003830 G4 box; other site 765963003831 G5 box; other site 765963003832 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 765963003833 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003834 LPP20 lipoprotein; Region: LPP20; pfam02169 765963003835 LPP20 lipoprotein precursor; Region: LPP20; pfam02169 765963003836 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 765963003837 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 765963003838 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 765963003839 catalytic residues [active] 765963003840 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 765963003841 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 765963003842 RNA binding surface [nucleotide binding]; other site 765963003843 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 765963003844 active site 765963003845 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 765963003846 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 765963003847 active site 765963003848 PHP Thumb interface [polypeptide binding]; other site 765963003849 metal binding site [ion binding]; metal-binding site 765963003850 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 765963003851 generic binding surface I; other site 765963003852 generic binding surface II; other site 765963003853 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 765963003854 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 765963003855 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 765963003856 mce related protein; Region: MCE; pfam02470 765963003857 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 765963003858 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 765963003859 Walker A/P-loop; other site 765963003860 ATP binding site [chemical binding]; other site 765963003861 Q-loop/lid; other site 765963003862 ABC transporter signature motif; other site 765963003863 Walker B; other site 765963003864 D-loop; other site 765963003865 H-loop/switch region; other site 765963003866 conserved hypothetical integral membrane protein; Region: TIGR00056 765963003867 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 765963003868 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003869 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 765963003870 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 765963003871 homodimer interface [polypeptide binding]; other site 765963003872 substrate-cofactor binding pocket; other site 765963003873 catalytic residue [active] 765963003874 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003875 DNA polymerase I; Region: pola; TIGR00593 765963003876 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 765963003877 active site 765963003878 metal binding site 1 [ion binding]; metal-binding site 765963003879 putative 5' ssDNA interaction site; other site 765963003880 metal binding site 3; metal-binding site 765963003881 metal binding site 2 [ion binding]; metal-binding site 765963003882 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 765963003883 putative DNA binding site [nucleotide binding]; other site 765963003884 putative metal binding site [ion binding]; other site 765963003885 3'-5' exonuclease; Region: 35EXOc; smart00474 765963003886 active site 765963003887 substrate binding site [chemical binding]; other site 765963003888 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 765963003889 active site 765963003890 DNA binding site [nucleotide binding] 765963003891 catalytic site [active] 765963003892 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 765963003893 non-specific DNA binding site [nucleotide binding]; other site 765963003894 salt bridge; other site 765963003895 sequence-specific DNA binding site [nucleotide binding]; other site 765963003896 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 765963003897 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 765963003898 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963003899 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 765963003900 thymidylate kinase; Validated; Region: tmk; PRK00698 765963003901 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 765963003902 TMP-binding site; other site 765963003903 ATP-binding site [chemical binding]; other site 765963003904 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 765963003905 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 765963003906 active site 765963003907 (T/H)XGH motif; other site 765963003908 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 765963003909 Flavoprotein; Region: Flavoprotein; pfam02441 765963003910 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 765963003911 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 765963003912 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 765963003913 Part of AAA domain; Region: AAA_19; pfam13245 765963003914 Family description; Region: UvrD_C_2; pfam13538 765963003915 TPR repeat; Region: TPR_11; pfam13414 765963003916 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 765963003917 TPR motif; other site 765963003918 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 765963003919 binding surface 765963003920 TPR motif; other site 765963003921 seryl-tRNA synthetase; Provisional; Region: PRK05431 765963003922 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 765963003923 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 765963003924 dimer interface [polypeptide binding]; other site 765963003925 active site 765963003926 motif 1; other site 765963003927 motif 2; other site 765963003928 motif 3; other site 765963003929 Predicted amidohydrolase [General function prediction only]; Region: COG0388 765963003930 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 765963003931 active site 765963003932 catalytic triad [active] 765963003933 dimer interface [polypeptide binding]; other site 765963003934 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 765963003935 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 765963003936 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 765963003937 S-adenosylmethionine binding site [chemical binding]; other site 765963003938 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 765963003939 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 765963003940 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 765963003941 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 765963003942 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 765963003943 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 765963003944 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 765963003945 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 765963003946 HlyD family secretion protein; Region: HlyD_3; pfam13437 765963003947 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 765963003948 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 765963003949 Domain of unknown function DUF21; Region: DUF21; pfam01595 765963003950 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 765963003951 Transporter associated domain; Region: CorC_HlyC; smart01091 765963003952 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 765963003953 Phosphate transporter family; Region: PHO4; pfam01384 765963003954 NifU-like domain; Region: NifU; pfam01106 765963003955 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 765963003956 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765963003957 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765963003958 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 765963003959 putative active site [active] 765963003960 transaldolase; Provisional; Region: PRK03903 765963003961 catalytic residue [active] 765963003962 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 765963003963 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 765963003964 5S rRNA interface [nucleotide binding]; other site 765963003965 CTC domain interface [polypeptide binding]; other site 765963003966 L16 interface [polypeptide binding]; other site 765963003967 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 765963003968 putative active site [active] 765963003969 catalytic residue [active] 765963003970 Predicted permeases [General function prediction only]; Region: COG0795 765963003971 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 765963003972 PLD-like domain; Region: PLDc_2; pfam13091 765963003973 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 765963003974 homodimer interface [polypeptide binding]; other site 765963003975 putative active site [active] 765963003976 catalytic site [active] 765963003977 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 765963003978 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963003979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 765963003980 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 765963003981 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 765963003982 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 765963003983 metal-binding site [ion binding] 765963003984 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765963003985 Soluble P-type ATPase [General function prediction only]; Region: COG4087 765963003986 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 765963003987 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 765963003988 S-adenosylmethionine binding site [chemical binding]; other site 765963003989 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 765963003990 catalytic motif [active] 765963003991 Zn binding site [ion binding]; other site 765963003992 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 765963003993 RibD C-terminal domain; Region: RibD_C; cl17279 765963003994 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 765963003995 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 765963003996 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 765963003997 NAD(P) binding pocket [chemical binding]; other site 765963003998 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 765963003999 4Fe-4S binding domain; Region: Fer4_5; pfam12801 765963004000 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 765963004001 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 765963004002 FolB domain; Region: folB_dom; TIGR00526 765963004003 active site 765963004004 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 765963004005 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 765963004006 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 765963004007 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 765963004008 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 765963004009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 765963004010 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 765963004011 NusA N-terminal domain; Region: NusA_N; pfam08529 765963004012 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 765963004013 RNA binding site [nucleotide binding]; other site 765963004014 homodimer interface [polypeptide binding]; other site 765963004015 NusA-like KH domain; Region: KH_5; pfam13184 765963004016 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 765963004017 G-X-X-G motif; other site 765963004018 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 765963004019 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 765963004020 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 765963004021 AAA domain; Region: AAA_13; pfam13166 765963004022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963004023 ABC transporter signature motif; other site 765963004024 Walker B; other site 765963004025 D-loop; other site 765963004026 H-loop/switch region; other site 765963004027 Restriction endonuclease [Defense mechanisms]; Region: COG3587 765963004028 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 765963004029 ATP binding site [chemical binding]; other site 765963004030 putative Mg++ binding site [ion binding]; other site 765963004031 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765963004032 DNA methylase; Region: N6_N4_Mtase; pfam01555 765963004033 DNA methylase; Region: N6_N4_Mtase; cl17433 765963004034 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 765963004035 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 765963004036 ssDNA binding site; other site 765963004037 generic binding surface II; other site 765963004038 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 765963004039 ATP binding site [chemical binding]; other site 765963004040 putative Mg++ binding site [ion binding]; other site 765963004041 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 765963004042 nucleotide binding region [chemical binding]; other site 765963004043 ATP-binding site [chemical binding]; other site 765963004044 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963004045 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 765963004046 active site 765963004047 putative catalytic site [active] 765963004048 DNA binding site [nucleotide binding] 765963004049 putative phosphate binding site [ion binding]; other site 765963004050 metal binding site A [ion binding]; metal-binding site 765963004051 AP binding site [nucleotide binding]; other site 765963004052 metal binding site B [ion binding]; metal-binding site 765963004053 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 765963004054 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 765963004055 Walker A motif; other site 765963004056 ATP binding site [chemical binding]; other site 765963004057 Walker B motif; other site 765963004058 arginine finger; other site 765963004059 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 765963004060 DnaA box-binding interface [nucleotide binding]; other site 765963004061 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 765963004062 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 765963004063 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 765963004064 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 765963004065 glutaminase active site [active] 765963004066 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 765963004067 dimer interface [polypeptide binding]; other site 765963004068 active site 765963004069 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 765963004070 dimer interface [polypeptide binding]; other site 765963004071 active site 765963004072 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 765963004073 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963004074 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 765963004075 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 765963004076 Abi-like protein; Region: Abi_2; cl01988 765963004077 HsdM N-terminal domain; Region: HsdM_N; pfam12161 765963004078 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 765963004079 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 765963004080 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 765963004081 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 765963004082 ATP binding site [chemical binding]; other site 765963004083 putative Mg++ binding site [ion binding]; other site 765963004084 Protein of unknown function DUF45; Region: DUF45; pfam01863 765963004085 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 765963004086 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 765963004087 N-terminal plug; other site 765963004088 ligand-binding site [chemical binding]; other site 765963004089 Arginase family; Region: Arginase; cd09989 765963004090 active site 765963004091 Mn binding site [ion binding]; other site 765963004092 oligomer interface [polypeptide binding]; other site 765963004093 S-methylmethionine transporter; Provisional; Region: PRK11387 765963004094 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 765963004095 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 765963004096 hexamer interface [polypeptide binding]; other site 765963004097 ligand binding site [chemical binding]; other site 765963004098 putative active site [active] 765963004099 NAD(P) binding site [chemical binding]; other site 765963004100 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 765963004101 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 765963004102 ATP-NAD kinase; Region: NAD_kinase; pfam01513 765963004103 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 765963004104 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 765963004105 Walker A/P-loop; other site 765963004106 ATP binding site [chemical binding]; other site 765963004107 Q-loop/lid; other site 765963004108 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 765963004109 ABC transporter signature motif; other site 765963004110 Walker B; other site 765963004111 D-loop; other site 765963004112 H-loop/switch region; other site 765963004113 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 765963004114 Domain of unknown function (DUF814); Region: DUF814; pfam05670 765963004115 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 765963004116 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 765963004117 active site 765963004118 catalytic site [active] 765963004119 substrate binding site [chemical binding]; other site 765963004120 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 765963004121 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 765963004122 substrate binding site [chemical binding]; other site 765963004123 hexamer interface [polypeptide binding]; other site 765963004124 metal binding site [ion binding]; metal-binding site 765963004125 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 765963004126 active site 765963004127 Methyltransferase domain; Region: Methyltransf_26; pfam13659 765963004128 potential frameshift: common BLAST hit: gi|210135543|ref|YP_002301982.1| relaxase 765963004129 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 765963004130 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 765963004131 active site 765963004132 Int/Topo IB signature motif; other site 765963004133 catalytic residues [active] 765963004134 DNA binding site [nucleotide binding] 765963004135 Fic family protein [Function unknown]; Region: COG3177 765963004136 Fic/DOC family; Region: Fic; pfam02661 765963004137 Toprim-like; Region: Toprim_2; pfam13155 765963004138 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 765963004139 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 765963004140 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 765963004141 Walker A motif; other site 765963004142 ATP binding site [chemical binding]; other site 765963004143 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 765963004144 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 765963004145 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 765963004146 active site 765963004147 interdomain interaction site; other site 765963004148 putative metal-binding site [ion binding]; other site 765963004149 nucleotide binding site [chemical binding]; other site 765963004150 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 765963004151 domain I; other site 765963004152 DNA binding groove [nucleotide binding] 765963004153 phosphate binding site [ion binding]; other site 765963004154 domain II; other site 765963004155 domain III; other site 765963004156 nucleotide binding site [chemical binding]; other site 765963004157 catalytic site [active] 765963004158 domain IV; other site 765963004159 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 765963004160 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 765963004161 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 765963004162 VirB7 interaction site; other site 765963004163 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 765963004164 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 765963004165 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 765963004166 Walker A motif; other site 765963004167 hexamer interface [polypeptide binding]; other site 765963004168 ATP binding site [chemical binding]; other site 765963004169 Walker B motif; other site 765963004170 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 765963004171 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 765963004172 Walker A motif; other site 765963004173 ATP binding site [chemical binding]; other site 765963004174 Walker B motif; other site 765963004175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 765963004176 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 765963004177 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 765963004178 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 765963004179 P-loop; other site 765963004180 Magnesium ion binding site [ion binding]; other site 765963004181 potential frameshift: common BLAST hit: gi|208434933|ref|YP_002266599.1| adenine specific DNA methyltransferase 765963004182 potential frameshift: common BLAST hit: gi|208434936|ref|YP_002266602.1| periplasmic competence protein-like protein 765963004183 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 765963004184 potential frameshift: common BLAST hit: gi|15612016|ref|NP_223668.1| integrase/recombinase (XERCD family) 765963004185 elongation factor Ts; Provisional; Region: tsf; PRK09377 765963004186 UBA/TS-N domain; Region: UBA; pfam00627 765963004187 Elongation factor TS; Region: EF_TS; pfam00889 765963004188 Elongation factor TS; Region: EF_TS; pfam00889 765963004189 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 765963004190 rRNA interaction site [nucleotide binding]; other site 765963004191 S8 interaction site; other site 765963004192 putative laminin-1 binding site; other site 765963004193 putative recombination protein RecB; Provisional; Region: PRK13909 765963004194 Family description; Region: UvrD_C_2; pfam13538 765963004195 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 765963004196 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 765963004197 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 765963004198 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 765963004199 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 765963004200 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 765963004201 Protein export membrane protein; Region: SecD_SecF; pfam02355 765963004202 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 765963004203 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 765963004204 HIGH motif; other site 765963004205 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 765963004206 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 765963004207 active site 765963004208 KMSKS motif; other site 765963004209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 765963004210 tRNA binding surface [nucleotide binding]; other site 765963004211 Lipopolysaccharide-assembly; Region: LptE; pfam04390 765963004212 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 765963004213 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765963004214 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765963004215 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 765963004216 Peptidase family M23; Region: Peptidase_M23; pfam01551 765963004217 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 765963004218 Peptidase family M23; Region: Peptidase_M23; pfam01551 765963004219 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 765963004220 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 765963004221 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 765963004222 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 765963004223 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 765963004224 ATP binding site [chemical binding]; other site 765963004225 putative Mg++ binding site [ion binding]; other site 765963004226 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 765963004227 nucleotide binding region [chemical binding]; other site 765963004228 ATP-binding site [chemical binding]; other site 765963004229 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 765963004230 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 765963004231 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 765963004232 iron-sulfur cluster [ion binding]; other site 765963004233 [2Fe-2S] cluster binding site [ion binding]; other site 765963004234 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 765963004235 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 765963004236 intrachain domain interface; other site 765963004237 interchain domain interface [polypeptide binding]; other site 765963004238 heme bH binding site [chemical binding]; other site 765963004239 Qi binding site; other site 765963004240 heme bL binding site [chemical binding]; other site 765963004241 Qo binding site; other site 765963004242 interchain domain interface [polypeptide binding]; other site 765963004243 intrachain domain interface; other site 765963004244 Qi binding site; other site 765963004245 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 765963004246 Qo binding site; other site 765963004247 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 765963004248 Cytochrome c; Region: Cytochrom_C; pfam00034 765963004249 Cytochrome c; Region: Cytochrom_C; cl11414 765963004250 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 765963004251 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 765963004252 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 765963004253 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 765963004254 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 765963004255 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 765963004256 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 765963004257 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 765963004258 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 765963004259 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765963004260 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 765963004261 putative ligand binding site [chemical binding]; other site 765963004262 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765963004263 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 765963004264 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 765963004265 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 765963004266 dimer interface [polypeptide binding]; other site 765963004267 decamer (pentamer of dimers) interface [polypeptide binding]; other site 765963004268 catalytic triad [active] 765963004269 peroxidatic and resolving cysteines [active] 765963004270 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 765963004271 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 765963004272 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 765963004273 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 765963004274 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 765963004275 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 765963004276 G1 box; other site 765963004277 GTP/Mg2+ binding site [chemical binding]; other site 765963004278 Switch I region; other site 765963004279 G2 box; other site 765963004280 G3 box; other site 765963004281 Switch II region; other site 765963004282 G4 box; other site 765963004283 G5 box; other site 765963004284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 765963004285 OstA-like protein; Region: OstA; pfam03968 765963004286 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 765963004287 motif II; other site 765963004288 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 765963004289 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 765963004290 Sporulation related domain; Region: SPOR; pfam05036 765963004291 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 765963004292 N-acetyl-D-glucosamine binding site [chemical binding]; other site 765963004293 catalytic residue [active] 765963004294 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 765963004295 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 765963004296 active site 765963004297 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 765963004298 Lumazine binding domain; Region: Lum_binding; pfam00677 765963004299 Lumazine binding domain; Region: Lum_binding; pfam00677 765963004300 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 765963004301 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 765963004302 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 765963004303 Walker A/P-loop; other site 765963004304 ATP binding site [chemical binding]; other site 765963004305 Q-loop/lid; other site 765963004306 ABC transporter signature motif; other site 765963004307 Walker B; other site 765963004308 D-loop; other site 765963004309 H-loop/switch region; other site 765963004310 NIL domain; Region: NIL; pfam09383 765963004311 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 765963004312 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 765963004313 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 765963004314 active site 765963004315 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 765963004316 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 765963004317 active site 765963004318 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 765963004319 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 765963004320 Mg++ binding site [ion binding]; other site 765963004321 putative catalytic motif [active] 765963004322 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 765963004323 active site 765963004324 hydrophilic channel; other site 765963004325 dimerization interface [polypeptide binding]; other site 765963004326 catalytic residues [active] 765963004327 active site lid [active] 765963004328 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 765963004329 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 765963004330 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 765963004331 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 765963004332 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 765963004333 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 765963004334 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 765963004335 hypothetical protein; Provisional; Region: PRK10236 765963004336 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 765963004337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 765963004338 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 765963004339 Fic family protein [Function unknown]; Region: COG3177 765963004340 Fic/DOC family; Region: Fic; pfam02661 765963004341 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 765963004342 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 765963004343 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 765963004344 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765963004345 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 765963004346 Walker A/P-loop; other site 765963004347 ATP binding site [chemical binding]; other site 765963004348 Q-loop/lid; other site 765963004349 ABC transporter signature motif; other site 765963004350 Walker B; other site 765963004351 D-loop; other site 765963004352 H-loop/switch region; other site 765963004353 Domain of unknown function (DUF4135); Region: DUF4135; pfam13575